--- _id: '10573' abstract: - lang: eng text: How tissues acquire complex shapes is a fundamental question in biology and regenerative medicine. Zebrafish semicircular canals form from invaginations in the otic epithelium (buds) that extend and fuse to form the hubs of each canal. We find that conventional actomyosin-driven behaviors are not required. Instead, local secretion of hyaluronan, made by the enzymes uridine 5′-diphosphate dehydrogenase (ugdh) and hyaluronan synthase 3 (has3), drives canal morphogenesis. Charged hyaluronate polymers osmotically swell with water and generate isotropic extracellular pressure to deform the overlying epithelium into buds. The mechanical anisotropy needed to shape buds into tubes is conferred by a polarized distribution of actomyosin and E-cadherin-rich membrane tethers, which we term cytocinches. Most work on tissue morphogenesis ascribes actomyosin contractility as the driving force, while the extracellular matrix shapes tissues through differential stiffness. Our work inverts this expectation. Hyaluronate pressure shaped by anisotropic tissue stiffness may be a widespread mechanism for powering morphological change in organogenesis and tissue engineering. acknowledgement: We thank Ian Swinburne, Sandy Nandagopal, and Toru Kawanishi for support, discussions, and reagents. We thank Vanessa Barone, Joseph Nasser, and members of the Megason lab for useful comments on the manuscript and general feedback. We are grateful to the Heisenberg and Knaut labs for transgenic fish. Diagrams on the right in the graphical abstract were created using BioRender. This work was supported by NIH R01DC015478 and NIH R01GM107733 to S.G.M. A.M. was supported by Human Frontiers Science Program LTF and NIH K99HD098918. article_processing_charge: No article_type: original author: - first_name: Akankshi full_name: Munjal, Akankshi last_name: Munjal - first_name: Edouard B full_name: Hannezo, Edouard B id: 3A9DB764-F248-11E8-B48F-1D18A9856A87 last_name: Hannezo orcid: 0000-0001-6005-1561 - first_name: Tony Y.C. full_name: Tsai, Tony Y.C. last_name: Tsai - first_name: Timothy J. full_name: Mitchison, Timothy J. last_name: Mitchison - first_name: Sean G. full_name: Megason, Sean G. last_name: Megason citation: ama: Munjal A, Hannezo EB, Tsai TYC, Mitchison TJ, Megason SG. Extracellular hyaluronate pressure shaped by cellular tethers drives tissue morphogenesis. Cell. 2021;184(26):6313-6325.e18. doi:10.1016/j.cell.2021.11.025 apa: Munjal, A., Hannezo, E. B., Tsai, T. Y. C., Mitchison, T. J., & Megason, S. G. (2021). Extracellular hyaluronate pressure shaped by cellular tethers drives tissue morphogenesis. Cell. Elsevier ; Cell Press. https://doi.org/10.1016/j.cell.2021.11.025 chicago: Munjal, Akankshi, Edouard B Hannezo, Tony Y.C. Tsai, Timothy J. Mitchison, and Sean G. Megason. “Extracellular Hyaluronate Pressure Shaped by Cellular Tethers Drives Tissue Morphogenesis.” Cell. Elsevier ; Cell Press, 2021. https://doi.org/10.1016/j.cell.2021.11.025. ieee: A. Munjal, E. B. Hannezo, T. Y. C. Tsai, T. J. Mitchison, and S. G. Megason, “Extracellular hyaluronate pressure shaped by cellular tethers drives tissue morphogenesis,” Cell, vol. 184, no. 26. Elsevier ; Cell Press, p. 6313–6325.e18, 2021. ista: Munjal A, Hannezo EB, Tsai TYC, Mitchison TJ, Megason SG. 2021. Extracellular hyaluronate pressure shaped by cellular tethers drives tissue morphogenesis. Cell. 184(26), 6313–6325.e18. mla: Munjal, Akankshi, et al. “Extracellular Hyaluronate Pressure Shaped by Cellular Tethers Drives Tissue Morphogenesis.” Cell, vol. 184, no. 26, Elsevier ; Cell Press, 2021, p. 6313–6325.e18, doi:10.1016/j.cell.2021.11.025. short: A. Munjal, E.B. Hannezo, T.Y.C. Tsai, T.J. Mitchison, S.G. Megason, Cell 184 (2021) 6313–6325.e18. date_created: 2021-12-26T23:01:26Z date_published: 2021-12-22T00:00:00Z date_updated: 2023-08-17T06:28:25Z day: '22' department: - _id: EdHa doi: 10.1016/j.cell.2021.11.025 external_id: isi: - '000735387500002' intvolume: ' 184' isi: 1 issue: '26' language: - iso: eng main_file_link: - open_access: '1' url: https://www.biorxiv.org/content/10.1101/2020.09.28.316042 month: '12' oa: 1 oa_version: Preprint page: 6313-6325.e18 publication: Cell publication_identifier: eissn: - 1097-4172 issn: - 0092-8674 publication_status: published publisher: Elsevier ; Cell Press quality_controlled: '1' scopus_import: '1' status: public title: Extracellular hyaluronate pressure shaped by cellular tethers drives tissue morphogenesis type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 184 year: '2021' ... --- _id: '10674' abstract: - lang: eng text: 'In two-player games on graphs, the players move a token through a graph to produce an infinite path, which determines the winner of the game. Such games are central in formal methods since they model the interaction between a non-terminating system and its environment. In bidding games the players bid for the right to move the token: in each round, the players simultaneously submit bids, and the higher bidder moves the token and pays the other player. Bidding games are known to have a clean and elegant mathematical structure that relies on the ability of the players to submit arbitrarily small bids. Many applications, however, require a fixed granularity for the bids, which can represent, for example, the monetary value expressed in cents. We study, for the first time, the combination of discrete-bidding and infinite-duration games. Our most important result proves that these games form a large determined subclass of concurrent games, where determinacy is the strong property that there always exists exactly one player who can guarantee winning the game. In particular, we show that, in contrast to non-discrete bidding games, the mechanism with which tied bids are resolved plays an important role in discrete-bidding games. We study several natural tie-breaking mechanisms and show that, while some do not admit determinacy, most natural mechanisms imply determinacy for every pair of initial budgets.' acknowledgement: "This research was supported in part by the Austrian Science Fund (FWF) under grants S11402-N23 (RiSE/SHiNE), Z211-N23 (Wittgenstein Award), and M 2369-N33 (Meitner fellowship).\r\n" article_processing_charge: No article_type: original author: - first_name: Milad full_name: Aghajohari, Milad last_name: Aghajohari - first_name: Guy full_name: Avni, Guy id: 463C8BC2-F248-11E8-B48F-1D18A9856A87 last_name: Avni orcid: 0000-0001-5588-8287 - first_name: Thomas A full_name: Henzinger, Thomas A id: 40876CD8-F248-11E8-B48F-1D18A9856A87 last_name: Henzinger orcid: 0000-0002-2985-7724 citation: ama: Aghajohari M, Avni G, Henzinger TA. Determinacy in discrete-bidding infinite-duration games. Logical Methods in Computer Science. 2021;17(1):10:1-10:23. doi:10.23638/LMCS-17(1:10)2021 apa: Aghajohari, M., Avni, G., & Henzinger, T. A. (2021). Determinacy in discrete-bidding infinite-duration games. Logical Methods in Computer Science. International Federation for Computational Logic. https://doi.org/10.23638/LMCS-17(1:10)2021 chicago: Aghajohari, Milad, Guy Avni, and Thomas A Henzinger. “Determinacy in Discrete-Bidding Infinite-Duration Games.” Logical Methods in Computer Science. International Federation for Computational Logic, 2021. https://doi.org/10.23638/LMCS-17(1:10)2021. ieee: M. Aghajohari, G. Avni, and T. A. Henzinger, “Determinacy in discrete-bidding infinite-duration games,” Logical Methods in Computer Science, vol. 17, no. 1. International Federation for Computational Logic, p. 10:1-10:23, 2021. ista: Aghajohari M, Avni G, Henzinger TA. 2021. Determinacy in discrete-bidding infinite-duration games. Logical Methods in Computer Science. 17(1), 10:1-10:23. mla: Aghajohari, Milad, et al. “Determinacy in Discrete-Bidding Infinite-Duration Games.” Logical Methods in Computer Science, vol. 17, no. 1, International Federation for Computational Logic, 2021, p. 10:1-10:23, doi:10.23638/LMCS-17(1:10)2021. short: M. Aghajohari, G. Avni, T.A. Henzinger, Logical Methods in Computer Science 17 (2021) 10:1-10:23. date_created: 2022-01-25T16:32:13Z date_published: 2021-02-03T00:00:00Z date_updated: 2023-08-17T06:56:42Z day: '03' ddc: - '510' department: - _id: ToHe doi: 10.23638/LMCS-17(1:10)2021 external_id: arxiv: - '1905.03588' isi: - '000658724600010' file: - access_level: open_access checksum: b35586a50ed1ca8f44767de116d18d81 content_type: application/pdf creator: alisjak date_created: 2022-01-26T08:04:50Z date_updated: 2022-01-26T08:04:50Z file_id: '10690' file_name: 2021_LMCS_AGHAJOHAR.pdf file_size: 819878 relation: main_file success: 1 file_date_updated: 2022-01-26T08:04:50Z has_accepted_license: '1' intvolume: ' 17' isi: 1 issue: '1' keyword: - computer science - computer science and game theory - logic in computer science language: - iso: eng license: https://creativecommons.org/licenses/by/4.0/ month: '02' oa: 1 oa_version: Published Version page: 10:1-10:23 project: - _id: 264B3912-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: M02369 name: Formal Methods meets Algorithmic Game Theory - _id: 25F2ACDE-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: S11402-N23 name: Rigorous Systems Engineering - _id: 25F42A32-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: Z211 name: The Wittgenstein Prize publication: Logical Methods in Computer Science publication_identifier: eissn: - 1860-5974 publication_status: published publisher: International Federation for Computational Logic quality_controlled: '1' scopus_import: '1' status: public title: Determinacy in discrete-bidding infinite-duration games tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 17 year: '2021' ... --- _id: '10609' abstract: - lang: eng text: "We study Multi-party computation (MPC) in the setting of subversion, where the adversary tampers with the machines of honest parties. Our goal is to construct actively secure MPC protocols where parties are corrupted adaptively by an adversary (as in the standard adaptive security setting), and in addition, honest parties’ machines are compromised.\r\nThe idea of reverse firewalls (RF) was introduced at EUROCRYPT’15 by Mironov and Stephens-Davidowitz as an approach to protecting protocols against corruption of honest parties’ devices. Intuitively, an RF for a party P is an external entity that sits between P and the outside world and whose scope is to sanitize P ’s incoming and outgoing messages in the face of subversion of their computer. Mironov and Stephens-Davidowitz constructed a protocol for passively-secure two-party computation. At CRYPTO’20, Chakraborty, Dziembowski and Nielsen constructed a protocol for secure computation with firewalls that improved on this result, both by extending it to multi-party computation protocol, and considering active security in the presence of static corruptions. In this paper, we initiate the study of RF for MPC in the adaptive setting. We put forward a definition for adaptively secure MPC in the reverse firewall setting, explore relationships among the security notions, and then construct reverse firewalls for MPC in this stronger setting of adaptive security. We also resolve the open question of Chakraborty, Dziembowski and Nielsen by removing the need for a trusted setup in constructing RF for MPC. Towards this end, we construct reverse firewalls for adaptively secure augmented coin tossing and adaptively secure zero-knowledge protocols and obtain a constant round adaptively secure MPC protocol in the reverse firewall setting without setup. Along the way, we propose a new multi-party adaptively secure coin tossing protocol in the plain model, that is of independent interest." alternative_title: - LNCS article_processing_charge: No author: - first_name: Suvradip full_name: Chakraborty, Suvradip id: B9CD0494-D033-11E9-B219-A439E6697425 last_name: Chakraborty - first_name: Chaya full_name: Ganesh, Chaya last_name: Ganesh - first_name: Mahak full_name: Pancholi, Mahak last_name: Pancholi - first_name: Pratik full_name: Sarkar, Pratik last_name: Sarkar citation: ama: 'Chakraborty S, Ganesh C, Pancholi M, Sarkar P. Reverse firewalls for adaptively secure MPC without setup. In: 27th International Conference on the Theory and Application of Cryptology and Information Security. Vol 13091. Springer Nature; 2021:335-364. doi:10.1007/978-3-030-92075-3_12' apa: 'Chakraborty, S., Ganesh, C., Pancholi, M., & Sarkar, P. (2021). Reverse firewalls for adaptively secure MPC without setup. In 27th International Conference on the Theory and Application of Cryptology and Information Security (Vol. 13091, pp. 335–364). Virtual, Singapore: Springer Nature. https://doi.org/10.1007/978-3-030-92075-3_12' chicago: Chakraborty, Suvradip, Chaya Ganesh, Mahak Pancholi, and Pratik Sarkar. “Reverse Firewalls for Adaptively Secure MPC without Setup.” In 27th International Conference on the Theory and Application of Cryptology and Information Security, 13091:335–64. Springer Nature, 2021. https://doi.org/10.1007/978-3-030-92075-3_12. ieee: S. Chakraborty, C. Ganesh, M. Pancholi, and P. Sarkar, “Reverse firewalls for adaptively secure MPC without setup,” in 27th International Conference on the Theory and Application of Cryptology and Information Security, Virtual, Singapore, 2021, vol. 13091, pp. 335–364. ista: 'Chakraborty S, Ganesh C, Pancholi M, Sarkar P. 2021. Reverse firewalls for adaptively secure MPC without setup. 27th International Conference on the Theory and Application of Cryptology and Information Security. ASIACRYPT: International Conference on Cryptology in Asia, LNCS, vol. 13091, 335–364.' mla: Chakraborty, Suvradip, et al. “Reverse Firewalls for Adaptively Secure MPC without Setup.” 27th International Conference on the Theory and Application of Cryptology and Information Security, vol. 13091, Springer Nature, 2021, pp. 335–64, doi:10.1007/978-3-030-92075-3_12. short: S. Chakraborty, C. Ganesh, M. Pancholi, P. Sarkar, in:, 27th International Conference on the Theory and Application of Cryptology and Information Security, Springer Nature, 2021, pp. 335–364. conference: end_date: 2021-12-10 location: Virtual, Singapore name: 'ASIACRYPT: International Conference on Cryptology in Asia' start_date: 2021-12-06 date_created: 2022-01-09T23:01:27Z date_published: 2021-12-01T00:00:00Z date_updated: 2023-08-17T06:34:41Z day: '01' department: - _id: KrPi doi: 10.1007/978-3-030-92075-3_12 ec_funded: 1 external_id: isi: - '000927876200012' intvolume: ' 13091' isi: 1 language: - iso: eng main_file_link: - open_access: '1' url: https://eprint.iacr.org/2021/1262 month: '12' oa: 1 oa_version: Preprint page: 335-364 project: - _id: 258AA5B2-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '682815' name: Teaching Old Crypto New Tricks publication: 27th International Conference on the Theory and Application of Cryptology and Information Security publication_identifier: eisbn: - 978-3-030-92075-3 eissn: - 1611-3349 isbn: - 978-3-030-92074-6 issn: - 0302-9743 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Reverse firewalls for adaptively secure MPC without setup type: conference user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 13091 year: '2021' ... --- _id: '10606' abstract: - lang: eng text: Cell division orientation is thought to result from a competition between cell geometry and polarity domains controlling the position of the mitotic spindle during mitosis. Depending on the level of cell shape anisotropy or the strength of the polarity domain, one dominates the other and determines the orientation of the spindle. Whether and how such competition is also at work to determine unequal cell division (UCD), producing daughter cells of different size, remains unclear. Here, we show that cell geometry and polarity domains cooperate, rather than compete, in positioning the cleavage plane during UCDs in early ascidian embryos. We found that the UCDs and their orientation at the ascidian third cleavage rely on the spindle tilting in an anisotropic cell shape, and cortical polarity domains exerting different effects on spindle astral microtubules. By systematically varying mitotic cell shape, we could modulate the effect of attractive and repulsive polarity domains and consequently generate predicted daughter cell size asymmetries and position. We therefore propose that the spindle position during UCD is set by the combined activities of cell geometry and polarity domains, where cell geometry modulates the effect of cortical polarity domain(s). acknowledged_ssus: - _id: NanoFab - _id: Bio acknowledgement: 'We thank members of the Heisenberg and McDougall groups for technical advice and discussion. We are grateful to the Bioimaging and Nanofabrication facilities of IST Austria and the Imaging Platform (PIM) and animal facility (CRB) of Institut de la Mer de Villefranche (IMEV), which is supported by EMBRC-France, whose French state funds are managed by the ANR within the Investments of the Future program under reference ANR-10-INBS-0, for continuous support. This work was supported by a collaborative grant from the French Government funding agency Agence National de la Recherche to McDougall (ANR ''MorCell'': ANR-17-CE 13-0028) and the Austrian Science Fund to Heisenberg (FWF: I 3601-B27).' article_number: e75639 article_processing_charge: No article_type: original author: - first_name: Benoit G full_name: Godard, Benoit G id: 33280250-F248-11E8-B48F-1D18A9856A87 last_name: Godard - first_name: Remi full_name: Dumollard, Remi last_name: Dumollard - first_name: Carl-Philipp J full_name: Heisenberg, Carl-Philipp J id: 39427864-F248-11E8-B48F-1D18A9856A87 last_name: Heisenberg orcid: 0000-0002-0912-4566 - first_name: Alex full_name: Mcdougall, Alex last_name: Mcdougall citation: ama: Godard BG, Dumollard R, Heisenberg C-PJ, Mcdougall A. Combined effect of cell geometry and polarity domains determines the orientation of unequal division. eLife. 2021;10. doi:10.7554/eLife.75639 apa: Godard, B. G., Dumollard, R., Heisenberg, C.-P. J., & Mcdougall, A. (2021). Combined effect of cell geometry and polarity domains determines the orientation of unequal division. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.75639 chicago: Godard, Benoit G, Remi Dumollard, Carl-Philipp J Heisenberg, and Alex Mcdougall. “Combined Effect of Cell Geometry and Polarity Domains Determines the Orientation of Unequal Division.” ELife. eLife Sciences Publications, 2021. https://doi.org/10.7554/eLife.75639. ieee: B. G. Godard, R. Dumollard, C.-P. J. Heisenberg, and A. Mcdougall, “Combined effect of cell geometry and polarity domains determines the orientation of unequal division,” eLife, vol. 10. eLife Sciences Publications, 2021. ista: Godard BG, Dumollard R, Heisenberg C-PJ, Mcdougall A. 2021. Combined effect of cell geometry and polarity domains determines the orientation of unequal division. eLife. 10, e75639. mla: Godard, Benoit G., et al. “Combined Effect of Cell Geometry and Polarity Domains Determines the Orientation of Unequal Division.” ELife, vol. 10, e75639, eLife Sciences Publications, 2021, doi:10.7554/eLife.75639. short: B.G. Godard, R. Dumollard, C.-P.J. Heisenberg, A. Mcdougall, ELife 10 (2021). date_created: 2022-01-09T23:01:26Z date_published: 2021-12-21T00:00:00Z date_updated: 2023-08-17T06:32:44Z day: '21' ddc: - '570' department: - _id: CaHe doi: 10.7554/eLife.75639 external_id: isi: - '000733610100001' file: - access_level: open_access checksum: 759c7a873d554c48a6639e6350746ca6 content_type: application/pdf creator: alisjak date_created: 2022-01-10T09:40:37Z date_updated: 2022-01-10T09:40:37Z file_id: '10611' file_name: 2021_eLife_Godard.pdf file_size: 7769934 relation: main_file success: 1 file_date_updated: 2022-01-10T09:40:37Z has_accepted_license: '1' intvolume: ' 10' isi: 1 language: - iso: eng month: '12' oa: 1 oa_version: Published Version project: - _id: 2646861A-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: I03601 name: Control of embryonic cleavage pattern publication: eLife publication_identifier: eissn: - 2050-084X publication_status: published publisher: eLife Sciences Publications quality_controlled: '1' scopus_import: '1' status: public title: Combined effect of cell geometry and polarity domains determines the orientation of unequal division tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 10 year: '2021' ... --- _id: '10607' abstract: - lang: eng text: The evidence linking innate immunity mechanisms and neurodegenerative diseases is growing, but the specific mechanisms are incompletely understood. Experimental data suggest that microglial TLR4 mediates the uptake and clearance of α-synuclein also termed synucleinophagy. The accumulation of misfolded α-synuclein throughout the brain is central to Parkinson's disease (PD). The distribution and progression of the pathology is often attributed to the propagation of α-synuclein. Here, we apply a classical α-synuclein propagation model of prodromal PD in wild type and TLR4 deficient mice to study the role of TLR4 in the progression of the disease. Our data suggest that TLR4 deficiency facilitates the α-synuclein seed spreading associated with reduced lysosomal activity of microglia. Three months after seed inoculation, more pronounced proteinase K-resistant α-synuclein inclusion pathology is observed in mice with TLR4 deficiency. The facilitated propagation of α-synuclein is associated with early loss of dopamine transporter (DAT) signal in the striatum and loss of dopaminergic neurons in substantia nigra pars compacta of TLR4 deficient mice. These new results support TLR4 signaling as a putative target for disease modification to slow the progression of PD and related disorders. acknowledgement: This study was supported by grants of the Austrian Science Fund (FWF) F4414 and W1206-08. Electron microscopy was performed at the Scientific Service Units (SSU) of IST-Austria through resources provided by the Electron Microscopy Facility. article_processing_charge: No article_type: original author: - first_name: Serena full_name: Venezia, Serena last_name: Venezia - first_name: Walter full_name: Kaufmann, Walter id: 3F99E422-F248-11E8-B48F-1D18A9856A87 last_name: Kaufmann orcid: 0000-0001-9735-5315 - first_name: Gregor K. full_name: Wenning, Gregor K. last_name: Wenning - first_name: Nadia full_name: Stefanova, Nadia last_name: Stefanova citation: ama: Venezia S, Kaufmann W, Wenning GK, Stefanova N. Toll-like receptor 4 deficiency facilitates α-synuclein propagation and neurodegeneration in a mouse model of prodromal Parkinson’s disease. Parkinsonism & Related Disorders. 2021;91:59-65. doi:10.1016/j.parkreldis.2021.09.007 apa: Venezia, S., Kaufmann, W., Wenning, G. K., & Stefanova, N. (2021). Toll-like receptor 4 deficiency facilitates α-synuclein propagation and neurodegeneration in a mouse model of prodromal Parkinson’s disease. Parkinsonism & Related Disorders. Elsevier. https://doi.org/10.1016/j.parkreldis.2021.09.007 chicago: Venezia, Serena, Walter Kaufmann, Gregor K. Wenning, and Nadia Stefanova. “Toll-like Receptor 4 Deficiency Facilitates α-Synuclein Propagation and Neurodegeneration in a Mouse Model of Prodromal Parkinson’s Disease.” Parkinsonism & Related Disorders. Elsevier, 2021. https://doi.org/10.1016/j.parkreldis.2021.09.007. ieee: S. Venezia, W. Kaufmann, G. K. Wenning, and N. Stefanova, “Toll-like receptor 4 deficiency facilitates α-synuclein propagation and neurodegeneration in a mouse model of prodromal Parkinson’s disease,” Parkinsonism & Related Disorders, vol. 91. Elsevier, pp. 59–65, 2021. ista: Venezia S, Kaufmann W, Wenning GK, Stefanova N. 2021. Toll-like receptor 4 deficiency facilitates α-synuclein propagation and neurodegeneration in a mouse model of prodromal Parkinson’s disease. Parkinsonism & Related Disorders. 91, 59–65. mla: Venezia, Serena, et al. “Toll-like Receptor 4 Deficiency Facilitates α-Synuclein Propagation and Neurodegeneration in a Mouse Model of Prodromal Parkinson’s Disease.” Parkinsonism & Related Disorders, vol. 91, Elsevier, 2021, pp. 59–65, doi:10.1016/j.parkreldis.2021.09.007. short: S. Venezia, W. Kaufmann, G.K. Wenning, N. Stefanova, Parkinsonism & Related Disorders 91 (2021) 59–65. date_created: 2022-01-09T23:01:26Z date_published: 2021-10-01T00:00:00Z date_updated: 2023-08-17T06:36:01Z day: '01' ddc: - '610' department: - _id: EM-Fac doi: 10.1016/j.parkreldis.2021.09.007 external_id: isi: - '000701142900012' pmid: - '34530328' file: - access_level: open_access checksum: 360681585acb51e80d17c6b213c56b55 content_type: application/pdf creator: alisjak date_created: 2022-01-10T13:41:40Z date_updated: 2022-01-10T13:41:40Z file_id: '10612' file_name: 2021_Parkinsonism_Venezia.pdf file_size: 6848513 relation: main_file success: 1 file_date_updated: 2022-01-10T13:41:40Z has_accepted_license: '1' intvolume: ' 91' isi: 1 language: - iso: eng month: '10' oa: 1 oa_version: Published Version page: 59-65 pmid: 1 publication: Parkinsonism & Related Disorders publication_identifier: eissn: - 1873-5126 issn: - 1353-8020 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Toll-like receptor 4 deficiency facilitates α-synuclein propagation and neurodegeneration in a mouse model of prodromal Parkinson's disease tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 91 year: '2021' ... --- _id: '10628' abstract: - lang: eng text: The surface states of 3D topological insulators in general have negligible quantum oscillations (QOs) when the chemical potential is tuned to the Dirac points. In contrast, we find that topological Kondo insulators (TKIs) can support surface states with an arbitrarily large Fermi surface (FS) when the chemical potential is pinned to the Dirac point. We illustrate that these FSs give rise to finite-frequency QOs, which can become comparable to the extremal area of the unhybridized bulk bands. We show that this occurs when the crystal symmetry is lowered from cubic to tetragonal in a minimal two-orbital model. We label such surface modes as 'shadow surface states'. Moreover, we show that the sufficient next-nearest neighbor out-of-plane hybridization leading to shadow surface states can be self-consistently stabilized for tetragonal TKIs. Consequently, shadow surface states provide an important example of high-frequency QOs beyond the context of cubic TKIs. acknowledgement: PG acknowledges support from National Science Foundation Awards No. DMR-1824265 for this work. AG acknowledges support from the European Union's Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 754411. EMN is supported by ASU startup grant. OE is in part supported by NSF-DMR-1904716. article_number: '123042' article_processing_charge: No article_type: original author: - first_name: Areg full_name: Ghazaryan, Areg id: 4AF46FD6-F248-11E8-B48F-1D18A9856A87 last_name: Ghazaryan orcid: 0000-0001-9666-3543 - first_name: Emilian M. full_name: Nica, Emilian M. last_name: Nica - first_name: Onur full_name: Erten, Onur last_name: Erten - first_name: Pouyan full_name: Ghaemi, Pouyan last_name: Ghaemi citation: ama: Ghazaryan A, Nica EM, Erten O, Ghaemi P. Shadow surface states in topological Kondo insulators. New Journal of Physics. 2021;23(12). doi:10.1088/1367-2630/ac4124 apa: Ghazaryan, A., Nica, E. M., Erten, O., & Ghaemi, P. (2021). Shadow surface states in topological Kondo insulators. New Journal of Physics. IOP Publishing. https://doi.org/10.1088/1367-2630/ac4124 chicago: Ghazaryan, Areg, Emilian M. Nica, Onur Erten, and Pouyan Ghaemi. “Shadow Surface States in Topological Kondo Insulators.” New Journal of Physics. IOP Publishing, 2021. https://doi.org/10.1088/1367-2630/ac4124. ieee: A. Ghazaryan, E. M. Nica, O. Erten, and P. Ghaemi, “Shadow surface states in topological Kondo insulators,” New Journal of Physics, vol. 23, no. 12. IOP Publishing, 2021. ista: Ghazaryan A, Nica EM, Erten O, Ghaemi P. 2021. Shadow surface states in topological Kondo insulators. New Journal of Physics. 23(12), 123042. mla: Ghazaryan, Areg, et al. “Shadow Surface States in Topological Kondo Insulators.” New Journal of Physics, vol. 23, no. 12, 123042, IOP Publishing, 2021, doi:10.1088/1367-2630/ac4124. short: A. Ghazaryan, E.M. Nica, O. Erten, P. Ghaemi, New Journal of Physics 23 (2021). date_created: 2022-01-16T23:01:28Z date_published: 2021-12-23T00:00:00Z date_updated: 2023-08-17T06:54:54Z day: '23' ddc: - '530' department: - _id: MiLe doi: 10.1088/1367-2630/ac4124 ec_funded: 1 external_id: arxiv: - '2012.11625' isi: - '000734063700001' file: - access_level: open_access checksum: 0c3cb6816242fa8afd1cc87a5fe77821 content_type: application/pdf creator: cchlebak date_created: 2022-01-17T10:01:58Z date_updated: 2022-01-17T10:01:58Z file_id: '10632' file_name: 2021_NewJourPhys_Ghazaryan.pdf file_size: 2533102 relation: main_file success: 1 file_date_updated: 2022-01-17T10:01:58Z has_accepted_license: '1' intvolume: ' 23' isi: 1 issue: '12' language: - iso: eng month: '12' oa: 1 oa_version: Published Version project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: New Journal of Physics publication_identifier: issn: - 1367-2630 publication_status: published publisher: IOP Publishing quality_controlled: '1' scopus_import: '1' status: public title: Shadow surface states in topological Kondo insulators tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 23 year: '2021' ... --- _id: '10631' abstract: - lang: eng text: We combine experimental and theoretical approaches to explore excited rotational states of molecules embedded in helium nanodroplets using CS2 and I2 as examples. Laser-induced nonadiabatic molecular alignment is employed to measure spectral lines for rotational states extending beyond those initially populated at the 0.37 K droplet temperature. We construct a simple quantum-mechanical model, based on a linear rotor coupled to a single-mode bosonic bath, to determine the rotational energy structure in its entirety. The calculated and measured spectral lines are in good agreement. We show that the effect of the surrounding superfluid on molecular rotation can be rationalized by a single quantity, the angular momentum, transferred from the molecule to the droplet. acknowledgement: I.C. acknowledges the support by the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie Grant Agreement No. 665385. G.B. acknowledges support from the Austrian Science Fund (FWF), under project No. M2461-N27. M.L. acknowledges support by the Austrian Science Fund (FWF), under project No. P29902-N27, and by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). H.S acknowledges support from the European Research Council-AdG (Project No. 320459, DropletControl) and from The Villum Foundation through a Villum Investigator grant no. 25886. article_number: L061303 article_processing_charge: No article_type: original author: - first_name: Igor full_name: Cherepanov, Igor id: 339C7E5A-F248-11E8-B48F-1D18A9856A87 last_name: Cherepanov - first_name: Giacomo full_name: Bighin, Giacomo id: 4CA96FD4-F248-11E8-B48F-1D18A9856A87 last_name: Bighin orcid: 0000-0001-8823-9777 - first_name: Constant A. full_name: Schouder, Constant A. last_name: Schouder - first_name: Adam S. full_name: Chatterley, Adam S. last_name: Chatterley - first_name: Simon H. full_name: Albrechtsen, Simon H. last_name: Albrechtsen - first_name: Alberto Viñas full_name: Muñoz, Alberto Viñas last_name: Muñoz - first_name: Lars full_name: Christiansen, Lars last_name: Christiansen - first_name: Henrik full_name: Stapelfeldt, Henrik last_name: Stapelfeldt - first_name: Mikhail full_name: Lemeshko, Mikhail id: 37CB05FA-F248-11E8-B48F-1D18A9856A87 last_name: Lemeshko orcid: 0000-0002-6990-7802 citation: ama: Cherepanov I, Bighin G, Schouder CA, et al. Excited rotational states of molecules in a superfluid. Physical Review A. 2021;104(6). doi:10.1103/PhysRevA.104.L061303 apa: Cherepanov, I., Bighin, G., Schouder, C. A., Chatterley, A. S., Albrechtsen, S. H., Muñoz, A. V., … Lemeshko, M. (2021). Excited rotational states of molecules in a superfluid. Physical Review A. American Physical Society. https://doi.org/10.1103/PhysRevA.104.L061303 chicago: Cherepanov, Igor, Giacomo Bighin, Constant A. Schouder, Adam S. Chatterley, Simon H. Albrechtsen, Alberto Viñas Muñoz, Lars Christiansen, Henrik Stapelfeldt, and Mikhail Lemeshko. “Excited Rotational States of Molecules in a Superfluid.” Physical Review A. American Physical Society, 2021. https://doi.org/10.1103/PhysRevA.104.L061303. ieee: I. Cherepanov et al., “Excited rotational states of molecules in a superfluid,” Physical Review A, vol. 104, no. 6. American Physical Society, 2021. ista: Cherepanov I, Bighin G, Schouder CA, Chatterley AS, Albrechtsen SH, Muñoz AV, Christiansen L, Stapelfeldt H, Lemeshko M. 2021. Excited rotational states of molecules in a superfluid. Physical Review A. 104(6), L061303. mla: Cherepanov, Igor, et al. “Excited Rotational States of Molecules in a Superfluid.” Physical Review A, vol. 104, no. 6, L061303, American Physical Society, 2021, doi:10.1103/PhysRevA.104.L061303. short: I. Cherepanov, G. Bighin, C.A. Schouder, A.S. Chatterley, S.H. Albrechtsen, A.V. Muñoz, L. Christiansen, H. Stapelfeldt, M. Lemeshko, Physical Review A 104 (2021). date_created: 2022-01-16T23:01:29Z date_published: 2021-12-30T00:00:00Z date_updated: 2023-08-17T06:52:17Z day: '30' department: - _id: MiLe doi: 10.1103/PhysRevA.104.L061303 ec_funded: 1 external_id: arxiv: - '2107.00468' isi: - '000739618300001' intvolume: ' 104' isi: 1 issue: '6' language: - iso: eng main_file_link: - open_access: '1' url: http://128.84.4.18/abs/2107.00468 month: '12' oa: 1 oa_version: Preprint project: - _id: 26031614-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: P29902 name: Quantum rotations in the presence of a many-body environment - _id: 2688CF98-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '801770' name: 'Angulon: physics and applications of a new quasiparticle' - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: 26986C82-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: M02641 name: A path-integral approach to composite impurities publication: Physical Review A publication_identifier: eissn: - 2469-9934 issn: - 2469-9926 publication_status: published publisher: American Physical Society quality_controlled: '1' scopus_import: '1' status: public title: Excited rotational states of molecules in a superfluid type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 104 year: '2021' ... --- _id: '10597' abstract: - lang: eng text: We thank Emmanuel Abbe and Min Ye for providing us the implementation of RPA decoding. D. Fathollahi and M. Mondelli are partially supported by the 2019 Lopez-Loreta Prize. N. Farsad is supported by Discovery Grant from the Natural Sciences and Engineering Research Council of Canada (NSERC) and Canada Foundation for Innovation (CFI), John R. Evans Leader Fund. S. A. Hashemi is supported by a Postdoctoral Fellowship from NSERC. article_processing_charge: No author: - first_name: Dorsa full_name: Fathollahi, Dorsa last_name: Fathollahi - first_name: Nariman full_name: Farsad, Nariman last_name: Farsad - first_name: Seyyed Ali full_name: Hashemi, Seyyed Ali last_name: Hashemi - first_name: Marco full_name: Mondelli, Marco id: 27EB676C-8706-11E9-9510-7717E6697425 last_name: Mondelli orcid: 0000-0002-3242-7020 citation: ama: 'Fathollahi D, Farsad N, Hashemi SA, Mondelli M. Sparse multi-decoder recursive projection aggregation for Reed-Muller codes. In: 2021 IEEE International Symposium on Information Theory. Institute of Electrical and Electronics Engineers; 2021:1082-1087. doi:10.1109/isit45174.2021.9517887' apa: 'Fathollahi, D., Farsad, N., Hashemi, S. A., & Mondelli, M. (2021). Sparse multi-decoder recursive projection aggregation for Reed-Muller codes. In 2021 IEEE International Symposium on Information Theory (pp. 1082–1087). Virtual, Melbourne, Australia: Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/isit45174.2021.9517887' chicago: Fathollahi, Dorsa, Nariman Farsad, Seyyed Ali Hashemi, and Marco Mondelli. “Sparse Multi-Decoder Recursive Projection Aggregation for Reed-Muller Codes.” In 2021 IEEE International Symposium on Information Theory, 1082–87. Institute of Electrical and Electronics Engineers, 2021. https://doi.org/10.1109/isit45174.2021.9517887. ieee: D. Fathollahi, N. Farsad, S. A. Hashemi, and M. Mondelli, “Sparse multi-decoder recursive projection aggregation for Reed-Muller codes,” in 2021 IEEE International Symposium on Information Theory, Virtual, Melbourne, Australia, 2021, pp. 1082–1087. ista: 'Fathollahi D, Farsad N, Hashemi SA, Mondelli M. 2021. Sparse multi-decoder recursive projection aggregation for Reed-Muller codes. 2021 IEEE International Symposium on Information Theory. ISIT: International Symposium on Information Theory, 1082–1087.' mla: Fathollahi, Dorsa, et al. “Sparse Multi-Decoder Recursive Projection Aggregation for Reed-Muller Codes.” 2021 IEEE International Symposium on Information Theory, Institute of Electrical and Electronics Engineers, 2021, pp. 1082–87, doi:10.1109/isit45174.2021.9517887. short: D. Fathollahi, N. Farsad, S.A. Hashemi, M. Mondelli, in:, 2021 IEEE International Symposium on Information Theory, Institute of Electrical and Electronics Engineers, 2021, pp. 1082–1087. conference: end_date: 2021-07-20 location: Virtual, Melbourne, Australia name: 'ISIT: International Symposium on Information Theory' start_date: 2021-07-12 date_created: 2022-01-03T11:31:26Z date_published: 2021-09-01T00:00:00Z date_updated: 2023-08-17T06:32:06Z day: '01' department: - _id: MaMo doi: 10.1109/isit45174.2021.9517887 external_id: arxiv: - '2011.12882' isi: - '000701502201029' isi: 1 language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2011.12882 month: '09' oa: 1 oa_version: Preprint page: 1082-1087 project: - _id: 059876FA-7A3F-11EA-A408-12923DDC885E name: Prix Lopez-Loretta 2019 - Marco Mondelli publication: 2021 IEEE International Symposium on Information Theory publication_identifier: eisbn: - 978-1-5386-8209-8 isbn: - 978-1-5386-8210-4 publication_status: published publisher: Institute of Electrical and Electronics Engineers quality_controlled: '1' scopus_import: '1' status: public title: Sparse multi-decoder recursive projection aggregation for Reed-Muller codes type: conference user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 year: '2021' ... --- _id: '10666' abstract: - lang: eng text: Adversarial training is an effective method to train deep learning models that are resilient to norm-bounded perturbations, with the cost of nominal performance drop. While adversarial training appears to enhance the robustness and safety of a deep model deployed in open-world decision-critical applications, counterintuitively, it induces undesired behaviors in robot learning settings. In this paper, we show theoretically and experimentally that neural controllers obtained via adversarial training are subjected to three types of defects, namely transient, systematic, and conditional errors. We first generalize adversarial training to a safety-domain optimization scheme allowing for more generic specifications. We then prove that such a learning process tends to cause certain error profiles. We support our theoretical results by a thorough experimental safety analysis in a robot-learning task. Our results suggest that adversarial training is not yet ready for robot learning. acknowledgement: M.L. and T.A.H. are supported in part by the Austrian Science Fund (FWF) under grant Z211-N23 (Wittgenstein Award). R.H. and D.R. are supported by Boeing and R.G. by Horizon-2020 ECSEL Project grant no. 783163 (iDev40). article_processing_charge: No author: - first_name: Mathias full_name: Lechner, Mathias id: 3DC22916-F248-11E8-B48F-1D18A9856A87 last_name: Lechner - first_name: Ramin full_name: Hasani, Ramin last_name: Hasani - first_name: Radu full_name: Grosu, Radu last_name: Grosu - first_name: Daniela full_name: Rus, Daniela last_name: Rus - first_name: Thomas A full_name: Henzinger, Thomas A id: 40876CD8-F248-11E8-B48F-1D18A9856A87 last_name: Henzinger orcid: 0000-0002-2985-7724 citation: ama: 'Lechner M, Hasani R, Grosu R, Rus D, Henzinger TA. Adversarial training is not ready for robot learning. In: 2021 IEEE International Conference on Robotics and Automation. ICRA. ; 2021:4140-4147. doi:10.1109/ICRA48506.2021.9561036' apa: Lechner, M., Hasani, R., Grosu, R., Rus, D., & Henzinger, T. A. (2021). Adversarial training is not ready for robot learning. In 2021 IEEE International Conference on Robotics and Automation (pp. 4140–4147). Xi’an, China. https://doi.org/10.1109/ICRA48506.2021.9561036 chicago: Lechner, Mathias, Ramin Hasani, Radu Grosu, Daniela Rus, and Thomas A Henzinger. “Adversarial Training Is Not Ready for Robot Learning.” In 2021 IEEE International Conference on Robotics and Automation, 4140–47. ICRA, 2021. https://doi.org/10.1109/ICRA48506.2021.9561036. ieee: M. Lechner, R. Hasani, R. Grosu, D. Rus, and T. A. Henzinger, “Adversarial training is not ready for robot learning,” in 2021 IEEE International Conference on Robotics and Automation, Xi’an, China, 2021, pp. 4140–4147. ista: 'Lechner M, Hasani R, Grosu R, Rus D, Henzinger TA. 2021. Adversarial training is not ready for robot learning. 2021 IEEE International Conference on Robotics and Automation. ICRA: International Conference on Robotics and AutomationICRA, 4140–4147.' mla: Lechner, Mathias, et al. “Adversarial Training Is Not Ready for Robot Learning.” 2021 IEEE International Conference on Robotics and Automation, 2021, pp. 4140–47, doi:10.1109/ICRA48506.2021.9561036. short: M. Lechner, R. Hasani, R. Grosu, D. Rus, T.A. Henzinger, in:, 2021 IEEE International Conference on Robotics and Automation, 2021, pp. 4140–4147. conference: end_date: 2021-06-05 location: Xi'an, China name: 'ICRA: International Conference on Robotics and Automation' start_date: 2021-05-30 date_created: 2022-01-25T15:44:54Z date_published: 2021-01-01T00:00:00Z date_updated: 2023-08-17T06:58:38Z ddc: - '000' department: - _id: GradSch - _id: ToHe doi: 10.1109/ICRA48506.2021.9561036 external_id: arxiv: - '2103.08187' isi: - '000765738803040' has_accepted_license: '1' isi: 1 language: - iso: eng license: https://creativecommons.org/licenses/by-nc-nd/3.0/ main_file_link: - open_access: '1' url: https://arxiv.org/abs/2103.08187 oa: 1 oa_version: None page: 4140-4147 project: - _id: 25F42A32-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: Z211 name: The Wittgenstein Prize publication: 2021 IEEE International Conference on Robotics and Automation publication_identifier: eisbn: - 978-1-7281-9077-8 eissn: - 2577-087X isbn: - 978-1-7281-9078-5 issn: - 1050-4729 publication_status: published quality_controlled: '1' related_material: record: - id: '11362' relation: dissertation_contains status: public series_title: ICRA status: public title: Adversarial training is not ready for robot learning tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/3.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivs 3.0 Unported (CC BY-NC-ND 3.0) short: CC BY-NC-ND (3.0) type: conference user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 year: '2021' ... --- _id: '10711' abstract: - lang: eng text: In this paper, we investigate the distribution of the maximum of partial sums of families of m -periodic complex-valued functions satisfying certain conditions. We obtain precise uniform estimates for the distribution function of this maximum in a near-optimal range. Our results apply to partial sums of Kloosterman sums and other families of ℓ -adic trace functions, and are as strong as those obtained by Bober, Goldmakher, Granville and Koukoulopoulos for character sums. In particular, we improve on the recent work of the third author for Birch sums. However, unlike character sums, we are able to construct families of m -periodic complex-valued functions which satisfy our conditions, but for which the Pólya–Vinogradov inequality is sharp. acknowledgement: We would like to thank the anonymous referees for carefully reading the paper and for their remarks and suggestions. article_processing_charge: No article_type: original author: - first_name: Pascal full_name: Autissier, Pascal last_name: Autissier - first_name: Dante full_name: Bonolis, Dante id: 6A459894-5FDD-11E9-AF35-BB24E6697425 last_name: Bonolis - first_name: Youness full_name: Lamzouri, Youness last_name: Lamzouri citation: ama: Autissier P, Bonolis D, Lamzouri Y. The distribution of the maximum of partial sums of Kloosterman sums and other trace functions. Compositio Mathematica. 2021;157(7):1610-1651. doi:10.1112/s0010437x21007351 apa: Autissier, P., Bonolis, D., & Lamzouri, Y. (2021). The distribution of the maximum of partial sums of Kloosterman sums and other trace functions. Compositio Mathematica. Cambridge University Press. https://doi.org/10.1112/s0010437x21007351 chicago: Autissier, Pascal, Dante Bonolis, and Youness Lamzouri. “The Distribution of the Maximum of Partial Sums of Kloosterman Sums and Other Trace Functions.” Compositio Mathematica. Cambridge University Press, 2021. https://doi.org/10.1112/s0010437x21007351. ieee: P. Autissier, D. Bonolis, and Y. Lamzouri, “The distribution of the maximum of partial sums of Kloosterman sums and other trace functions,” Compositio Mathematica, vol. 157, no. 7. Cambridge University Press, pp. 1610–1651, 2021. ista: Autissier P, Bonolis D, Lamzouri Y. 2021. The distribution of the maximum of partial sums of Kloosterman sums and other trace functions. Compositio Mathematica. 157(7), 1610–1651. mla: Autissier, Pascal, et al. “The Distribution of the Maximum of Partial Sums of Kloosterman Sums and Other Trace Functions.” Compositio Mathematica, vol. 157, no. 7, Cambridge University Press, 2021, pp. 1610–51, doi:10.1112/s0010437x21007351. short: P. Autissier, D. Bonolis, Y. Lamzouri, Compositio Mathematica 157 (2021) 1610–1651. date_created: 2022-02-01T08:10:43Z date_published: 2021-06-28T00:00:00Z date_updated: 2023-08-17T06:59:16Z day: '28' department: - _id: TiBr doi: 10.1112/s0010437x21007351 external_id: arxiv: - '1909.03266' isi: - '000667289300001' intvolume: ' 157' isi: 1 issue: '7' keyword: - Algebra and Number Theory language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1909.03266 month: '06' oa: 1 oa_version: Preprint page: 1610-1651 publication: Compositio Mathematica publication_identifier: eissn: - 1570-5846 issn: - 0010-437X publication_status: published publisher: Cambridge University Press quality_controlled: '1' status: public title: The distribution of the maximum of partial sums of Kloosterman sums and other trace functions type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 157 year: '2021' ... --- _id: '10858' abstract: - lang: eng text: The cost-effective conversion of low-grade heat into electricity using thermoelectric devices requires developing alternative materials and material processing technologies able to reduce the currently high device manufacturing costs. In this direction, thermoelectric materials that do not rely on rare or toxic elements such as tellurium or lead need to be produced using high-throughput technologies not involving high temperatures and long processes. Bi2Se3 is an obvious possible Te-free alternative to Bi2Te3 for ambient temperature thermoelectric applications, but its performance is still low for practical applications, and additional efforts toward finding proper dopants are required. Here, we report a scalable method to produce Bi2Se3 nanosheets at low synthesis temperatures. We studied the influence of different dopants on the thermoelectric properties of this material. Among the elements tested, we demonstrated that Sn doping resulted in the best performance. Sn incorporation resulted in a significant improvement to the Bi2Se3 Seebeck coefficient and a reduction in the thermal conductivity in the direction of the hot-press axis, resulting in an overall 60% improvement in the thermoelectric figure of merit of Bi2Se3. acknowledgement: "M.L., Y.Z., T.Z. and K.X. thank the China Scholarship Council for their scholarship\r\nsupport. Y.L. acknowledges funding from the European Union’s Horizon 2020 research and\r\ninnovation program under the Marie Sklodowska-Curie grant agreement No. 754411. J.L. thanks the ICREA Academia program and projects MICINN/FEDER RTI2018-093996-B-C31 and G.C. 2017 SGR 128. ICN2 acknowledges funding from the Generalitat de Catalunya 2017 SGR 327 and the Spanish MINECO ENE2017-85087-C3." article_number: '1827' article_processing_charge: No article_type: original author: - first_name: Mengyao full_name: Li, Mengyao last_name: Li - first_name: Yu full_name: Zhang, Yu last_name: Zhang - first_name: Ting full_name: Zhang, Ting last_name: Zhang - first_name: Yong full_name: Zuo, Yong last_name: Zuo - first_name: Ke full_name: Xiao, Ke last_name: Xiao - first_name: Jordi full_name: Arbiol, Jordi last_name: Arbiol - first_name: Jordi full_name: Llorca, Jordi last_name: Llorca - first_name: Yu full_name: Liu, Yu id: 2A70014E-F248-11E8-B48F-1D18A9856A87 last_name: Liu orcid: 0000-0001-7313-6740 - first_name: Andreu full_name: Cabot, Andreu last_name: Cabot citation: ama: Li M, Zhang Y, Zhang T, et al. Enhanced thermoelectric performance of n-type Bi2Se3 nanosheets through Sn doping. Nanomaterials. 2021;11(7). doi:10.3390/nano11071827 apa: Li, M., Zhang, Y., Zhang, T., Zuo, Y., Xiao, K., Arbiol, J., … Cabot, A. (2021). Enhanced thermoelectric performance of n-type Bi2Se3 nanosheets through Sn doping. Nanomaterials. MDPI. https://doi.org/10.3390/nano11071827 chicago: Li, Mengyao, Yu Zhang, Ting Zhang, Yong Zuo, Ke Xiao, Jordi Arbiol, Jordi Llorca, Yu Liu, and Andreu Cabot. “Enhanced Thermoelectric Performance of N-Type Bi2Se3 Nanosheets through Sn Doping.” Nanomaterials. MDPI, 2021. https://doi.org/10.3390/nano11071827. ieee: M. Li et al., “Enhanced thermoelectric performance of n-type Bi2Se3 nanosheets through Sn doping,” Nanomaterials, vol. 11, no. 7. MDPI, 2021. ista: Li M, Zhang Y, Zhang T, Zuo Y, Xiao K, Arbiol J, Llorca J, Liu Y, Cabot A. 2021. Enhanced thermoelectric performance of n-type Bi2Se3 nanosheets through Sn doping. Nanomaterials. 11(7), 1827. mla: Li, Mengyao, et al. “Enhanced Thermoelectric Performance of N-Type Bi2Se3 Nanosheets through Sn Doping.” Nanomaterials, vol. 11, no. 7, 1827, MDPI, 2021, doi:10.3390/nano11071827. short: M. Li, Y. Zhang, T. Zhang, Y. Zuo, K. Xiao, J. Arbiol, J. Llorca, Y. Liu, A. Cabot, Nanomaterials 11 (2021). date_created: 2022-03-18T09:45:02Z date_published: 2021-07-14T00:00:00Z date_updated: 2023-08-17T07:08:30Z day: '14' ddc: - '540' department: - _id: MaIb doi: 10.3390/nano11071827 ec_funded: 1 external_id: isi: - '000676570000001' file: - access_level: open_access checksum: f28a8b5cf80f5605828359bb398463b0 content_type: application/pdf creator: dernst date_created: 2022-03-18T09:53:15Z date_updated: 2022-03-18T09:53:15Z file_id: '10859' file_name: 2021_Nanomaterials_Li.pdf file_size: 4867547 relation: main_file success: 1 file_date_updated: 2022-03-18T09:53:15Z has_accepted_license: '1' intvolume: ' 11' isi: 1 issue: '7' keyword: - General Materials Science - General Chemical Engineering language: - iso: eng month: '07' oa: 1 oa_version: Published Version project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: Nanomaterials publication_identifier: issn: - 2079-4991 publication_status: published publisher: MDPI quality_controlled: '1' scopus_import: '1' status: public title: Enhanced thermoelectric performance of n-type Bi2Se3 nanosheets through Sn doping tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 11 year: '2021' ... --- _id: '10834' abstract: - lang: eng text: Hematopoietic-specific protein 1 (Hem1) is an essential subunit of the WAVE regulatory complex (WRC) in immune cells. WRC is crucial for Arp2/3 complex activation and the protrusion of branched actin filament networks. Moreover, Hem1 loss of function in immune cells causes autoimmune diseases in humans. Here, we show that genetic removal of Hem1 in macrophages diminishes frequency and efficacy of phagocytosis as well as phagocytic cup formation in addition to defects in lamellipodial protrusion and migration. Moreover, Hem1-null macrophages displayed strong defects in cell adhesion despite unaltered podosome formation and concomitant extracellular matrix degradation. Specifically, dynamics of both adhesion and de-adhesion as well as concomitant phosphorylation of paxillin and focal adhesion kinase (FAK) were significantly compromised. Accordingly, disruption of WRC function in non-hematopoietic cells coincided with both defects in adhesion turnover and altered FAK and paxillin phosphorylation. Consistently, platelets exhibited reduced adhesion and diminished integrin αIIbβ3 activation upon WRC removal. Interestingly, adhesion phenotypes, but not lamellipodia formation, were partially rescued by small molecule activation of FAK. A full rescue of the phenotype, including lamellipodia formation, required not only the presence of WRCs but also their binding to and activation by Rac. Collectively, our results uncover that WRC impacts on integrin-dependent processes in a FAK-dependent manner, controlling formation and dismantling of adhesions, relevant for properly grabbing onto extracellular surfaces and particles during cell edge expansion, like in migration or phagocytosis. acknowledgement: We are grateful to Silvia Prettin, Ina Schleicher, and Petra Hagendorff for expert technical assistance; David Dettbarn for animal keeping and breeding; and Lothar Gröbe and Maria Höxter for cell sorting. We also thank Werner Tegge for peptides and Giorgio Scita for antibodies. This work was supported, in part, by the Deutsche Forschungsgemeinschaft (DFG), Priority Programm SPP1150 (to T.E.B.S., K.R., and M. Sixt), and by DFG grant GRK2223/1 (to K.R.). T.E.B.S. acknowledges support by the Helmholtz Society through HGF impulse fund W2/W3-066 and M. Schnoor by the Mexican Council for Science and Technology (CONACyT, 284292 ), Fund SEP-Cinvestav ( 108 ), and the Royal Society, UK (Newton Advanced Fellowship, NAF/R1/180017 ). article_processing_charge: No article_type: original author: - first_name: Stephanie full_name: Stahnke, Stephanie last_name: Stahnke - first_name: Hermann full_name: Döring, Hermann last_name: Döring - first_name: Charly full_name: Kusch, Charly last_name: Kusch - first_name: David J.J. full_name: de Gorter, David J.J. last_name: de Gorter - first_name: Sebastian full_name: Dütting, Sebastian last_name: Dütting - first_name: Aleks full_name: Guledani, Aleks last_name: Guledani - first_name: Irina full_name: Pleines, Irina last_name: Pleines - first_name: Michael full_name: Schnoor, Michael last_name: Schnoor - first_name: Michael K full_name: Sixt, Michael K id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87 last_name: Sixt orcid: 0000-0002-6620-9179 - first_name: Robert full_name: Geffers, Robert last_name: Geffers - first_name: Manfred full_name: Rohde, Manfred last_name: Rohde - first_name: Mathias full_name: Müsken, Mathias last_name: Müsken - first_name: Frieda full_name: Kage, Frieda last_name: Kage - first_name: Anika full_name: Steffen, Anika last_name: Steffen - first_name: Jan full_name: Faix, Jan last_name: Faix - first_name: Bernhard full_name: Nieswandt, Bernhard last_name: Nieswandt - first_name: Klemens full_name: Rottner, Klemens last_name: Rottner - first_name: Theresia E.B. full_name: Stradal, Theresia E.B. last_name: Stradal citation: ama: Stahnke S, Döring H, Kusch C, et al. Loss of Hem1 disrupts macrophage function and impacts migration, phagocytosis, and integrin-mediated adhesion. Current Biology. 2021;31(10):2051-2064.e8. doi:10.1016/j.cub.2021.02.043 apa: Stahnke, S., Döring, H., Kusch, C., de Gorter, D. J. J., Dütting, S., Guledani, A., … Stradal, T. E. B. (2021). Loss of Hem1 disrupts macrophage function and impacts migration, phagocytosis, and integrin-mediated adhesion. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2021.02.043 chicago: Stahnke, Stephanie, Hermann Döring, Charly Kusch, David J.J. de Gorter, Sebastian Dütting, Aleks Guledani, Irina Pleines, et al. “Loss of Hem1 Disrupts Macrophage Function and Impacts Migration, Phagocytosis, and Integrin-Mediated Adhesion.” Current Biology. Elsevier, 2021. https://doi.org/10.1016/j.cub.2021.02.043. ieee: S. Stahnke et al., “Loss of Hem1 disrupts macrophage function and impacts migration, phagocytosis, and integrin-mediated adhesion,” Current Biology, vol. 31, no. 10. Elsevier, p. 2051–2064.e8, 2021. ista: Stahnke S, Döring H, Kusch C, de Gorter DJJ, Dütting S, Guledani A, Pleines I, Schnoor M, Sixt MK, Geffers R, Rohde M, Müsken M, Kage F, Steffen A, Faix J, Nieswandt B, Rottner K, Stradal TEB. 2021. Loss of Hem1 disrupts macrophage function and impacts migration, phagocytosis, and integrin-mediated adhesion. Current Biology. 31(10), 2051–2064.e8. mla: Stahnke, Stephanie, et al. “Loss of Hem1 Disrupts Macrophage Function and Impacts Migration, Phagocytosis, and Integrin-Mediated Adhesion.” Current Biology, vol. 31, no. 10, Elsevier, 2021, p. 2051–2064.e8, doi:10.1016/j.cub.2021.02.043. short: S. Stahnke, H. Döring, C. Kusch, D.J.J. de Gorter, S. Dütting, A. Guledani, I. Pleines, M. Schnoor, M.K. Sixt, R. Geffers, M. Rohde, M. Müsken, F. Kage, A. Steffen, J. Faix, B. Nieswandt, K. Rottner, T.E.B. Stradal, Current Biology 31 (2021) 2051–2064.e8. date_created: 2022-03-08T07:51:04Z date_published: 2021-05-24T00:00:00Z date_updated: 2023-08-17T07:01:14Z day: '24' department: - _id: MiSi doi: 10.1016/j.cub.2021.02.043 external_id: isi: - '000654652200002' pmid: - '33711252' intvolume: ' 31' isi: 1 issue: '10' keyword: - General Agricultural and Biological Sciences - General Biochemistry - Genetics and Molecular Biology language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1101/2020.03.24.005835 month: '05' oa: 1 oa_version: Preprint page: 2051-2064.e8 pmid: 1 publication: Current Biology publication_identifier: issn: - 0960-9822 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Loss of Hem1 disrupts macrophage function and impacts migration, phagocytosis, and integrin-mediated adhesion type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 31 year: '2021' ... --- _id: '9935' abstract: - lang: eng text: "We present a deterministic O(log log log n)-round low-space Massively Parallel Computation (MPC) algorithm for the classical problem of (Δ+1)-coloring on n-vertex graphs. In this model, every machine has sublinear local space of size n^φ for any arbitrary constant φ \\in (0,1). Our algorithm works under the relaxed setting where each machine is allowed to perform exponential local computations, while respecting the n^φ space and bandwidth limitations.\r\n\r\nOur key technical contribution is a novel derandomization of the ingenious (Δ+1)-coloring local algorithm by Chang-Li-Pettie (STOC 2018, SIAM J. Comput. 2020). The Chang-Li-Pettie algorithm runs in T_local =poly(loglog n) rounds, which sets the state-of-the-art randomized round complexity for the problem in the local model. Our derandomization employs a combination of tools, notably pseudorandom generators (PRG) and bounded-independence hash functions.\r\n\r\nThe achieved round complexity of O(logloglog n) rounds matches the bound of log(T_local ), which currently serves an upper bound barrier for all known randomized algorithms for locally-checkable problems in this model. Furthermore, no deterministic sublogarithmic low-space MPC algorithms for the (Δ+1)-coloring problem have been known before." acknowledgement: This work is partially supported by a Weizmann-UK Making Connections Grant, the Centre for Discrete Mathematics and its Applications (DIMAP), IBM Faculty Award, EPSRC award EP/V01305X/1, European Research Council (ERC) Grant No. 949083, the Minerva foundation with funding from the Federal German Ministry for Education and Research No. 713238, and the European Union’s Horizon 2020 programme under the Marie Skłodowska-Curie grant agreement No 754411. article_processing_charge: No author: - first_name: Artur full_name: Czumaj, Artur last_name: Czumaj - first_name: Peter full_name: Davies, Peter id: 11396234-BB50-11E9-B24C-90FCE5697425 last_name: Davies orcid: 0000-0002-5646-9524 - first_name: Merav full_name: Parter, Merav last_name: Parter citation: ama: 'Czumaj A, Davies P, Parter M. Improved deterministic (Δ+1) coloring in low-space MPC. In: Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. Association for Computing Machinery; 2021:469–479. doi:10.1145/3465084.3467937' apa: 'Czumaj, A., Davies, P., & Parter, M. (2021). Improved deterministic (Δ+1) coloring in low-space MPC. In Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing (pp. 469–479). Virtual, Italy: Association for Computing Machinery. https://doi.org/10.1145/3465084.3467937' chicago: Czumaj, Artur, Peter Davies, and Merav Parter. “Improved Deterministic (Δ+1) Coloring in Low-Space MPC.” In Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, 469–479. Association for Computing Machinery, 2021. https://doi.org/10.1145/3465084.3467937. ieee: A. Czumaj, P. Davies, and M. Parter, “Improved deterministic (Δ+1) coloring in low-space MPC,” in Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Virtual, Italy, 2021, pp. 469–479. ista: 'Czumaj A, Davies P, Parter M. 2021. Improved deterministic (Δ+1) coloring in low-space MPC. Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. PODC: Symposium on Principles of Distributed Computing, 469–479.' mla: Czumaj, Artur, et al. “Improved Deterministic (Δ+1) Coloring in Low-Space MPC.” Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 469–479, doi:10.1145/3465084.3467937. short: A. Czumaj, P. Davies, M. Parter, in:, Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 469–479. conference: end_date: 2021-07-30 location: Virtual, Italy name: 'PODC: Symposium on Principles of Distributed Computing' start_date: 2021-07-26 date_created: 2021-08-17T18:14:15Z date_published: 2021-07-21T00:00:00Z date_updated: 2023-08-17T07:11:03Z day: '21' department: - _id: DaAl doi: 10.1145/3465084.3467937 ec_funded: 1 external_id: isi: - '000744439800048' isi: 1 language: - iso: eng main_file_link: - open_access: '1' url: http://wrap.warwick.ac.uk/153753 month: '07' oa: 1 oa_version: Submitted Version page: 469–479 project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing publication_identifier: isbn: - 978-1-4503-8548-0 publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' status: public title: Improved deterministic (Δ+1) coloring in low-space MPC type: conference user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 year: '2021' ... --- _id: '10856' abstract: - lang: eng text: "We study the properties of the maximal volume k-dimensional sections of the n-dimensional cube [−1, 1]n. We obtain a first order necessary condition for a k-dimensional subspace to be a local maximizer of the volume of such sections, which we formulate in a geometric way. We estimate the length of the projection of a vector of the standard basis of Rn onto a k-dimensional subspace that maximizes the volume of the intersection. We \x1Cnd the optimal upper bound on the volume of a planar section of the cube [−1, 1]n , n ≥ 2." acknowledgement: "The authors acknowledge the support of the grant of the Russian Government N 075-15-\r\n2019-1926. G.I.was supported also by the SwissNational Science Foundation grant 200021-179133. The authors are very grateful to the anonymous reviewer for valuable remarks." article_processing_charge: No article_type: original author: - first_name: Grigory full_name: Ivanov, Grigory id: 87744F66-5C6F-11EA-AFE0-D16B3DDC885E last_name: Ivanov - first_name: Igor full_name: Tsiutsiurupa, Igor last_name: Tsiutsiurupa citation: ama: Ivanov G, Tsiutsiurupa I. On the volume of sections of the cube. Analysis and Geometry in Metric Spaces. 2021;9(1):1-18. doi:10.1515/agms-2020-0103 apa: Ivanov, G., & Tsiutsiurupa, I. (2021). On the volume of sections of the cube. Analysis and Geometry in Metric Spaces. De Gruyter. https://doi.org/10.1515/agms-2020-0103 chicago: Ivanov, Grigory, and Igor Tsiutsiurupa. “On the Volume of Sections of the Cube.” Analysis and Geometry in Metric Spaces. De Gruyter, 2021. https://doi.org/10.1515/agms-2020-0103. ieee: G. Ivanov and I. Tsiutsiurupa, “On the volume of sections of the cube,” Analysis and Geometry in Metric Spaces, vol. 9, no. 1. De Gruyter, pp. 1–18, 2021. ista: Ivanov G, Tsiutsiurupa I. 2021. On the volume of sections of the cube. Analysis and Geometry in Metric Spaces. 9(1), 1–18. mla: Ivanov, Grigory, and Igor Tsiutsiurupa. “On the Volume of Sections of the Cube.” Analysis and Geometry in Metric Spaces, vol. 9, no. 1, De Gruyter, 2021, pp. 1–18, doi:10.1515/agms-2020-0103. short: G. Ivanov, I. Tsiutsiurupa, Analysis and Geometry in Metric Spaces 9 (2021) 1–18. date_created: 2022-03-18T09:25:14Z date_published: 2021-01-29T00:00:00Z date_updated: 2023-08-17T07:07:58Z day: '29' ddc: - '510' department: - _id: UlWa doi: 10.1515/agms-2020-0103 external_id: arxiv: - '2004.02674' isi: - '000734286800001' file: - access_level: open_access checksum: 7e615ac8489f5eae580b6517debfdc53 content_type: application/pdf creator: dernst date_created: 2022-03-18T09:31:59Z date_updated: 2022-03-18T09:31:59Z file_id: '10857' file_name: 2021_AnalysisMetricSpaces_Ivanov.pdf file_size: 789801 relation: main_file success: 1 file_date_updated: 2022-03-18T09:31:59Z has_accepted_license: '1' intvolume: ' 9' isi: 1 issue: '1' keyword: - Applied Mathematics - Geometry and Topology - Analysis language: - iso: eng month: '01' oa: 1 oa_version: Published Version page: 1-18 publication: Analysis and Geometry in Metric Spaces publication_identifier: issn: - 2299-3274 publication_status: published publisher: De Gruyter quality_controlled: '1' scopus_import: '1' status: public title: On the volume of sections of the cube tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 9 year: '2021' ... --- _id: '9933' abstract: - lang: eng text: "In this paper, we study the power and limitations of component-stable algorithms in the low-space model of Massively Parallel Computation (MPC). Recently Ghaffari, Kuhn and Uitto (FOCS 2019) introduced the class of component-stable low-space MPC algorithms, which are, informally, defined as algorithms for which the outputs reported by the nodes in different connected components are required to be independent. This very natural notion was introduced to capture most (if not all) of the known efficient MPC algorithms to date, and it was the first general class of MPC algorithms for which one can show non-trivial conditional lower bounds. In this paper we enhance the framework of component-stable algorithms and investigate its effect on the complexity of randomized and deterministic low-space MPC. Our key contributions include: 1) We revise and formalize the lifting approach of Ghaffari, Kuhn and Uitto. This requires a very delicate amendment of the notion of component stability, which allows us to fill in gaps in the earlier arguments. 2) We also extend the framework to obtain conditional lower bounds for deterministic algorithms and fine-grained lower bounds that depend on the maximum degree Δ. 3) We demonstrate a collection of natural graph problems for which non-component-stable algorithms break the conditional lower bound obtained for component-stable algorithms. This implies that, for both deterministic and randomized algorithms, component-stable algorithms are conditionally weaker than the non-component-stable ones.\r\n\r\nAltogether our results imply that component-stability might limit the computational power of the low-space MPC model, paving the way for improved upper bounds that escape the conditional lower bound setting of Ghaffari, Kuhn, and Uitto." acknowledgement: This work is partially supported by a Weizmann-UK Making Connections Grant, the Centre for Discrete Mathematics and its Applications (DIMAP), IBM Faculty Award, EPSRC award EP/V01305X/1, European Research Council (ERC) Grant No. 949083, the Minerva foundation with funding from the Federal German Ministry for Education and Research No. 713238, and the European Union’s Horizon 2020 programme under the Marie Skłodowska-Curie grant agreement No 754411. article_processing_charge: No author: - first_name: Artur full_name: Czumaj, Artur last_name: Czumaj - first_name: Peter full_name: Davies, Peter id: 11396234-BB50-11E9-B24C-90FCE5697425 last_name: Davies orcid: 0000-0002-5646-9524 - first_name: Merav full_name: Parter, Merav last_name: Parter citation: ama: 'Czumaj A, Davies P, Parter M. Component stability in low-space massively parallel computation. In: Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. Association for Computing Machinery; 2021:481–491. doi:10.1145/3465084.3467903' apa: 'Czumaj, A., Davies, P., & Parter, M. (2021). Component stability in low-space massively parallel computation. In Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing (pp. 481–491). Virtual, Italy: Association for Computing Machinery. https://doi.org/10.1145/3465084.3467903' chicago: Czumaj, Artur, Peter Davies, and Merav Parter. “Component Stability in Low-Space Massively Parallel Computation.” In Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, 481–491. Association for Computing Machinery, 2021. https://doi.org/10.1145/3465084.3467903. ieee: A. Czumaj, P. Davies, and M. Parter, “Component stability in low-space massively parallel computation,” in Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Virtual, Italy, 2021, pp. 481–491. ista: 'Czumaj A, Davies P, Parter M. 2021. Component stability in low-space massively parallel computation. Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. PODC: Principles of Distributed Computing, 481–491.' mla: Czumaj, Artur, et al. “Component Stability in Low-Space Massively Parallel Computation.” Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 481–491, doi:10.1145/3465084.3467903. short: A. Czumaj, P. Davies, M. Parter, in:, Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 481–491. conference: end_date: 2021-07-30 location: Virtual, Italy name: 'PODC: Principles of Distributed Computing' start_date: 2021-07-26 date_created: 2021-08-17T18:11:16Z date_published: 2021-07-21T00:00:00Z date_updated: 2023-08-17T07:11:32Z day: '21' department: - _id: DaAl doi: 10.1145/3465084.3467903 ec_funded: 1 external_id: arxiv: - '2106.01880' isi: - '000744439800049' isi: 1 language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2106.01880 month: '07' oa: 1 oa_version: Submitted Version page: 481–491 project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing publication_identifier: isbn: - '9781450385480' publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' status: public title: Component stability in low-space massively parallel computation type: conference user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 year: '2021' ... --- _id: '9627' abstract: - lang: eng text: "We compute the deficiency spaces of operators of the form \U0001D43B\U0001D434⊗̂ \U0001D43C+\U0001D43C⊗̂ \U0001D43B\U0001D435, for symmetric \U0001D43B\U0001D434 and self-adjoint \U0001D43B\U0001D435. This enables us to construct self-adjoint extensions (if they exist) by means of von Neumann's theory. The structure of the deficiency spaces for this case was asserted already in Ibort et al. [Boundary dynamics driven entanglement, J. Phys. A: Math. Theor. 47(38) (2014) 385301], but only proven under the restriction of \U0001D43B\U0001D435 having discrete, non-degenerate spectrum." acknowledgement: M. W. gratefully acknowledges financial support by the German Academic Scholarship Foundation (Studienstiftung des deutschen Volkes). T.W. thanks PAO Gazprom Neft, the Euler International Mathematical Institute in Saint Petersburg and ORISA GmbH for their financial support in the form of scholarships during his Master's and Bachelor's studies respectively. The authors want to thank Mark Malamud for pointing out the reference [1] to them. This work was supported by the Ministry of Science and Higher Education of the Russian Federation, agreement No 075-15-2019-1619. article_processing_charge: No article_type: original author: - first_name: Daniel full_name: Lenz, Daniel last_name: Lenz - first_name: Timon full_name: Weinmann, Timon last_name: Weinmann - first_name: Melchior full_name: Wirth, Melchior id: 88644358-0A0E-11EA-8FA5-49A33DDC885E last_name: Wirth orcid: 0000-0002-0519-4241 citation: ama: Lenz D, Weinmann T, Wirth M. Self-adjoint extensions of bipartite Hamiltonians. Proceedings of the Edinburgh Mathematical Society. 2021;64(3):443-447. doi:10.1017/S0013091521000080 apa: Lenz, D., Weinmann, T., & Wirth, M. (2021). Self-adjoint extensions of bipartite Hamiltonians. Proceedings of the Edinburgh Mathematical Society. Cambridge University Press. https://doi.org/10.1017/S0013091521000080 chicago: Lenz, Daniel, Timon Weinmann, and Melchior Wirth. “Self-Adjoint Extensions of Bipartite Hamiltonians.” Proceedings of the Edinburgh Mathematical Society. Cambridge University Press, 2021. https://doi.org/10.1017/S0013091521000080. ieee: D. Lenz, T. Weinmann, and M. Wirth, “Self-adjoint extensions of bipartite Hamiltonians,” Proceedings of the Edinburgh Mathematical Society, vol. 64, no. 3. Cambridge University Press, pp. 443–447, 2021. ista: Lenz D, Weinmann T, Wirth M. 2021. Self-adjoint extensions of bipartite Hamiltonians. Proceedings of the Edinburgh Mathematical Society. 64(3), 443–447. mla: Lenz, Daniel, et al. “Self-Adjoint Extensions of Bipartite Hamiltonians.” Proceedings of the Edinburgh Mathematical Society, vol. 64, no. 3, Cambridge University Press, 2021, pp. 443–47, doi:10.1017/S0013091521000080. short: D. Lenz, T. Weinmann, M. Wirth, Proceedings of the Edinburgh Mathematical Society 64 (2021) 443–447. date_created: 2021-07-04T22:01:24Z date_published: 2021-08-01T00:00:00Z date_updated: 2023-08-17T07:12:05Z day: '01' department: - _id: JaMa doi: 10.1017/S0013091521000080 external_id: arxiv: - '1912.03670' isi: - '000721363700003' intvolume: ' 64' isi: 1 issue: '3' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1017/S0013091521000080 month: '08' oa: 1 oa_version: Published Version page: 443-447 publication: Proceedings of the Edinburgh Mathematical Society publication_identifier: eissn: - 1464-3839 issn: - 0013-0915 publication_status: published publisher: Cambridge University Press quality_controlled: '1' scopus_import: '1' status: public title: Self-adjoint extensions of bipartite Hamiltonians type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 64 year: '2021' ... --- _id: '7901' abstract: - lang: eng text: We derive rigorously the leading order of the correlation energy of a Fermi gas in a scaling regime of high density and weak interaction. The result verifies the prediction of the random-phase approximation. Our proof refines the method of collective bosonization in three dimensions. We approximately diagonalize an effective Hamiltonian describing approximately bosonic collective excitations around the Hartree–Fock state, while showing that gapless and non-collective excitations have only a negligible effect on the ground state energy. acknowledgement: We thank Christian Hainzl for helpful discussions and a referee for very careful reading of the paper and many helpful suggestions. NB and RS were supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No. 694227). Part of the research of NB was conducted on the RZD18 Nice–Milan–Vienna–Moscow. NB thanks Elliott H. Lieb and Peter Otte for explanations about the Luttinger model. PTN has received funding from the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy (EXC-2111-390814868). MP acknowledges financial support from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (ERC StG MaMBoQ, grant agreement No. 802901). BS gratefully acknowledges financial support from the NCCR SwissMAP, from the Swiss National Science Foundation through the Grant “Dynamical and energetic properties of Bose-Einstein condensates” and from the European Research Council through the ERC-AdG CLaQS (grant agreement No. 834782). All authors acknowledge support for workshop participation from Mathematisches Forschungsinstitut Oberwolfach (Leibniz Association). NB, PTN, BS, and RS acknowledge support for workshop participation from Fondation des Treilles. article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Niels P full_name: Benedikter, Niels P id: 3DE6C32A-F248-11E8-B48F-1D18A9856A87 last_name: Benedikter orcid: 0000-0002-1071-6091 - first_name: Phan Thành full_name: Nam, Phan Thành last_name: Nam - first_name: Marcello full_name: Porta, Marcello last_name: Porta - first_name: Benjamin full_name: Schlein, Benjamin last_name: Schlein - first_name: Robert full_name: Seiringer, Robert id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 citation: ama: Benedikter NP, Nam PT, Porta M, Schlein B, Seiringer R. Correlation energy of a weakly interacting Fermi gas. Inventiones Mathematicae. 2021;225:885-979. doi:10.1007/s00222-021-01041-5 apa: Benedikter, N. P., Nam, P. T., Porta, M., Schlein, B., & Seiringer, R. (2021). Correlation energy of a weakly interacting Fermi gas. Inventiones Mathematicae. Springer. https://doi.org/10.1007/s00222-021-01041-5 chicago: Benedikter, Niels P, Phan Thành Nam, Marcello Porta, Benjamin Schlein, and Robert Seiringer. “Correlation Energy of a Weakly Interacting Fermi Gas.” Inventiones Mathematicae. Springer, 2021. https://doi.org/10.1007/s00222-021-01041-5. ieee: N. P. Benedikter, P. T. Nam, M. Porta, B. Schlein, and R. Seiringer, “Correlation energy of a weakly interacting Fermi gas,” Inventiones Mathematicae, vol. 225. Springer, pp. 885–979, 2021. ista: Benedikter NP, Nam PT, Porta M, Schlein B, Seiringer R. 2021. Correlation energy of a weakly interacting Fermi gas. Inventiones Mathematicae. 225, 885–979. mla: Benedikter, Niels P., et al. “Correlation Energy of a Weakly Interacting Fermi Gas.” Inventiones Mathematicae, vol. 225, Springer, 2021, pp. 885–979, doi:10.1007/s00222-021-01041-5. short: N.P. Benedikter, P.T. Nam, M. Porta, B. Schlein, R. Seiringer, Inventiones Mathematicae 225 (2021) 885–979. date_created: 2020-05-28T16:48:20Z date_published: 2021-05-03T00:00:00Z date_updated: 2023-08-21T06:30:30Z day: '03' ddc: - '510' department: - _id: RoSe doi: 10.1007/s00222-021-01041-5 ec_funded: 1 external_id: arxiv: - '2005.08933' isi: - '000646573600001' file: - access_level: open_access checksum: f38c79dfd828cdc7f49a34b37b83d376 content_type: application/pdf creator: dernst date_created: 2022-05-16T12:23:40Z date_updated: 2022-05-16T12:23:40Z file_id: '11386' file_name: 2021_InventMath_Benedikter.pdf file_size: 1089319 relation: main_file success: 1 file_date_updated: 2022-05-16T12:23:40Z has_accepted_license: '1' intvolume: ' 225' isi: 1 language: - iso: eng month: '05' oa: 1 oa_version: Published Version page: 885-979 project: - _id: B67AFEDC-15C9-11EA-A837-991A96BB2854 name: IST Austria Open Access Fund - _id: 25C6DC12-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '694227' name: Analysis of quantum many-body systems publication: Inventiones Mathematicae publication_identifier: eissn: - 1432-1297 issn: - 0020-9910 publication_status: published publisher: Springer quality_controlled: '1' scopus_import: '1' status: public title: Correlation energy of a weakly interacting Fermi gas tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 225 year: '2021' ... --- _id: '13456' abstract: - lang: eng text: While most simulations of the epoch of reionization have focused on single-stellar populations in star-forming dwarf galaxies, products of binary evolution are expected to significantly contribute to emissions of hydrogen-ionizing photons. Among these products are stripped stars (or helium stars), which have their envelopes stripped from interactions with binary companions, leaving an exposed helium core. Previous work has suggested these stripped stars can dominate the Lyman Continuum (LyC) photon output of high-redshift, low-luminosity galaxies post-starburst. Other sources of hard radiation in the early universe include zero-metallicity Population iii stars, which may have similar spectral energy distribution (SED) properties to galaxies with radiation dominated by stripped-star emissions. Here, we use four metrics (the power-law exponent over wavelength intervals 240–500 Å, 600–900 Å, and 1200–2000 Å, and the ratio of total luminosity in FUV wavelengths to LyC wavelengths) to compare the SEDs of simulated galaxies with only single-stellar evolution, galaxies containing stripped stars, and galaxies containing Population iii stars, with four different initial mass functions (IMFs). We find that stripped stars significantly alter SEDs in the LyC range of galaxies at the epoch of reionization. SEDs in galaxies with stripped stars have lower power-law indices in the LyC range and lower FUV to LyC luminosity ratios. These differences in SEDs are present at all considered luminosities (${M}_{\mathrm{UV}}\gt -15$, AB system), and are most pronounced for lower-luminosity galaxies. Intrinsic SEDs as well as those with interstellar medium absorption of galaxies with stripped stars and Population iii stars are found to be distinct for all tested Population iii IMFs. article_number: '5' article_processing_charge: No article_type: original author: - first_name: Elizabeth full_name: Berzin, Elizabeth last_name: Berzin - first_name: Amy full_name: Secunda, Amy last_name: Secunda - first_name: Renyue full_name: Cen, Renyue last_name: Cen - first_name: Alexander full_name: Menegas, Alexander last_name: Menegas - first_name: Ylva Louise Linsdotter full_name: Götberg, Ylva Louise Linsdotter id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d last_name: Götberg orcid: 0000-0002-6960-6911 citation: ama: Berzin E, Secunda A, Cen R, Menegas A, Götberg YLL. Spectral signatures of population III and envelope-stripped stars in galaxies at the epoch of reionization. The Astrophysical Journal. 2021;918(1). doi:10.3847/1538-4357/ac0af6 apa: Berzin, E., Secunda, A., Cen, R., Menegas, A., & Götberg, Y. L. L. (2021). Spectral signatures of population III and envelope-stripped stars in galaxies at the epoch of reionization. The Astrophysical Journal. American Astronomical Society. https://doi.org/10.3847/1538-4357/ac0af6 chicago: Berzin, Elizabeth, Amy Secunda, Renyue Cen, Alexander Menegas, and Ylva Louise Linsdotter Götberg. “Spectral Signatures of Population III and Envelope-Stripped Stars in Galaxies at the Epoch of Reionization.” The Astrophysical Journal. American Astronomical Society, 2021. https://doi.org/10.3847/1538-4357/ac0af6. ieee: E. Berzin, A. Secunda, R. Cen, A. Menegas, and Y. L. L. Götberg, “Spectral signatures of population III and envelope-stripped stars in galaxies at the epoch of reionization,” The Astrophysical Journal, vol. 918, no. 1. American Astronomical Society, 2021. ista: Berzin E, Secunda A, Cen R, Menegas A, Götberg YLL. 2021. Spectral signatures of population III and envelope-stripped stars in galaxies at the epoch of reionization. The Astrophysical Journal. 918(1), 5. mla: Berzin, Elizabeth, et al. “Spectral Signatures of Population III and Envelope-Stripped Stars in Galaxies at the Epoch of Reionization.” The Astrophysical Journal, vol. 918, no. 1, 5, American Astronomical Society, 2021, doi:10.3847/1538-4357/ac0af6. short: E. Berzin, A. Secunda, R. Cen, A. Menegas, Y.L.L. Götberg, The Astrophysical Journal 918 (2021). date_created: 2023-08-03T10:11:24Z date_published: 2021-08-27T00:00:00Z date_updated: 2023-08-21T11:44:50Z day: '27' doi: 10.3847/1538-4357/ac0af6 extern: '1' external_id: arxiv: - '2102.08408' intvolume: ' 918' issue: '1' keyword: - Space and Planetary Science - Astronomy and Astrophysics language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.3847/1538-4357/ac0af6 month: '08' oa: 1 oa_version: Published Version publication: The Astrophysical Journal publication_identifier: eissn: - 1538-4357 issn: - 0004-637X publication_status: published publisher: American Astronomical Society quality_controlled: '1' scopus_import: '1' status: public title: Spectral signatures of population III and envelope-stripped stars in galaxies at the epoch of reionization type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 918 year: '2021' ... --- _id: '13458' abstract: - lang: eng text: Most massive stars experience binary interactions in their lifetimes that can alter both the surface and core structure of the stripped star with significant effects on their ultimate fate as core-collapse supernovae. However, core-collapse supernovae simulations to date have focused almost exclusively on the evolution of single stars. We present a systematic simulation study of single and binary-stripped stars with the same initial mass as candidates for core-collapse supernovae (11–21 M⊙). Generally, we find that binary-stripped stars core tend to have a smaller compactness parameter, with a more prominent, deeper silicon/oxygen interface, and explode preferentially to the corresponding single stars of the same initial mass. Such a dichotomy of behavior between these two modes of evolution would have important implications for supernovae statistics, including the final neutron star masses, explosion energies, and nucleosynthetic yields. Binary-stripped remnants are also well poised to populate the possible mass gap between the heaviest neutron stars and the lightest black holes. Our work presents an improvement along two fronts, as we self-consistently account for the pre-collapse stellar evolution and the subsequent explosion outcome. Even so, our results emphasize the need for more detailed stellar evolutionary models to capture the sensitive nature of explosion outcome. article_number: L5 article_processing_charge: No article_type: original author: - first_name: David full_name: Vartanyan, David last_name: Vartanyan - first_name: Eva full_name: Laplace, Eva last_name: Laplace - first_name: Mathieu full_name: Renzo, Mathieu last_name: Renzo - first_name: Ylva Louise Linsdotter full_name: Götberg, Ylva Louise Linsdotter id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d last_name: Götberg orcid: 0000-0002-6960-6911 - first_name: Adam full_name: Burrows, Adam last_name: Burrows - first_name: Selma E. full_name: de Mink, Selma E. last_name: de Mink citation: ama: Vartanyan D, Laplace E, Renzo M, Götberg YLL, Burrows A, de Mink SE. Binary-stripped stars as core-collapse supernovae progenitors. The Astrophysical Journal Letters. 2021;916(1). doi:10.3847/2041-8213/ac0b42 apa: Vartanyan, D., Laplace, E., Renzo, M., Götberg, Y. L. L., Burrows, A., & de Mink, S. E. (2021). Binary-stripped stars as core-collapse supernovae progenitors. The Astrophysical Journal Letters. American Astronomical Society. https://doi.org/10.3847/2041-8213/ac0b42 chicago: Vartanyan, David, Eva Laplace, Mathieu Renzo, Ylva Louise Linsdotter Götberg, Adam Burrows, and Selma E. de Mink. “Binary-Stripped Stars as Core-Collapse Supernovae Progenitors.” The Astrophysical Journal Letters. American Astronomical Society, 2021. https://doi.org/10.3847/2041-8213/ac0b42. ieee: D. Vartanyan, E. Laplace, M. Renzo, Y. L. L. Götberg, A. Burrows, and S. E. de Mink, “Binary-stripped stars as core-collapse supernovae progenitors,” The Astrophysical Journal Letters, vol. 916, no. 1. American Astronomical Society, 2021. ista: Vartanyan D, Laplace E, Renzo M, Götberg YLL, Burrows A, de Mink SE. 2021. Binary-stripped stars as core-collapse supernovae progenitors. The Astrophysical Journal Letters. 916(1), L5. mla: Vartanyan, David, et al. “Binary-Stripped Stars as Core-Collapse Supernovae Progenitors.” The Astrophysical Journal Letters, vol. 916, no. 1, L5, American Astronomical Society, 2021, doi:10.3847/2041-8213/ac0b42. short: D. Vartanyan, E. Laplace, M. Renzo, Y.L.L. Götberg, A. Burrows, S.E. de Mink, The Astrophysical Journal Letters 916 (2021). date_created: 2023-08-03T10:11:45Z date_published: 2021-07-23T00:00:00Z date_updated: 2023-08-21T11:37:48Z day: '23' doi: 10.3847/2041-8213/ac0b42 extern: '1' external_id: arxiv: - '2104.03317' intvolume: ' 916' issue: '1' keyword: - Space and Planetary Science - Astronomy and Astrophysics language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2104.03317 month: '07' oa: 1 oa_version: Preprint publication: The Astrophysical Journal Letters publication_identifier: eissn: - 2041-8213 issn: - 2041-8205 publication_status: published publisher: American Astronomical Society quality_controlled: '1' scopus_import: '1' status: public title: Binary-stripped stars as core-collapse supernovae progenitors type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 916 year: '2021' ... --- _id: '13459' abstract: - lang: eng text: The B emission-line stars are rapid rotators that were probably spun up by mass and angular momentum accretion through mass transfer in an interacting binary. Mass transfer will strip the donor star of its envelope to create a small and hot subdwarf remnant. Here we report on Hubble Space Telescope/STIS far-ultraviolet spectroscopy of a sample of Be stars that reveals the presence of the hot sdO companion through the calculation of cross-correlation functions of the observed and model spectra. We clearly detect the spectral signature of the sdO star in 10 of the 13 stars in the sample, and the spectral signals indicate that the sdO stars are hot, relatively faint, and slowly rotating as predicted by models. A comparison of their temperatures and radii with evolutionary tracks indicates that the sdO stars occupy the relatively long-lived, He-core burning stage. Only 1 of the 10 detections was a known binary prior to this investigation, which emphasizes the difficulty of finding such Be+sdO binaries through optical spectroscopy. However, these results and others indicate that many Be stars probably host hot subdwarf companions. article_number: '248' article_processing_charge: No article_type: original author: - first_name: Luqian full_name: Wang, Luqian last_name: Wang - first_name: Douglas R. full_name: Gies, Douglas R. last_name: Gies - first_name: Geraldine J. full_name: Peters, Geraldine J. last_name: Peters - first_name: Ylva Louise Linsdotter full_name: Götberg, Ylva Louise Linsdotter id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d last_name: Götberg orcid: 0000-0002-6960-6911 - first_name: S. Drew full_name: Chojnowski, S. Drew last_name: Chojnowski - first_name: Kathryn V. full_name: Lester, Kathryn V. last_name: Lester - first_name: Steve B. full_name: Howell, Steve B. last_name: Howell citation: ama: Wang L, Gies DR, Peters GJ, et al. The detection and characterization of Be+sdO binaries from HST/STIS FUV spectroscopy. The Astronomical Journal. 2021;161(5). doi:10.3847/1538-3881/abf144 apa: Wang, L., Gies, D. R., Peters, G. J., Götberg, Y. L. L., Chojnowski, S. D., Lester, K. V., & Howell, S. B. (2021). The detection and characterization of Be+sdO binaries from HST/STIS FUV spectroscopy. The Astronomical Journal. American Astronomical Society. https://doi.org/10.3847/1538-3881/abf144 chicago: Wang, Luqian, Douglas R. Gies, Geraldine J. Peters, Ylva Louise Linsdotter Götberg, S. Drew Chojnowski, Kathryn V. Lester, and Steve B. Howell. “The Detection and Characterization of Be+sdO Binaries from HST/STIS FUV Spectroscopy.” The Astronomical Journal. American Astronomical Society, 2021. https://doi.org/10.3847/1538-3881/abf144. ieee: L. Wang et al., “The detection and characterization of Be+sdO binaries from HST/STIS FUV spectroscopy,” The Astronomical Journal, vol. 161, no. 5. American Astronomical Society, 2021. ista: Wang L, Gies DR, Peters GJ, Götberg YLL, Chojnowski SD, Lester KV, Howell SB. 2021. The detection and characterization of Be+sdO binaries from HST/STIS FUV spectroscopy. The Astronomical Journal. 161(5), 248. mla: Wang, Luqian, et al. “The Detection and Characterization of Be+sdO Binaries from HST/STIS FUV Spectroscopy.” The Astronomical Journal, vol. 161, no. 5, 248, American Astronomical Society, 2021, doi:10.3847/1538-3881/abf144. short: L. Wang, D.R. Gies, G.J. Peters, Y.L.L. Götberg, S.D. Chojnowski, K.V. Lester, S.B. Howell, The Astronomical Journal 161 (2021). date_created: 2023-08-03T10:11:57Z date_published: 2021-05-04T00:00:00Z date_updated: 2023-08-21T11:35:50Z day: '04' doi: 10.3847/1538-3881/abf144 extern: '1' external_id: arxiv: - '2103.13642' intvolume: ' 161' issue: '5' keyword: - Space and Planetary Science - Astronomy and Astrophysics language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2103.13642 month: '05' oa: 1 oa_version: Preprint publication: The Astronomical Journal publication_identifier: eissn: - 1538-3881 issn: - 0004-6256 publication_status: published publisher: American Astronomical Society quality_controlled: '1' scopus_import: '1' status: public title: The detection and characterization of Be+sdO binaries from HST/STIS FUV spectroscopy type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 161 year: '2021' ... --- _id: '13457' abstract: - lang: eng text: "Context. Observations of massive stars in open clusters younger than ∼8 Myr have shown that a majority of them are in binary systems, most of which will interact during their life. While these can be used as a proxy of the initial multiplicity properties, studying populations of massive stars older than ∼20 Myr allows us to probe the outcome of these interactions after a significant number of systems have experienced mass and angular momentum transfer and may even have merged.\r\n\r\nAims. Using multi-epoch integral-field spectroscopy, we aim to investigate the multiplicity properties of the massive-star population in the dense core of the ∼40 Myr old cluster NGC 330 in the Small Magellanic Cloud in order to search for possible imprints of stellar evolution on the multiplicity properties.\r\n\r\nMethods. We obtained six epochs of VLT/MUSE observations operated in wide-field mode with the extended wavelength setup and supported by adaptive optics. We extracted spectra and measured radial velocities for stars brighter than mF814W = 19. We identified single-lined spectroscopic binaries through significant RV variability with a peak-to-peak amplitude larger than 20 km s−1. We also identified double-lined spectroscopic binaries, and quantified the observational biases for binary detection. In particular, we took into account that binary systems with similar line strengths are difficult to detect in our data set.\r\n\r\nResults. The observed spectroscopic binary fraction among stars brighter than mF814W = 19 (approximately 5.5 M⊙ on the main sequence) is fSBobs = 13.2 ± 2.0%. Considering period and mass ratio ranges from log(P) = 0.15−3.5 (about 1.4 to 3160 d), q = 0.1−1.0, and a representative set of orbital parameter distributions, we find a bias-corrected close binary fraction of fcl = 34−7+8%. This fraction seems to decline for the fainter stars, which indicates either that the close binary fraction drops in the B-type domain, or that the period distribution becomes more heavily weighted toward longer orbital periods. We further find that both fractions vary strongly in different regions of the color-magnitude diagram, which corresponds to different evolutionary stages. This probably reveals the imprint of the binary history of different groups of stars. In particular, we find that the observed spectroscopic binary fraction of Be stars (fSBobs = 2 ± 2%) is significantly lower than that of B-type stars (fSBobs = 9 ± 2%).\r\n\r\nConclusions. We provide the first homogeneous radial velocity study of a large sample of B-type stars at a low metallicity ([Fe/H] ≲ −1.0). The overall bias-corrected close binary fraction (log(P) < 3.5 d) of the B-star population in NGC 330 is lower than the fraction reported for younger Galactic and Large Magellanic Cloud clusters in previous works. More data are needed, however, to establish whether the observed differences are caused by an age or a metallicity effect." article_number: A70 article_processing_charge: No article_type: original author: - first_name: J. full_name: Bodensteiner, J. last_name: Bodensteiner - first_name: H. full_name: Sana, H. last_name: Sana - first_name: C. full_name: Wang, C. last_name: Wang - first_name: N. full_name: Langer, N. last_name: Langer - first_name: L. full_name: Mahy, L. last_name: Mahy - first_name: G. full_name: Banyard, G. last_name: Banyard - first_name: A. full_name: de Koter, A. last_name: de Koter - first_name: S. E. full_name: de Mink, S. E. last_name: de Mink - first_name: C. J. full_name: Evans, C. J. last_name: Evans - first_name: Ylva Louise Linsdotter full_name: Götberg, Ylva Louise Linsdotter id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d last_name: Götberg orcid: 0000-0002-6960-6911 - first_name: L. R. full_name: Patrick, L. R. last_name: Patrick - first_name: F. R. N. full_name: Schneider, F. R. N. last_name: Schneider - first_name: F. full_name: Tramper, F. last_name: Tramper citation: ama: Bodensteiner J, Sana H, Wang C, et al. The young massive SMC cluster NGC 330 seen by MUSE. II. Multiplicity properties of the massive-star population. Astronomy & Astrophysics. 2021;652. doi:10.1051/0004-6361/202140507 apa: Bodensteiner, J., Sana, H., Wang, C., Langer, N., Mahy, L., Banyard, G., … Tramper, F. (2021). The young massive SMC cluster NGC 330 seen by MUSE. II. Multiplicity properties of the massive-star population. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/202140507 chicago: Bodensteiner, J., H. Sana, C. Wang, N. Langer, L. Mahy, G. Banyard, A. de Koter, et al. “The Young Massive SMC Cluster NGC 330 Seen by MUSE. II. Multiplicity Properties of the Massive-Star Population.” Astronomy & Astrophysics. EDP Sciences, 2021. https://doi.org/10.1051/0004-6361/202140507. ieee: J. Bodensteiner et al., “The young massive SMC cluster NGC 330 seen by MUSE. II. Multiplicity properties of the massive-star population,” Astronomy & Astrophysics, vol. 652. EDP Sciences, 2021. ista: Bodensteiner J, Sana H, Wang C, Langer N, Mahy L, Banyard G, de Koter A, de Mink SE, Evans CJ, Götberg YLL, Patrick LR, Schneider FRN, Tramper F. 2021. The young massive SMC cluster NGC 330 seen by MUSE. II. Multiplicity properties of the massive-star population. Astronomy & Astrophysics. 652, A70. mla: Bodensteiner, J., et al. “The Young Massive SMC Cluster NGC 330 Seen by MUSE. II. Multiplicity Properties of the Massive-Star Population.” Astronomy & Astrophysics, vol. 652, A70, EDP Sciences, 2021, doi:10.1051/0004-6361/202140507. short: J. Bodensteiner, H. Sana, C. Wang, N. Langer, L. Mahy, G. Banyard, A. de Koter, S.E. de Mink, C.J. Evans, Y.L.L. Götberg, L.R. Patrick, F.R.N. Schneider, F. Tramper, Astronomy & Astrophysics 652 (2021). date_created: 2023-08-03T10:11:34Z date_published: 2021-08-12T00:00:00Z date_updated: 2023-08-21T11:49:36Z day: '12' doi: 10.1051/0004-6361/202140507 extern: '1' external_id: arxiv: - '2104.13409' intvolume: ' 652' keyword: - Space and Planetary Science - Astronomy and Astrophysics language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1051/0004-6361/202140507 month: '08' oa: 1 oa_version: Published Version publication: Astronomy & Astrophysics publication_identifier: eissn: - 1432-0746 issn: - 0004-6361 publication_status: published publisher: EDP Sciences quality_controlled: '1' scopus_import: '1' status: public title: The young massive SMC cluster NGC 330 seen by MUSE. II. Multiplicity properties of the massive-star population type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 652 year: '2021' ... --- _id: '13455' abstract: - lang: eng text: The majority of massive stars live in binary or multiple systems and will interact with a companion during their lifetimes, which helps to explain the observed diversity of core-collapse supernovae. Donor stars in binary systems can lose most of their hydrogen-rich envelopes through mass transfer. As a result, not only are the surface properties affected, but so is the core structure. However, most calculations of the core-collapse properties of massive stars rely on single-star models. We present a systematic study of the difference between the pre-supernova structures of single stars and stars of the same initial mass (11–21 M⊙) that have been stripped due to stable post-main-sequence mass transfer at solar metallicity. We present the pre-supernova core composition with novel diagrams that give an intuitive representation of the isotope distribution. As shown in previous studies, at the edge of the carbon-oxygen core, the binary-stripped star models contain an extended gradient of carbon, oxygen, and neon. This layer remains until core collapse and is more extended in mass for higher initial stellar masses. It originates from the receding of the convective helium core during core helium burning in binary-stripped stars, which does not occur in single-star models. We find that this same evolutionary phase leads to systematic differences in the final density and nuclear energy generation profiles. Binary-stripped star models have systematically higher total masses of carbon at the moment of core collapse compared to single-star models, which likely results in systematically different supernova yields. In about half of our models, the silicon-burning and oxygen-rich layers merge after core silicon burning. We discuss the implications of our findings for the “explodability”, supernova observations, and nucleosynthesis of these stars. Our models are publicly available and can be readily used as input for detailed supernova simulations. article_number: A58 article_processing_charge: No article_type: original author: - first_name: E. full_name: Laplace, E. last_name: Laplace - first_name: S. full_name: Justham, S. last_name: Justham - first_name: M. full_name: Renzo, M. last_name: Renzo - first_name: Ylva Louise Linsdotter full_name: Götberg, Ylva Louise Linsdotter id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d last_name: Götberg orcid: 0000-0002-6960-6911 - first_name: R. full_name: Farmer, R. last_name: Farmer - first_name: D. full_name: Vartanyan, D. last_name: Vartanyan - first_name: S. E. full_name: de Mink, S. E. last_name: de Mink citation: ama: 'Laplace E, Justham S, Renzo M, et al. Different to the core: The pre-supernova structures of massive single and binary-stripped stars. Astronomy & Astrophysics. 2021;656. doi:10.1051/0004-6361/202140506' apa: 'Laplace, E., Justham, S., Renzo, M., Götberg, Y. L. L., Farmer, R., Vartanyan, D., & de Mink, S. E. (2021). Different to the core: The pre-supernova structures of massive single and binary-stripped stars. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/202140506' chicago: 'Laplace, E., S. Justham, M. Renzo, Ylva Louise Linsdotter Götberg, R. Farmer, D. Vartanyan, and S. E. de Mink. “Different to the Core: The Pre-Supernova Structures of Massive Single and Binary-Stripped Stars.” Astronomy & Astrophysics. EDP Sciences, 2021. https://doi.org/10.1051/0004-6361/202140506.' ieee: 'E. Laplace et al., “Different to the core: The pre-supernova structures of massive single and binary-stripped stars,” Astronomy & Astrophysics, vol. 656. EDP Sciences, 2021.' ista: 'Laplace E, Justham S, Renzo M, Götberg YLL, Farmer R, Vartanyan D, de Mink SE. 2021. Different to the core: The pre-supernova structures of massive single and binary-stripped stars. Astronomy & Astrophysics. 656, A58.' mla: 'Laplace, E., et al. “Different to the Core: The Pre-Supernova Structures of Massive Single and Binary-Stripped Stars.” Astronomy & Astrophysics, vol. 656, A58, EDP Sciences, 2021, doi:10.1051/0004-6361/202140506.' short: E. Laplace, S. Justham, M. Renzo, Y.L.L. Götberg, R. Farmer, D. Vartanyan, S.E. de Mink, Astronomy & Astrophysics 656 (2021). date_created: 2023-08-03T10:11:09Z date_published: 2021-12-02T00:00:00Z date_updated: 2023-08-21T11:49:15Z day: '02' doi: 10.1051/0004-6361/202140506 external_id: arxiv: - '2102.05036' intvolume: ' 656' keyword: - Space and Planetary Science - Astronomy and Astrophysics language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1051/0004-6361/202140506 month: '12' oa: 1 oa_version: Published Version publication: Astronomy & Astrophysics publication_identifier: eissn: - 1432-0746 issn: - 0004-6361 publication_status: published publisher: EDP Sciences quality_controlled: '1' scopus_import: '1' status: public title: 'Different to the core: The pre-supernova structures of massive single and binary-stripped stars' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 656 year: '2021' ... --- _id: '13454' abstract: - lang: eng text: Helium star–carbon-oxygen white dwarf (CO WD) binaries are potential single-degenerate progenitor systems of thermonuclear supernovae. Revisiting a set of binary evolution calculations using the stellar evolution code MESA, we refine our previous predictions about which systems can lead to a thermonuclear supernova and then characterize the properties of the helium star donor at the time of explosion. We convert these model properties to near-UV/optical magnitudes assuming a blackbody spectrum and support this approach using a matched stellar atmosphere model. These models will be valuable to compare with pre-explosion imaging for future supernovae, though we emphasize the observational difficulty of detecting extremely blue companions. The pre-explosion source detected in association with SN 2012Z has been interpreted as a helium star binary containing an initially ultra-massive WD in a multiday orbit. However, extending our binary models to initial CO WD masses of up to 1.2 M⊙, we find that these systems undergo off-center carbon ignitions and thus are not expected to produce thermonuclear supernovae. This tension suggests that, if SN 2012Z is associated with a helium star–WD binary, then the pre-explosion optical light from the system must be significantly modified by the binary environment and/or the WD does not have a carbon-rich interior composition. article_number: '241' article_processing_charge: No article_type: original author: - first_name: Tin Long Sunny full_name: Wong, Tin Long Sunny last_name: Wong - first_name: Josiah full_name: Schwab, Josiah last_name: Schwab - first_name: Ylva Louise Linsdotter full_name: Götberg, Ylva Louise Linsdotter id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d last_name: Götberg orcid: 0000-0002-6960-6911 citation: ama: Wong TLS, Schwab J, Götberg YLL. Pre-explosion properties of Helium star donors to thermonuclear supernovae. The Astrophysical Journal. 2021;922(2). doi:10.3847/1538-4357/ac27ae apa: Wong, T. L. S., Schwab, J., & Götberg, Y. L. L. (2021). Pre-explosion properties of Helium star donors to thermonuclear supernovae. The Astrophysical Journal. American Astronomical Society. https://doi.org/10.3847/1538-4357/ac27ae chicago: Wong, Tin Long Sunny, Josiah Schwab, and Ylva Louise Linsdotter Götberg. “Pre-Explosion Properties of Helium Star Donors to Thermonuclear Supernovae.” The Astrophysical Journal. American Astronomical Society, 2021. https://doi.org/10.3847/1538-4357/ac27ae. ieee: T. L. S. Wong, J. Schwab, and Y. L. L. Götberg, “Pre-explosion properties of Helium star donors to thermonuclear supernovae,” The Astrophysical Journal, vol. 922, no. 2. American Astronomical Society, 2021. ista: Wong TLS, Schwab J, Götberg YLL. 2021. Pre-explosion properties of Helium star donors to thermonuclear supernovae. The Astrophysical Journal. 922(2), 241. mla: Wong, Tin Long Sunny, et al. “Pre-Explosion Properties of Helium Star Donors to Thermonuclear Supernovae.” The Astrophysical Journal, vol. 922, no. 2, 241, American Astronomical Society, 2021, doi:10.3847/1538-4357/ac27ae. short: T.L.S. Wong, J. Schwab, Y.L.L. Götberg, The Astrophysical Journal 922 (2021). date_created: 2023-08-03T10:10:58Z date_published: 2021-12-03T00:00:00Z date_updated: 2023-08-21T11:52:05Z day: '03' doi: 10.3847/1538-4357/ac27ae extern: '1' external_id: arxiv: - '2109.14817' intvolume: ' 922' issue: '2' keyword: - Space and Planetary Science - Astronomy and Astrophysics language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2109.14817 month: '12' oa: 1 oa_version: Preprint publication: The Astrophysical Journal publication_identifier: eissn: - 1538-4357 issn: - 0004-637X publication_status: published publisher: American Astronomical Society quality_controlled: '1' scopus_import: '1' status: public title: Pre-explosion properties of Helium star donors to thermonuclear supernovae type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 922 year: '2021' ... --- _id: '13453' abstract: - lang: eng text: Most massive stars are born in binaries close enough for mass transfer episodes. These modify the appearance, structure, and future evolution of both stars. We compute the evolution of a 100-day-period binary, consisting initially of a 25 M⊙ star and a 17 M⊙ star, which experiences stable mass transfer. We focus on the impact of mass accretion on the surface composition, internal rotation, and structure of the accretor. To anchor our models, we show that our accretor broadly reproduces the properties of ζ Ophiuchi, which has long been proposed to have accreted mass before being ejected as a runaway star when the companion exploded. We compare our accretor to models of single rotating stars and find that the later and stronger spin-up provided by mass accretion produces significant differences. Specifically, the core of the accretor retains higher spin at the end of the main sequence, and a convective layer develops that changes its density profile. Moreover, the surface of the accretor star is polluted by CNO-processed material donated by the companion. Our models show effects of mass accretion in binaries that are not captured in single rotating stellar models. This possibly impacts the further evolution (either in a binary or as single stars), the final collapse, and the resulting spin of the compact object. article_number: '277' article_processing_charge: No article_type: original author: - first_name: M. full_name: Renzo, M. last_name: Renzo - first_name: Ylva Louise Linsdotter full_name: Götberg, Ylva Louise Linsdotter id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d last_name: Götberg orcid: 0000-0002-6960-6911 citation: ama: 'Renzo M, Götberg YLL. Evolution of accretor stars in massive binaries: Broader implications from modeling ζ Ophiuchi. The Astrophysical Journal. 2021;923(2). doi:10.3847/1538-4357/ac29c5' apa: 'Renzo, M., & Götberg, Y. L. L. (2021). Evolution of accretor stars in massive binaries: Broader implications from modeling ζ Ophiuchi. The Astrophysical Journal. American Astronomical Society. https://doi.org/10.3847/1538-4357/ac29c5' chicago: 'Renzo, M., and Ylva Louise Linsdotter Götberg. “Evolution of Accretor Stars in Massive Binaries: Broader Implications from Modeling ζ Ophiuchi.” The Astrophysical Journal. American Astronomical Society, 2021. https://doi.org/10.3847/1538-4357/ac29c5.' ieee: 'M. Renzo and Y. L. L. Götberg, “Evolution of accretor stars in massive binaries: Broader implications from modeling ζ Ophiuchi,” The Astrophysical Journal, vol. 923, no. 2. American Astronomical Society, 2021.' ista: 'Renzo M, Götberg YLL. 2021. Evolution of accretor stars in massive binaries: Broader implications from modeling ζ Ophiuchi. The Astrophysical Journal. 923(2), 277.' mla: 'Renzo, M., and Ylva Louise Linsdotter Götberg. “Evolution of Accretor Stars in Massive Binaries: Broader Implications from Modeling ζ Ophiuchi.” The Astrophysical Journal, vol. 923, no. 2, 277, American Astronomical Society, 2021, doi:10.3847/1538-4357/ac29c5.' short: M. Renzo, Y.L.L. Götberg, The Astrophysical Journal 923 (2021). date_created: 2023-08-03T10:10:48Z date_published: 2021-12-29T00:00:00Z date_updated: 2023-08-21T11:59:34Z day: '29' doi: 10.3847/1538-4357/ac29c5 extern: '1' external_id: arxiv: - '2107.10933' intvolume: ' 923' issue: '2' keyword: - Space and Planetary Science - Astronomy and Astrophysics language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2107.10933 month: '12' oa: 1 oa_version: Preprint publication: The Astrophysical Journal publication_identifier: eissn: - 1538-4357 issn: - 0004-637X publication_status: published publisher: American Astronomical Society quality_controlled: '1' scopus_import: '1' status: public title: 'Evolution of accretor stars in massive binaries: Broader implications from modeling ζ Ophiuchi' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 923 year: '2021' ... --- _id: '13996' abstract: - lang: eng text: We report the observation of an anomalous nonlinear optical response of the prototypical three-dimensional topological insulator bismuth selenide through the process of high-order harmonic generation. We find that the generation efficiency increases as the laser polarization is changed from linear to elliptical, and it becomes maximum for circular polarization. With the aid of a microscopic theory and a detailed analysis of the measured spectra, we reveal that such anomalous enhancement encodes the characteristic topology of the band structure that originates from the interplay of strong spin–orbit coupling and time-reversal symmetry protection. The implications are in ultrafast probing of topological phase transitions, light-field driven dissipationless electronics, and quantum computation. article_processing_charge: No article_type: original author: - first_name: Denitsa Rangelova full_name: Baykusheva, Denitsa Rangelova id: 71b4d059-2a03-11ee-914d-dfa3beed6530 last_name: Baykusheva - first_name: Alexis full_name: Chacón, Alexis last_name: Chacón - first_name: Jian full_name: Lu, Jian last_name: Lu - first_name: Trevor P. full_name: Bailey, Trevor P. last_name: Bailey - first_name: Jonathan A. full_name: Sobota, Jonathan A. last_name: Sobota - first_name: Hadas full_name: Soifer, Hadas last_name: Soifer - first_name: Patrick S. full_name: Kirchmann, Patrick S. last_name: Kirchmann - first_name: Costel full_name: Rotundu, Costel last_name: Rotundu - first_name: Ctirad full_name: Uher, Ctirad last_name: Uher - first_name: Tony F. full_name: Heinz, Tony F. last_name: Heinz - first_name: David A. full_name: Reis, David A. last_name: Reis - first_name: Shambhu full_name: Ghimire, Shambhu last_name: Ghimire citation: ama: Baykusheva DR, Chacón A, Lu J, et al. All-optical probe of three-dimensional topological insulators based on high-harmonic generation by circularly polarized laser fields. Nano Letters. 2021;21(21):8970-8978. doi:10.1021/acs.nanolett.1c02145 apa: Baykusheva, D. R., Chacón, A., Lu, J., Bailey, T. P., Sobota, J. A., Soifer, H., … Ghimire, S. (2021). All-optical probe of three-dimensional topological insulators based on high-harmonic generation by circularly polarized laser fields. Nano Letters. American Chemical Society. https://doi.org/10.1021/acs.nanolett.1c02145 chicago: Baykusheva, Denitsa Rangelova, Alexis Chacón, Jian Lu, Trevor P. Bailey, Jonathan A. Sobota, Hadas Soifer, Patrick S. Kirchmann, et al. “All-Optical Probe of Three-Dimensional Topological Insulators Based on High-Harmonic Generation by Circularly Polarized Laser Fields.” Nano Letters. American Chemical Society, 2021. https://doi.org/10.1021/acs.nanolett.1c02145. ieee: D. R. Baykusheva et al., “All-optical probe of three-dimensional topological insulators based on high-harmonic generation by circularly polarized laser fields,” Nano Letters, vol. 21, no. 21. American Chemical Society, pp. 8970–8978, 2021. ista: Baykusheva DR, Chacón A, Lu J, Bailey TP, Sobota JA, Soifer H, Kirchmann PS, Rotundu C, Uher C, Heinz TF, Reis DA, Ghimire S. 2021. All-optical probe of three-dimensional topological insulators based on high-harmonic generation by circularly polarized laser fields. Nano Letters. 21(21), 8970–8978. mla: Baykusheva, Denitsa Rangelova, et al. “All-Optical Probe of Three-Dimensional Topological Insulators Based on High-Harmonic Generation by Circularly Polarized Laser Fields.” Nano Letters, vol. 21, no. 21, American Chemical Society, 2021, pp. 8970–78, doi:10.1021/acs.nanolett.1c02145. short: D.R. Baykusheva, A. Chacón, J. Lu, T.P. Bailey, J.A. Sobota, H. Soifer, P.S. Kirchmann, C. Rotundu, C. Uher, T.F. Heinz, D.A. Reis, S. Ghimire, Nano Letters 21 (2021) 8970–8978. date_created: 2023-08-09T13:09:15Z date_published: 2021-10-22T00:00:00Z date_updated: 2023-08-22T07:32:00Z day: '22' doi: 10.1021/acs.nanolett.1c02145 extern: '1' external_id: arxiv: - '2109.15291' pmid: - '34676752' intvolume: ' 21' issue: '21' keyword: - Mechanical Engineering - Condensed Matter Physics - General Materials Science - General Chemistry - Bioengineering language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1021/acs.nanolett.1c02145 month: '10' oa: 1 oa_version: Published Version page: 8970-8978 pmid: 1 publication: Nano Letters publication_identifier: eissn: - 1530-6992 issn: - 1530-6984 publication_status: published publisher: American Chemical Society quality_controlled: '1' scopus_import: '1' status: public title: All-optical probe of three-dimensional topological insulators based on high-harmonic generation by circularly polarized laser fields type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 21 year: '2021' ... --- _id: '13997' abstract: - lang: eng text: We investigate theoretically the strong-field regime of light-matter interactions in the topological-insulator class of quantum materials. In particular, we focus on the process of nonperturbative high-order harmonic generation from the paradigmatic three-dimensional topological insulator bismuth selenide (Bi2Se3) subjected to intense midinfrared laser fields. We analyze the contributions from the spin-orbit-coupled bulk states and the topological surface bands separately and reveal a major difference in how their harmonic yields depend on the ellipticity of the laser field. Bulk harmonics show a monotonic decrease in their yield as the ellipticity increases, in a manner reminiscent of high harmonic generation in gaseous media. However, the surface contribution exhibits a highly nontrivial dependence, culminating with a maximum for circularly polarized fields. We attribute the observed anomalous behavior to (i) the enhanced amplitude and the circular pattern of the interband dipole and the Berry connections in the vicinity of the Dirac point and (ii) the influence of the higher-order, hexagonal warping terms in the Hamiltonian, which are responsible for the hexagonal deformation of the energy surface at higher momenta. The latter are associated directly with spin-orbit-coupling parameters. Our results thus establish the sensitivity of strong-field-driven high harmonic emission to the topology of the band structure as well as to the manifestations of spin-orbit interaction. article_number: '023101' article_processing_charge: No article_type: original author: - first_name: Denitsa Rangelova full_name: Baykusheva, Denitsa Rangelova id: 71b4d059-2a03-11ee-914d-dfa3beed6530 last_name: Baykusheva - first_name: Alexis full_name: Chacón, Alexis last_name: Chacón - first_name: Dasol full_name: Kim, Dasol last_name: Kim - first_name: Dong Eon full_name: Kim, Dong Eon last_name: Kim - first_name: David A. full_name: Reis, David A. last_name: Reis - first_name: Shambhu full_name: Ghimire, Shambhu last_name: Ghimire citation: ama: Baykusheva DR, Chacón A, Kim D, Kim DE, Reis DA, Ghimire S. Strong-field physics in three-dimensional topological insulators. Physical Review A. 2021;103(2). doi:10.1103/physreva.103.023101 apa: Baykusheva, D. R., Chacón, A., Kim, D., Kim, D. E., Reis, D. A., & Ghimire, S. (2021). Strong-field physics in three-dimensional topological insulators. Physical Review A. American Physical Society. https://doi.org/10.1103/physreva.103.023101 chicago: Baykusheva, Denitsa Rangelova, Alexis Chacón, Dasol Kim, Dong Eon Kim, David A. Reis, and Shambhu Ghimire. “Strong-Field Physics in Three-Dimensional Topological Insulators.” Physical Review A. American Physical Society, 2021. https://doi.org/10.1103/physreva.103.023101. ieee: D. R. Baykusheva, A. Chacón, D. Kim, D. E. Kim, D. A. Reis, and S. Ghimire, “Strong-field physics in three-dimensional topological insulators,” Physical Review A, vol. 103, no. 2. American Physical Society, 2021. ista: Baykusheva DR, Chacón A, Kim D, Kim DE, Reis DA, Ghimire S. 2021. Strong-field physics in three-dimensional topological insulators. Physical Review A. 103(2), 023101. mla: Baykusheva, Denitsa Rangelova, et al. “Strong-Field Physics in Three-Dimensional Topological Insulators.” Physical Review A, vol. 103, no. 2, 023101, American Physical Society, 2021, doi:10.1103/physreva.103.023101. short: D.R. Baykusheva, A. Chacón, D. Kim, D.E. Kim, D.A. Reis, S. Ghimire, Physical Review A 103 (2021). date_created: 2023-08-09T13:09:26Z date_published: 2021-02-01T00:00:00Z date_updated: 2023-08-22T07:33:43Z day: '01' doi: 10.1103/physreva.103.023101 extern: '1' external_id: arxiv: - '2008.01265' intvolume: ' 103' issue: '2' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2008.01265 month: '02' oa: 1 oa_version: Preprint publication: Physical Review A publication_identifier: eissn: - 2469-9934 issn: - 2469-9926 publication_status: published publisher: American Physical Society quality_controlled: '1' scopus_import: '1' status: public title: Strong-field physics in three-dimensional topological insulators type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 103 year: '2021' ... --- _id: '13995' abstract: - lang: eng text: Shape resonances play a central role in many areas of science, but the real-time measurement of the associated many-body dynamics remains challenging. Here, we present measurements of recoil frame angle-resolved photoionization delays in the vicinity of shape resonances of CF4. This technique provides insights into the spatiotemporal photoionization dynamics of molecular shape resonances. We find delays of up to ∼600 as in the ionization out of the highest occupied molecular orbital (HOMO) with a strong dependence on the emission direction and a pronounced asymmetry along the dissociation axis. Comparison with quantum-scattering calculations traces the asymmetries to the interference of a small subset of partial waves at low kinetic energies and, additionally, to the interference of two overlapping shape resonances in the HOMO-1 channel. Our experimental and theoretical results establish a broadly applicable approach to space- and time-resolved photoionization dynamics in the molecular frame. article_number: abj8121 article_processing_charge: No article_type: original author: - first_name: Saijoscha full_name: Heck, Saijoscha last_name: Heck - first_name: Denitsa Rangelova full_name: Baykusheva, Denitsa Rangelova id: 71b4d059-2a03-11ee-914d-dfa3beed6530 last_name: Baykusheva - first_name: Meng full_name: Han, Meng last_name: Han - first_name: Jia-Bao full_name: Ji, Jia-Bao last_name: Ji - first_name: Conaill full_name: Perry, Conaill last_name: Perry - first_name: Xiaochun full_name: Gong, Xiaochun last_name: Gong - first_name: Hans Jakob full_name: Wörner, Hans Jakob last_name: Wörner citation: ama: Heck S, Baykusheva DR, Han M, et al. Attosecond interferometry of shape resonances in the recoil frame of CF4. Science Advances. 2021;7(49). doi:10.1126/sciadv.abj8121 apa: Heck, S., Baykusheva, D. R., Han, M., Ji, J.-B., Perry, C., Gong, X., & Wörner, H. J. (2021). Attosecond interferometry of shape resonances in the recoil frame of CF4. Science Advances. American Association for the Advancement of Science. https://doi.org/10.1126/sciadv.abj8121 chicago: Heck, Saijoscha, Denitsa Rangelova Baykusheva, Meng Han, Jia-Bao Ji, Conaill Perry, Xiaochun Gong, and Hans Jakob Wörner. “Attosecond Interferometry of Shape Resonances in the Recoil Frame of CF4.” Science Advances. American Association for the Advancement of Science, 2021. https://doi.org/10.1126/sciadv.abj8121. ieee: S. Heck et al., “Attosecond interferometry of shape resonances in the recoil frame of CF4,” Science Advances, vol. 7, no. 49. American Association for the Advancement of Science, 2021. ista: Heck S, Baykusheva DR, Han M, Ji J-B, Perry C, Gong X, Wörner HJ. 2021. Attosecond interferometry of shape resonances in the recoil frame of CF4. Science Advances. 7(49), abj8121. mla: Heck, Saijoscha, et al. “Attosecond Interferometry of Shape Resonances in the Recoil Frame of CF4.” Science Advances, vol. 7, no. 49, abj8121, American Association for the Advancement of Science, 2021, doi:10.1126/sciadv.abj8121. short: S. Heck, D.R. Baykusheva, M. Han, J.-B. Ji, C. Perry, X. Gong, H.J. Wörner, Science Advances 7 (2021). date_created: 2023-08-09T13:09:02Z date_published: 2021-12-03T00:00:00Z date_updated: 2023-08-22T07:30:25Z day: '03' doi: 10.1126/sciadv.abj8121 extern: '1' external_id: pmid: - '34860540' intvolume: ' 7' issue: '49' keyword: - Multidisciplinary language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1126/sciadv.abj8121 month: '12' oa: 1 oa_version: Published Version pmid: 1 publication: Science Advances publication_identifier: eissn: - 2375-2548 publication_status: published publisher: American Association for the Advancement of Science quality_controlled: '1' scopus_import: '1' status: public title: Attosecond interferometry of shape resonances in the recoil frame of CF4 type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 7 year: '2021' ... --- _id: '14097' abstract: - lang: eng text: UVEX is a proposed medium class Explorer mission designed to provide crucial missing capabilities that will address objectives central to a broad range of modern astrophysics. The UVEX design has two co-aligned wide-field imagers operating in the FUV and NUV and a powerful broadband medium resolution spectrometer. In its two-year baseline mission, UVEX will perform a multi-cadence synoptic all-sky survey 50/100 times deeper than GALEX in the NUV/FUV, cadenced surveys of the Large and Small Magellanic Clouds, rapid target of opportunity followup, as well as spectroscopic followup of samples of stars and galaxies. The science program is built around three pillars. First, UVEX will explore the low-mass, low-metallicity galaxy frontier through imaging and spectroscopic surveys that will probe key aspects of the evolution of galaxies by understanding how star formation and stellar evolution at low metallicities affect the growth and evolution of low-metallicity, low-mass galaxies in the local universe. Such galaxies contain half the mass in the local universe, and are analogs for the first galaxies, but observed at distances that make them accessible to detailed study. Second, UVEX will explore the dynamic universe through time-domain surveys and prompt spectroscopic followup capability will probe the environments, energetics, and emission processes in the early aftermaths of gravitational wave-discovered compact object mergers, discover hot, fast UV transients, and diagnose the early stages of stellar explosions. Finally, UVEX will become a key community resource by leaving a large all-sky legacy data set, enabling a wide range of scientific studies and filling a gap in the new generation of wide-field, sensitive optical and infrared surveys provided by the Rubin, Euclid, and Roman observatories. This paper discusses the scientific potential of UVEX, and the broad scientific program. article_number: '2111.15608' article_processing_charge: No author: - first_name: S. R. full_name: Kulkarni, S. R. last_name: Kulkarni - first_name: Fiona A. full_name: Harrison, Fiona A. last_name: Harrison - first_name: Brian W. full_name: Grefenstette, Brian W. last_name: Grefenstette - first_name: Hannah P. full_name: Earnshaw, Hannah P. last_name: Earnshaw - first_name: Igor full_name: Andreoni, Igor last_name: Andreoni - first_name: Danielle A. full_name: Berg, Danielle A. last_name: Berg - first_name: Joshua S. full_name: Bloom, Joshua S. last_name: Bloom - first_name: S. Bradley full_name: Cenko, S. Bradley last_name: Cenko - first_name: Ryan full_name: Chornock, Ryan last_name: Chornock - first_name: Jessie L. full_name: Christiansen, Jessie L. last_name: Christiansen - first_name: Michael W. full_name: Coughlin, Michael W. last_name: Coughlin - first_name: Alexander Wuollet full_name: Criswell, Alexander Wuollet last_name: Criswell - first_name: Behnam full_name: Darvish, Behnam last_name: Darvish - first_name: Kaustav K. full_name: Das, Kaustav K. last_name: Das - first_name: Kishalay full_name: De, Kishalay last_name: De - first_name: Luc full_name: Dessart, Luc last_name: Dessart - first_name: Don full_name: Dixon, Don last_name: Dixon - first_name: Bas full_name: Dorsman, Bas last_name: Dorsman - first_name: Kareem El-Badry full_name: Kareem El-Badry, Kareem El-Badry last_name: Kareem El-Badry - first_name: Christopher full_name: Evans, Christopher last_name: Evans - first_name: K. E. Saavik full_name: Ford, K. E. Saavik last_name: Ford - first_name: Christoffer full_name: Fremling, Christoffer last_name: Fremling - first_name: Boris T. full_name: Gansicke, Boris T. last_name: Gansicke - first_name: Suvi full_name: Gezari, Suvi last_name: Gezari - first_name: Ylva Louise Linsdotter full_name: Götberg, Ylva Louise Linsdotter id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d last_name: Götberg orcid: 0000-0002-6960-6911 - first_name: Gregory M. full_name: Green, Gregory M. last_name: Green - first_name: Matthew J. full_name: Graham, Matthew J. last_name: Graham - first_name: Marianne full_name: Heida, Marianne last_name: Heida - first_name: Anna Y. Q. full_name: Ho, Anna Y. Q. last_name: Ho - first_name: Amruta D. full_name: Jaodand, Amruta D. last_name: Jaodand - first_name: Christopher M. Johns-Krull full_name: Christopher M. Johns-Krull, Christopher M. Johns-Krull last_name: Christopher M. Johns-Krull - first_name: Mansi M. full_name: Kasliwal, Mansi M. last_name: Kasliwal - first_name: Margaret full_name: Lazzarini, Margaret last_name: Lazzarini - first_name: Wenbin full_name: Lu, Wenbin last_name: Lu - first_name: Raffaella full_name: Margutti, Raffaella last_name: Margutti - first_name: D. Christopher full_name: Martin, D. Christopher last_name: Martin - first_name: Daniel Charles full_name: Masters, Daniel Charles last_name: Masters - first_name: Barry full_name: McKernan, Barry last_name: McKernan - first_name: Yael full_name: Naze, Yael last_name: Naze - first_name: Samaya M. full_name: Nissanke, Samaya M. last_name: Nissanke - first_name: B. full_name: Parazin, B. last_name: Parazin - first_name: Daniel A. full_name: Perley, Daniel A. last_name: Perley - first_name: E. Sterl full_name: Phinney, E. Sterl last_name: Phinney - first_name: Anthony L. full_name: Piro, Anthony L. last_name: Piro - first_name: G. full_name: Raaijmakers, G. last_name: Raaijmakers - first_name: Gregor full_name: Rauw, Gregor last_name: Rauw - first_name: Antonio C. full_name: Rodriguez, Antonio C. last_name: Rodriguez - first_name: Hugues full_name: Sana, Hugues last_name: Sana - first_name: Peter full_name: Senchyna, Peter last_name: Senchyna - first_name: Leo P. full_name: Singer, Leo P. last_name: Singer - first_name: Jessica J. full_name: Spake, Jessica J. last_name: Spake - first_name: Keivan G. full_name: Stassun, Keivan G. last_name: Stassun - first_name: Daniel full_name: Stern, Daniel last_name: Stern - first_name: Harry I. full_name: Teplitz, Harry I. last_name: Teplitz - first_name: Daniel R. full_name: Weisz, Daniel R. last_name: Weisz - first_name: Yuhan full_name: Yao, Yuhan last_name: Yao citation: ama: Kulkarni SR, Harrison FA, Grefenstette BW, et al. Science with the ultraviolet explorer (UVEX). arXiv. doi:10.48550/arXiv.2111.15608 apa: Kulkarni, S. R., Harrison, F. A., Grefenstette, B. W., Earnshaw, H. P., Andreoni, I., Berg, D. A., … Yao, Y. (n.d.). Science with the ultraviolet explorer (UVEX). arXiv. https://doi.org/10.48550/arXiv.2111.15608 chicago: Kulkarni, S. R., Fiona A. Harrison, Brian W. Grefenstette, Hannah P. Earnshaw, Igor Andreoni, Danielle A. Berg, Joshua S. Bloom, et al. “Science with the Ultraviolet Explorer (UVEX).” ArXiv, n.d. https://doi.org/10.48550/arXiv.2111.15608. ieee: S. R. Kulkarni et al., “Science with the ultraviolet explorer (UVEX),” arXiv. . ista: Kulkarni SR, Harrison FA, Grefenstette BW, Earnshaw HP, Andreoni I, Berg DA, Bloom JS, Cenko SB, Chornock R, Christiansen JL, Coughlin MW, Criswell AW, Darvish B, Das KK, De K, Dessart L, Dixon D, Dorsman B, Kareem El-Badry KE-B, Evans C, Ford KES, Fremling C, Gansicke BT, Gezari S, Götberg YLL, Green GM, Graham MJ, Heida M, Ho AYQ, Jaodand AD, Christopher M. Johns-Krull CMJ-K, Kasliwal MM, Lazzarini M, Lu W, Margutti R, Martin DC, Masters DC, McKernan B, Naze Y, Nissanke SM, Parazin B, Perley DA, Phinney ES, Piro AL, Raaijmakers G, Rauw G, Rodriguez AC, Sana H, Senchyna P, Singer LP, Spake JJ, Stassun KG, Stern D, Teplitz HI, Weisz DR, Yao Y. Science with the ultraviolet explorer (UVEX). arXiv, 2111.15608. mla: Kulkarni, S. R., et al. “Science with the Ultraviolet Explorer (UVEX).” ArXiv, 2111.15608, doi:10.48550/arXiv.2111.15608. short: S.R. Kulkarni, F.A. Harrison, B.W. Grefenstette, H.P. Earnshaw, I. Andreoni, D.A. Berg, J.S. Bloom, S.B. Cenko, R. Chornock, J.L. Christiansen, M.W. Coughlin, A.W. Criswell, B. Darvish, K.K. Das, K. De, L. Dessart, D. Dixon, B. Dorsman, K.E.-B. Kareem El-Badry, C. Evans, K.E.S. Ford, C. Fremling, B.T. Gansicke, S. Gezari, Y.L.L. Götberg, G.M. Green, M.J. Graham, M. Heida, A.Y.Q. Ho, A.D. Jaodand, C.M.J.-K. Christopher M. Johns-Krull, M.M. Kasliwal, M. Lazzarini, W. Lu, R. Margutti, D.C. Martin, D.C. Masters, B. McKernan, Y. Naze, S.M. Nissanke, B. Parazin, D.A. Perley, E.S. Phinney, A.L. Piro, G. Raaijmakers, G. Rauw, A.C. Rodriguez, H. Sana, P. Senchyna, L.P. Singer, J.J. Spake, K.G. Stassun, D. Stern, H.I. Teplitz, D.R. Weisz, Y. Yao, ArXiv (n.d.). date_created: 2023-08-21T10:11:00Z date_published: 2021-11-30T00:00:00Z date_updated: 2023-08-22T13:15:02Z day: '30' doi: 10.48550/arXiv.2111.15608 extern: '1' external_id: arxiv: - '2111.15608' language: - iso: eng main_file_link: - open_access: '1' url: ' https://doi.org/10.48550/arXiv.2111.15608' month: '11' oa: 1 oa_version: Preprint publication: arXiv publication_status: submitted status: public title: Science with the ultraviolet explorer (UVEX) type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '10005' abstract: - lang: eng text: We study systems of nonlinear partial differential equations of parabolic type, in which the elliptic operator is replaced by the first-order divergence operator acting on a flux function, which is related to the spatial gradient of the unknown through an additional implicit equation. This setting, broad enough in terms of applications, significantly expands the paradigm of nonlinear parabolic problems. Formulating four conditions concerning the form of the implicit equation, we first show that these conditions describe a maximal monotone p-coercive graph. We then establish the global-in-time and large-data existence of a (weak) solution and its uniqueness. To this end, we adopt and significantly generalize Minty’s method of monotone mappings. A unified theory, containing several novel tools, is developed in a way to be tractable from the point of view of numerical approximations. acknowledgement: "M. Bulíček and J. Málek acknowledge the support of the project No. 18-12719S financed by the Czech\r\nScience foundation (GAČR). E. Maringová acknowledges support from Charles University Research program \r\nUNCE/SCI/023, the grant SVV-2020-260583 by the Ministry of Education, Youth and Sports, Czech Republic\r\nand from the Austrian Science Fund (FWF), grants P30000, W1245, and F65. M. Bulíček and J. Málek are\r\nmembers of the Nečas Center for Mathematical Modelling.\r\n" article_processing_charge: No article_type: original author: - first_name: Miroslav full_name: Bulíček, Miroslav last_name: Bulíček - first_name: Erika full_name: Maringová, Erika id: dbabca31-66eb-11eb-963a-fb9c22c880b4 last_name: Maringová - first_name: Josef full_name: Málek, Josef last_name: Málek citation: ama: Bulíček M, Maringová E, Málek J. On nonlinear problems of parabolic type with implicit constitutive equations involving flux. Mathematical Models and Methods in Applied Sciences. 2021;31(09). doi:10.1142/S0218202521500457 apa: Bulíček, M., Maringová, E., & Málek, J. (2021). On nonlinear problems of parabolic type with implicit constitutive equations involving flux. Mathematical Models and Methods in Applied Sciences. World Scientific. https://doi.org/10.1142/S0218202521500457 chicago: Bulíček, Miroslav, Erika Maringová, and Josef Málek. “On Nonlinear Problems of Parabolic Type with Implicit Constitutive Equations Involving Flux.” Mathematical Models and Methods in Applied Sciences. World Scientific, 2021. https://doi.org/10.1142/S0218202521500457. ieee: M. Bulíček, E. Maringová, and J. Málek, “On nonlinear problems of parabolic type with implicit constitutive equations involving flux,” Mathematical Models and Methods in Applied Sciences, vol. 31, no. 09. World Scientific, 2021. ista: Bulíček M, Maringová E, Málek J. 2021. On nonlinear problems of parabolic type with implicit constitutive equations involving flux. Mathematical Models and Methods in Applied Sciences. 31(09). mla: Bulíček, Miroslav, et al. “On Nonlinear Problems of Parabolic Type with Implicit Constitutive Equations Involving Flux.” Mathematical Models and Methods in Applied Sciences, vol. 31, no. 09, World Scientific, 2021, doi:10.1142/S0218202521500457. short: M. Bulíček, E. Maringová, J. Málek, Mathematical Models and Methods in Applied Sciences 31 (2021). date_created: 2021-09-12T22:01:25Z date_published: 2021-08-25T00:00:00Z date_updated: 2023-09-04T11:43:45Z day: '25' department: - _id: JuFi doi: 10.1142/S0218202521500457 external_id: arxiv: - '2009.06917' isi: - '000722222900004' intvolume: ' 31' isi: 1 issue: '09' keyword: - Nonlinear parabolic systems - implicit constitutive theory - weak solutions - existence - uniqueness language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2009.06917 month: '08' oa: 1 oa_version: Preprint project: - _id: fc31cba2-9c52-11eb-aca3-ff467d239cd2 grant_number: F6504 name: Taming Complexity in Partial Differential Systems publication: Mathematical Models and Methods in Applied Sciences publication_identifier: eissn: - 1793-6314 issn: - 0218-2025 publication_status: published publisher: World Scientific quality_controlled: '1' scopus_import: '1' status: public title: On nonlinear problems of parabolic type with implicit constitutive equations involving flux type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 31 year: '2021' ... --- _id: '10553' abstract: - lang: eng text: The popularity of permissioned blockchain systems demands BFT SMR protocols that are efficient under good network conditions (synchrony) and robust under bad network conditions (asynchrony). The state-of-the-art partially synchronous BFT SMR protocols provide optimal linear communication cost per decision under synchrony and good leaders, but lose liveness under asynchrony. On the other hand, the state-of-the-art asynchronous BFT SMR protocols are live even under asynchrony, but always pay quadratic cost even under synchrony. In this paper, we propose a BFT SMR protocol that achieves the best of both worlds -- optimal linear cost per decision under good networks and leaders, optimal quadratic cost per decision under bad networks, and remains always live. article_processing_charge: No author: - first_name: Rati full_name: Gelashvili, Rati last_name: Gelashvili - first_name: Eleftherios full_name: Kokoris Kogias, Eleftherios id: f5983044-d7ef-11ea-ac6d-fd1430a26d30 last_name: Kokoris Kogias - first_name: Alexander full_name: Spiegelman, Alexander last_name: Spiegelman - first_name: Zhuolun full_name: Xiang, Zhuolun last_name: Xiang citation: ama: 'Gelashvili R, Kokoris Kogias E, Spiegelman A, Xiang Z. Brief announcement: Be prepared when network goes bad: An asynchronous view-change protocol. In: Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. Association for Computing Machinery; 2021:187-190. doi:10.1145/3465084.3467941' apa: 'Gelashvili, R., Kokoris Kogias, E., Spiegelman, A., & Xiang, Z. (2021). Brief announcement: Be prepared when network goes bad: An asynchronous view-change protocol. In Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing (pp. 187–190). Virtual, Italy: Association for Computing Machinery. https://doi.org/10.1145/3465084.3467941' chicago: 'Gelashvili, Rati, Eleftherios Kokoris Kogias, Alexander Spiegelman, and Zhuolun Xiang. “Brief Announcement: Be Prepared When Network Goes Bad: An Asynchronous View-Change Protocol.” In Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, 187–90. Association for Computing Machinery, 2021. https://doi.org/10.1145/3465084.3467941.' ieee: 'R. Gelashvili, E. Kokoris Kogias, A. Spiegelman, and Z. Xiang, “Brief announcement: Be prepared when network goes bad: An asynchronous view-change protocol,” in Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Virtual, Italy, 2021, pp. 187–190.' ista: 'Gelashvili R, Kokoris Kogias E, Spiegelman A, Xiang Z. 2021. Brief announcement: Be prepared when network goes bad: An asynchronous view-change protocol. Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. PODC: Principles of Distributed Computing, 187–190.' mla: 'Gelashvili, Rati, et al. “Brief Announcement: Be Prepared When Network Goes Bad: An Asynchronous View-Change Protocol.” Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 187–90, doi:10.1145/3465084.3467941.' short: R. Gelashvili, E. Kokoris Kogias, A. Spiegelman, Z. Xiang, in:, Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 187–190. conference: end_date: 2021-07-30 location: Virtual, Italy name: 'PODC: Principles of Distributed Computing' start_date: 2021-07-26 date_created: 2021-12-16T13:20:19Z date_published: 2021-07-21T00:00:00Z date_updated: 2023-09-04T11:42:10Z day: '21' department: - _id: ElKo doi: 10.1145/3465084.3467941 external_id: arxiv: - '2103.03181' isi: - '000744439800018' isi: 1 keyword: - optimal - state machine replication - fallback - asynchrony - byzantine faults language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2103.03181 month: '07' oa: 1 oa_version: Preprint page: 187-190 publication: Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing publication_identifier: isbn: - 9-781-4503-8548-0 publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' scopus_import: '1' status: public title: 'Brief announcement: Be prepared when network goes bad: An asynchronous view-change protocol' type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '9048' abstract: - lang: eng text: The analogy between an equilibrium partition function and the return probability in many-body unitary dynamics has led to the concept of dynamical quantum phase transition (DQPT). DQPTs are defined by nonanalyticities in the return amplitude and are present in many models. In some cases, DQPTs can be related to equilibrium concepts, such as order parameters, yet their universal description is an open question. In this Letter, we provide first steps toward a classification of DQPTs by using a matrix product state description of unitary dynamics in the thermodynamic limit. This allows us to distinguish the two limiting cases of “precession” and “entanglement” DQPTs, which are illustrated using an analytical description in the quantum Ising model. While precession DQPTs are characterized by a large entanglement gap and are semiclassical in their nature, entanglement DQPTs occur near avoided crossings in the entanglement spectrum and can be distinguished by a complex pattern of nonlocal correlations. We demonstrate the existence of precession and entanglement DQPTs beyond Ising models, discuss observables that can distinguish them, and relate their interplay to complex DQPT phenomenology. acknowledgement: "S. D. N. acknowledges funding from the Institute of Science and Technology (IST) Austria and from the European Union’s Horizon 2020 Research and Innovation Programme under the Marie Skłodowska-Curie Grant Agreement No. 754411. A. M. and M. S. were supported by the European Research Council (ERC) under the European Union’s Horizon 2020 Research and\r\nInnovation Programme (Grant Agreement No. 850899)." article_number: '040602' article_processing_charge: Yes article_type: original author: - first_name: Stefano full_name: De Nicola, Stefano id: 42832B76-F248-11E8-B48F-1D18A9856A87 last_name: De Nicola orcid: 0000-0002-4842-6671 - first_name: Alexios full_name: Michailidis, Alexios id: 36EBAD38-F248-11E8-B48F-1D18A9856A87 last_name: Michailidis orcid: 0000-0002-8443-1064 - first_name: Maksym full_name: Serbyn, Maksym id: 47809E7E-F248-11E8-B48F-1D18A9856A87 last_name: Serbyn orcid: 0000-0002-2399-5827 citation: ama: De Nicola S, Michailidis A, Serbyn M. Entanglement view of dynamical quantum phase transitions. Physical Review Letters. 2021;126(4). doi:10.1103/physrevlett.126.040602 apa: De Nicola, S., Michailidis, A., & Serbyn, M. (2021). Entanglement view of dynamical quantum phase transitions. Physical Review Letters. American Physical Society. https://doi.org/10.1103/physrevlett.126.040602 chicago: De Nicola, Stefano, Alexios Michailidis, and Maksym Serbyn. “Entanglement View of Dynamical Quantum Phase Transitions.” Physical Review Letters. American Physical Society, 2021. https://doi.org/10.1103/physrevlett.126.040602. ieee: S. De Nicola, A. Michailidis, and M. Serbyn, “Entanglement view of dynamical quantum phase transitions,” Physical Review Letters, vol. 126, no. 4. American Physical Society, 2021. ista: De Nicola S, Michailidis A, Serbyn M. 2021. Entanglement view of dynamical quantum phase transitions. Physical Review Letters. 126(4), 040602. mla: De Nicola, Stefano, et al. “Entanglement View of Dynamical Quantum Phase Transitions.” Physical Review Letters, vol. 126, no. 4, 040602, American Physical Society, 2021, doi:10.1103/physrevlett.126.040602. short: S. De Nicola, A. Michailidis, M. Serbyn, Physical Review Letters 126 (2021). date_created: 2021-02-01T09:20:00Z date_published: 2021-01-29T00:00:00Z date_updated: 2023-09-05T12:08:58Z day: '29' ddc: - '530' department: - _id: MaSe doi: 10.1103/physrevlett.126.040602 ec_funded: 1 external_id: arxiv: - '2008.04894' isi: - '000613148200001' file: - access_level: open_access checksum: d9acbc502390ed7a97e631d23ae19ecd content_type: application/pdf creator: dernst date_created: 2021-02-03T12:47:04Z date_updated: 2021-02-03T12:47:04Z file_id: '9074' file_name: 2021_PhysicalRevLett_DeNicola.pdf file_size: 398075 relation: main_file success: 1 file_date_updated: 2021-02-03T12:47:04Z has_accepted_license: '1' intvolume: ' 126' isi: 1 issue: '4' keyword: - General Physics and Astronomy language: - iso: eng month: '01' oa: 1 oa_version: Published Version project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships - _id: 23841C26-32DE-11EA-91FC-C7463DDC885E call_identifier: H2020 grant_number: '850899' name: 'Non-Ergodic Quantum Matter: Universality, Dynamics and Control' publication: Physical Review Letters publication_identifier: eissn: - 1079-7114 issn: - 0031-9007 publication_status: published publisher: American Physical Society quality_controlled: '1' status: public title: Entanglement view of dynamical quantum phase transitions tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 126 year: '2021' ... --- _id: '9368' abstract: - lang: eng text: The quality control system for messenger RNA (mRNA) is fundamental for cellular activities in eukaryotes. To elucidate the molecular mechanism of 3'-Phosphoinositide-Dependent Protein Kinase1 (PDK1), a master regulator that is essential throughout eukaryotic growth and development, we employed a forward genetic approach to screen for suppressors of the loss-of-function T-DNA insertion double mutant pdk1.1 pdk1.2 in Arabidopsis thaliana. Notably, the severe growth attenuation of pdk1.1 pdk1.2 was rescued by sop21 (suppressor of pdk1.1 pdk1.2), which harbours a loss-of-function mutation in PELOTA1 (PEL1). PEL1 is a homologue of mammalian PELOTA and yeast (Saccharomyces cerevisiae) DOM34p, which each form a heterodimeric complex with the GTPase HBS1 (HSP70 SUBFAMILY B SUPPRESSOR1, also called SUPERKILLER PROTEIN7, SKI7), a protein that is responsible for ribosomal rescue and thereby assures the quality and fidelity of mRNA molecules during translation. Genetic analysis further revealed that a dysfunctional PEL1-HBS1 complex failed to degrade the T-DNA-disrupted PDK1 transcripts, which were truncated but functional, and thus rescued the growth and developmental defects of pdk1.1 pdk1.2. Our studies demonstrated the functionality of a homologous PELOTA-HBS1 complex and identified its essential regulatory role in plants, providing insights into the mechanism of mRNA quality control. acknowledgement: 'We gratefully acknowledge the Arabidopsis Biological Resource Centre (ABRC) for providing T-DNA insertional mutants, and Prof. Remko Offringa for sharing published seeds. We thank Yuchuan Liu (Shanghai OE Biotech Co., Ltd) for help with proteomics data analysis, Xixi Zhang (IST Austria) for providing the pDONR-P4P1r-mCherry plasmid, and Yao Xiao (Technical University of Munich), Alexander Johnson (IST Austria) and Hana Semeradova (IST Austria) for helpful discussions. The study was supported by National Natural Science Foundation of China (NSFC, 31721001, 91954206, to H.-W. X.), “Ten-Thousand Talent Program” (to H.-W. X.) and Collaborative Innovation Center of Crop Stress Biology, Henan Province, and Austrian Science Fund (FWF): I 3630-B25 (to J. F.). S.T. was funded by a European Molecular Biology Organization (EMBO) long-term postdoctoral fellowship (ALTF 723-2015).' article_processing_charge: No article_type: original author: - first_name: W full_name: Kong, W last_name: Kong - first_name: Shutang full_name: Tan, Shutang id: 2DE75584-F248-11E8-B48F-1D18A9856A87 last_name: Tan orcid: 0000-0002-0471-8285 - first_name: Q full_name: Zhao, Q last_name: Zhao - first_name: DL full_name: Lin, DL last_name: Lin - first_name: ZH full_name: Xu, ZH last_name: Xu - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: HW full_name: Xue, HW last_name: Xue citation: ama: Kong W, Tan S, Zhao Q, et al. mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth. Plant Physiology. 2021;186(4):2003-2020. doi:10.1093/plphys/kiab199 apa: Kong, W., Tan, S., Zhao, Q., Lin, D., Xu, Z., Friml, J., & Xue, H. (2021). mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth. Plant Physiology. American Society of Plant Biologists. https://doi.org/10.1093/plphys/kiab199 chicago: Kong, W, Shutang Tan, Q Zhao, DL Lin, ZH Xu, Jiří Friml, and HW Xue. “MRNA Surveillance Complex PELOTA-HBS1 Eegulates Phosphoinositide-Sependent Protein Kinase1 and Plant Growth.” Plant Physiology. American Society of Plant Biologists, 2021. https://doi.org/10.1093/plphys/kiab199. ieee: W. Kong et al., “mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth,” Plant Physiology, vol. 186, no. 4. American Society of Plant Biologists, pp. 2003–2020, 2021. ista: Kong W, Tan S, Zhao Q, Lin D, Xu Z, Friml J, Xue H. 2021. mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth. Plant Physiology. 186(4), 2003–2020. mla: Kong, W., et al. “MRNA Surveillance Complex PELOTA-HBS1 Eegulates Phosphoinositide-Sependent Protein Kinase1 and Plant Growth.” Plant Physiology, vol. 186, no. 4, American Society of Plant Biologists, 2021, pp. 2003–20, doi:10.1093/plphys/kiab199. short: W. Kong, S. Tan, Q. Zhao, D. Lin, Z. Xu, J. Friml, H. Xue, Plant Physiology 186 (2021) 2003–2020. date_created: 2021-05-03T13:28:20Z date_published: 2021-04-30T00:00:00Z date_updated: 2023-09-05T12:20:27Z day: '30' department: - _id: JiFr doi: 10.1093/plphys/kiab199 external_id: isi: - '000703922000025' pmid: - '33930167' intvolume: ' 186' isi: 1 issue: '4' language: - iso: eng license: https://creativecommons.org/licenses/by-nc-nd/4.0/ main_file_link: - open_access: '1' url: https://doi.org/10.1093/plphys/kiab199 month: '04' oa: 1 oa_version: Published Version page: 2003-2020 pmid: 1 project: - _id: 256FEF10-B435-11E9-9278-68D0E5697425 grant_number: 723-2015 name: Long Term Fellowship - _id: 26538374-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: I03630 name: Molecular mechanisms of endocytic cargo recognition in plants publication: Plant Physiology publication_identifier: eissn: - 1532-2548 issn: - 0032-0889 publication_status: published publisher: American Society of Plant Biologists quality_controlled: '1' status: public title: mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 186 year: '2021' ... --- _id: '10860' abstract: - lang: eng text: A tight frame is the orthogonal projection of some orthonormal basis of Rn onto Rk. We show that a set of vectors is a tight frame if and only if the set of all cross products of these vectors is a tight frame. We reformulate a range of problems on the volume of projections (or sections) of regular polytopes in terms of tight frames and write a first-order necessary condition for local extrema of these problems. As applications, we prove new results for the problem of maximization of the volume of zonotopes. acknowledgement: The author was supported by the Swiss National Science Foundation grant 200021_179133. The author acknowledges the financial support from the Ministry of Education and Science of the Russian Federation in the framework of MegaGrant no. 075-15-2019-1926. article_processing_charge: No article_type: original author: - first_name: Grigory full_name: Ivanov, Grigory id: 87744F66-5C6F-11EA-AFE0-D16B3DDC885E last_name: Ivanov citation: ama: Ivanov G. Tight frames and related geometric problems. Canadian Mathematical Bulletin. 2021;64(4):942-963. doi:10.4153/s000843952000096x apa: Ivanov, G. (2021). Tight frames and related geometric problems. Canadian Mathematical Bulletin. Canadian Mathematical Society. https://doi.org/10.4153/s000843952000096x chicago: Ivanov, Grigory. “Tight Frames and Related Geometric Problems.” Canadian Mathematical Bulletin. Canadian Mathematical Society, 2021. https://doi.org/10.4153/s000843952000096x. ieee: G. Ivanov, “Tight frames and related geometric problems,” Canadian Mathematical Bulletin, vol. 64, no. 4. Canadian Mathematical Society, pp. 942–963, 2021. ista: Ivanov G. 2021. Tight frames and related geometric problems. Canadian Mathematical Bulletin. 64(4), 942–963. mla: Ivanov, Grigory. “Tight Frames and Related Geometric Problems.” Canadian Mathematical Bulletin, vol. 64, no. 4, Canadian Mathematical Society, 2021, pp. 942–63, doi:10.4153/s000843952000096x. short: G. Ivanov, Canadian Mathematical Bulletin 64 (2021) 942–963. date_created: 2022-03-18T09:55:59Z date_published: 2021-12-18T00:00:00Z date_updated: 2023-09-05T12:43:09Z day: '18' department: - _id: UlWa doi: 10.4153/s000843952000096x external_id: arxiv: - '1804.10055' isi: - '000730165300021' intvolume: ' 64' isi: 1 issue: '4' keyword: - General Mathematics - Tight frame - Grassmannian - zonotope language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1804.10055 month: '12' oa: 1 oa_version: Preprint page: 942-963 publication: Canadian Mathematical Bulletin publication_identifier: eissn: - 1496-4287 issn: - 0008-4395 publication_status: published publisher: Canadian Mathematical Society quality_controlled: '1' scopus_import: '1' status: public title: Tight frames and related geometric problems type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 64 year: '2021' ... --- _id: '9290' abstract: - lang: eng text: Polar subcellular localization of the PIN exporters of the phytohormone auxin is a key determinant of directional, intercellular auxin transport and thus a central topic of both plant cell and developmental biology. Arabidopsis mutants lacking PID, a kinase that phosphorylates PINs, or the MAB4/MEL proteins of unknown molecular function display PIN polarity defects and phenocopy pin mutants, but mechanistic insights into how these factors convey PIN polarity are missing. Here, by combining protein biochemistry with quantitative live-cell imaging, we demonstrate that PINs, MAB4/MELs, and AGC kinases interact in the same complex at the plasma membrane. MAB4/MELs are recruited to the plasma membrane by the PINs and in concert with the AGC kinases maintain PIN polarity through limiting lateral diffusion-based escape of PINs from the polar domain. The PIN-MAB4/MEL-PID protein complex has self-reinforcing properties thanks to positive feedback between AGC kinase-mediated PIN phosphorylation and MAB4/MEL recruitment. We thus uncover the molecular mechanism by which AGC kinases and MAB4/MEL proteins regulate PIN localization and plant development. acknowledged_ssus: - _id: Bio acknowledgement: We acknowledge Ben Scheres, Christian Luschnig, and Claus Schwechheimer for sharing published material. We thank Monika Hrtyan and Dorota Jaworska at IST Austria and Gerda Lamers and Ward de Winter at IBL Netherlands for technical assistance; Corinna Hartinger, Jakub Hajný, Lesia Rodriguez, Mingyue Li, and Lindy Abas for experimental support; and the Bioimaging Facility at IST Austria and the Bioimaging Core at VIB for imaging support. We are grateful to Christian Luschnig, Lindy Abas, and Roman Pleskot for valuable discussions. We also acknowledge the EMBO for supporting M.G. with a long-term fellowship ( ALTF 1005-2019 ) during the finalization and revision of this manuscript in the laboratory of B.D.R., and we thank R. Pierik for allowing K.V.G. to work on this manuscript during a postdoc in his laboratory at Utrecht University. This work was supported by grants from the European Research Council under the European Union’s Seventh Framework Programme (ERC grant agreements 742985 to J.F., 714055 to B.D.R., and 803048 to M.F.), the Austrian Science Fund (FWF; I 3630-B25 to J.F.), Chemical Sciences (partly) financed by the Dutch Research Council (NWO-CW TOP 700.58.301 to R.O.), the Dutch Research Council (NWO-VICI 865.17.002 to R. Pierik), Grants-in-Aid from the Ministry of Education, Culture, Sports, Science and Technology, Japan (KAKENHI grant 17K17595 to S.N.), the Ministry of Education, Youth and Sports of the Czech Republic (MŠMT project NPUI-LO1417 ), and a China Scholarship Council (to X.W.). article_processing_charge: No article_type: original author: - first_name: Matous full_name: Glanc, Matous id: 1AE1EA24-02D0-11E9-9BAA-DAF4881429F2 last_name: Glanc orcid: 0000-0003-0619-7783 - first_name: K full_name: Van Gelderen, K last_name: Van Gelderen - first_name: Lukas full_name: Hörmayer, Lukas id: 2EEE7A2A-F248-11E8-B48F-1D18A9856A87 last_name: Hörmayer orcid: 0000-0001-8295-2926 - first_name: Shutang full_name: Tan, Shutang id: 2DE75584-F248-11E8-B48F-1D18A9856A87 last_name: Tan orcid: 0000-0002-0471-8285 - first_name: S full_name: Naramoto, S last_name: Naramoto - first_name: Xixi full_name: Zhang, Xixi id: 61A66458-47E9-11EA-85BA-8AEAAF14E49A last_name: Zhang orcid: 0000-0001-7048-4627 - first_name: David full_name: Domjan, David id: C684CD7A-257E-11EA-9B6F-D8588B4F947F last_name: Domjan orcid: 0000-0003-2267-106X - first_name: L full_name: Vcelarova, L last_name: Vcelarova - first_name: Robert full_name: Hauschild, Robert id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87 last_name: Hauschild orcid: 0000-0001-9843-3522 - first_name: Alexander J full_name: Johnson, Alexander J id: 46A62C3A-F248-11E8-B48F-1D18A9856A87 last_name: Johnson orcid: 0000-0002-2739-8843 - first_name: E full_name: de Koning, E last_name: de Koning - first_name: M full_name: van Dop, M last_name: van Dop - first_name: E full_name: Rademacher, E last_name: Rademacher - first_name: S full_name: Janson, S last_name: Janson - first_name: X full_name: Wei, X last_name: Wei - first_name: Gergely full_name: Molnar, Gergely id: 34F1AF46-F248-11E8-B48F-1D18A9856A87 last_name: Molnar - first_name: Matyas full_name: Fendrych, Matyas id: 43905548-F248-11E8-B48F-1D18A9856A87 last_name: Fendrych orcid: 0000-0002-9767-8699 - first_name: B full_name: De Rybel, B last_name: De Rybel - first_name: R full_name: Offringa, R last_name: Offringa - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 citation: ama: Glanc M, Van Gelderen K, Hörmayer L, et al. AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. Current Biology. 2021;31(9):1918-1930. doi:10.1016/j.cub.2021.02.028 apa: Glanc, M., Van Gelderen, K., Hörmayer, L., Tan, S., Naramoto, S., Zhang, X., … Friml, J. (2021). AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2021.02.028 chicago: Glanc, Matous, K Van Gelderen, Lukas Hörmayer, Shutang Tan, S Naramoto, Xixi Zhang, David Domjan, et al. “AGC Kinases and MAB4/MEL Proteins Maintain PIN Polarity by Limiting Lateral Diffusion in Plant Cells.” Current Biology. Elsevier, 2021. https://doi.org/10.1016/j.cub.2021.02.028. ieee: M. Glanc et al., “AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells,” Current Biology, vol. 31, no. 9. Elsevier, pp. 1918–1930, 2021. ista: Glanc M, Van Gelderen K, Hörmayer L, Tan S, Naramoto S, Zhang X, Domjan D, Vcelarova L, Hauschild R, Johnson AJ, de Koning E, van Dop M, Rademacher E, Janson S, Wei X, Molnar G, Fendrych M, De Rybel B, Offringa R, Friml J. 2021. AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. Current Biology. 31(9), 1918–1930. mla: Glanc, Matous, et al. “AGC Kinases and MAB4/MEL Proteins Maintain PIN Polarity by Limiting Lateral Diffusion in Plant Cells.” Current Biology, vol. 31, no. 9, Elsevier, 2021, pp. 1918–30, doi:10.1016/j.cub.2021.02.028. short: M. Glanc, K. Van Gelderen, L. Hörmayer, S. Tan, S. Naramoto, X. Zhang, D. Domjan, L. Vcelarova, R. Hauschild, A.J. Johnson, E. de Koning, M. van Dop, E. Rademacher, S. Janson, X. Wei, G. Molnar, M. Fendrych, B. De Rybel, R. Offringa, J. Friml, Current Biology 31 (2021) 1918–1930. date_created: 2021-03-26T12:09:33Z date_published: 2021-03-10T00:00:00Z date_updated: 2023-09-05T13:03:34Z day: '10' ddc: - '580' department: - _id: JiFr doi: 10.1016/j.cub.2021.02.028 ec_funded: 1 external_id: isi: - '000653077800004' pmid: - '33705718' file: - access_level: open_access checksum: b1723040ecfd8c81194185472eb62546 content_type: application/pdf creator: dernst date_created: 2021-04-01T10:53:42Z date_updated: 2021-04-01T10:53:42Z file_id: '9303' file_name: 2021_CurrentBiology_Glanc.pdf file_size: 4324371 relation: main_file success: 1 file_date_updated: 2021-04-01T10:53:42Z has_accepted_license: '1' intvolume: ' 31' isi: 1 issue: '9' language: - iso: eng month: '03' oa: 1 oa_version: Published Version page: 1918-1930 pmid: 1 project: - _id: 261099A6-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '742985' name: Tracing Evolution of Auxin Transport and Polarity in Plants - _id: 26538374-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: I03630 name: Molecular mechanisms of endocytic cargo recognition in plants publication: Current Biology publication_identifier: eissn: - 1879-0445 issn: - 0960-9822 publication_status: published publisher: Elsevier quality_controlled: '1' status: public title: AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 31 year: '2021' ... --- _id: '8824' abstract: - lang: eng text: Plants are able to orient their growth according to gravity, which ultimately controls both shoot and root architecture.1 Gravitropism is a dynamic process whereby gravistimulation induces the asymmetric distribution of the plant hormone auxin, leading to asymmetric growth, organ bending, and subsequent reset of auxin distribution back to the original pre-gravistimulation situation.1, 2, 3 Differential auxin accumulation during the gravitropic response depends on the activity of polarly localized PIN-FORMED (PIN) auxin-efflux carriers.1, 2, 3, 4 In particular, the timing of this dynamic response is regulated by PIN2,5,6 but the underlying molecular mechanisms are poorly understood. Here, we show that MEMBRANE ASSOCIATED KINASE REGULATOR2 (MAKR2) controls the pace of the root gravitropic response. We found that MAKR2 is required for the PIN2 asymmetry during gravitropism by acting as a negative regulator of the cell-surface signaling mediated by the receptor-like kinase TRANSMEMBRANE KINASE1 (TMK1).2,7, 8, 9, 10 Furthermore, we show that the MAKR2 inhibitory effect on TMK1 signaling is antagonized by auxin itself, which triggers rapid MAKR2 membrane dissociation in a TMK1-dependent manner. Our findings suggest that the timing of the root gravitropic response is orchestrated by the reversible inhibition of the TMK1 signaling pathway at the cell surface. acknowledgement: "We thank the SiCE group for discussions and comments; S. Yalovsky, B. Scheres, and the NASC/ABRC collection for providing transgenic Arabidopsis lines and plasmids; L. Kalmbach and M. Barberon for the gift of pLOK180_pFR7m34GW; A. Lacroix, J. Berger, and P. Bolland for plant care; and M. Fendrych for help with microfluidics in the J.F. lab. We acknowledge\r\nthe contribution of the SFR Biosciences (UMS3444/CNRS, US8/Inser m, ENS de Lyon, UCBL) facilities: C. Lionet, E. Chatre, and J. Brocard at LBIPLATIM-MICROSCOPY for assistance with imaging, and V. GuegenChaignon and A. Page at the Protein Science Facility (PSF) for assistance with protein purification and mass spectrometry. Y.J. was funded by ERC\r\ngrant 3363360-APPL under FP/2007–2013. Y.J. and Z.L.N. were funded by an ANR- and NSF-supported ERA-CAPS project (SICOPID: ANR-17-CAPS0003-01/NSF PGRP IOS-1841917). A.I.C.-D. is funded by an ERC consolidator grant (ERC-2015-CoG–683163) and BIO2016-78955 grant from the Spanish Ministry of Economy and Competitiveness. Exchanges between the Y.J. and T.B. laboratories were funded by Tournesol grant 35656NB. B.K.M. was\r\nfunded by the Omics@vib Marie Curie COFUND and Research Foundation Flanders for a postdoctoral fellowship." article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: MM full_name: Marquès-Bueno, MM last_name: Marquès-Bueno - first_name: L full_name: Armengot, L last_name: Armengot - first_name: LC full_name: Noack, LC last_name: Noack - first_name: J full_name: Bareille, J last_name: Bareille - first_name: Lesia full_name: Rodriguez Solovey, Lesia id: 3922B506-F248-11E8-B48F-1D18A9856A87 last_name: Rodriguez Solovey orcid: 0000-0002-7244-7237 - first_name: MP full_name: Platre, MP last_name: Platre - first_name: V full_name: Bayle, V last_name: Bayle - first_name: M full_name: Liu, M last_name: Liu - first_name: D full_name: Opdenacker, D last_name: Opdenacker - first_name: S full_name: Vanneste, S last_name: Vanneste - first_name: BK full_name: Möller, BK last_name: Möller - first_name: ZL full_name: Nimchuk, ZL last_name: Nimchuk - first_name: T full_name: Beeckman, T last_name: Beeckman - first_name: AI full_name: Caño-Delgado, AI last_name: Caño-Delgado - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Y full_name: Jaillais, Y last_name: Jaillais citation: ama: Marquès-Bueno M, Armengot L, Noack L, et al. Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. Current Biology. 2021;31(1). doi:10.1016/j.cub.2020.10.011 apa: Marquès-Bueno, M., Armengot, L., Noack, L., Bareille, J., Rodriguez Solovey, L., Platre, M., … Jaillais, Y. (2021). Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2020.10.011 chicago: Marquès-Bueno, MM, L Armengot, LC Noack, J Bareille, Lesia Rodriguez Solovey, MP Platre, V Bayle, et al. “Auxin-Regulated Reversible Inhibition of TMK1 Signaling by MAKR2 Modulates the Dynamics of Root Gravitropism.” Current Biology. Elsevier, 2021. https://doi.org/10.1016/j.cub.2020.10.011. ieee: M. Marquès-Bueno et al., “Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism,” Current Biology, vol. 31, no. 1. Elsevier, 2021. ista: Marquès-Bueno M, Armengot L, Noack L, Bareille J, Rodriguez Solovey L, Platre M, Bayle V, Liu M, Opdenacker D, Vanneste S, Möller B, Nimchuk Z, Beeckman T, Caño-Delgado A, Friml J, Jaillais Y. 2021. Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. Current Biology. 31(1). mla: Marquès-Bueno, MM, et al. “Auxin-Regulated Reversible Inhibition of TMK1 Signaling by MAKR2 Modulates the Dynamics of Root Gravitropism.” Current Biology, vol. 31, no. 1, Elsevier, 2021, doi:10.1016/j.cub.2020.10.011. short: M. Marquès-Bueno, L. Armengot, L. Noack, J. Bareille, L. Rodriguez Solovey, M. Platre, V. Bayle, M. Liu, D. Opdenacker, S. Vanneste, B. Möller, Z. Nimchuk, T. Beeckman, A. Caño-Delgado, J. Friml, Y. Jaillais, Current Biology 31 (2021). date_created: 2020-12-01T13:39:46Z date_published: 2021-01-11T00:00:00Z date_updated: 2023-09-05T13:03:15Z day: '11' ddc: - '570' department: - _id: JiFr doi: 10.1016/j.cub.2020.10.011 external_id: isi: - '000614361000039' pmid: - '33157019' file: - access_level: open_access checksum: 30b3393d841fb2b1e2b22fb42b5c8fff content_type: application/pdf creator: dernst date_created: 2021-02-04T11:37:50Z date_updated: 2021-02-04T11:37:50Z file_id: '9090' file_name: 2021_CurrentBiology_MarquesBueno.pdf file_size: 3458646 relation: main_file success: 1 file_date_updated: 2021-02-04T11:37:50Z has_accepted_license: '1' intvolume: ' 31' isi: 1 issue: '1' language: - iso: eng month: '01' oa: 1 oa_version: Published Version pmid: 1 publication: Current Biology publication_identifier: eissn: - 1879-0445 issn: - 0960-9822 publication_status: published publisher: Elsevier quality_controlled: '1' status: public title: Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 31 year: '2021' ... --- _id: '9301' abstract: - lang: eng text: Electrodepositing insulating lithium peroxide (Li2O2) is the key process during discharge of aprotic Li–O2 batteries and determines rate, capacity, and reversibility. Current understanding states that the partition between surface adsorbed and dissolved lithium superoxide governs whether Li2O2 grows as a conformal surface film or larger particles, leading to low or high capacities, respectively. However, better understanding governing factors for Li2O2 packing density and capacity requires structural sensitive in situ metrologies. Here, we establish in situ small- and wide-angle X-ray scattering (SAXS/WAXS) as a suitable method to record the Li2O2 phase evolution with atomic to submicrometer resolution during cycling a custom-built in situ Li–O2 cell. Combined with sophisticated data analysis, SAXS allows retrieving rich quantitative structural information from complex multiphase systems. Surprisingly, we find that features are absent that would point at a Li2O2 surface film formed via two consecutive electron transfers, even in poorly solvating electrolytes thought to be prototypical for surface growth. All scattering data can be modeled by stacks of thin Li2O2 platelets potentially forming large toroidal particles. Li2O2 solution growth is further justified by rotating ring-disk electrode measurements and electron microscopy. Higher discharge overpotentials lead to smaller Li2O2 particles, but there is no transition to an electronically passivating, conformal Li2O2 coating. Hence, mass transport of reactive species rather than electronic transport through a Li2O2 film limits the discharge capacity. Provided that species mobilities and carbon surface areas are high, this allows for high discharge capacities even in weakly solvating electrolytes. The currently accepted Li–O2 reaction mechanism ought to be reconsidered. acknowledged_ssus: - _id: EM-Fac acknowledgement: S.A.F. and C.P. are indebted to the European Research Council under the European Union's Horizon 2020 research and innovation program (Grant Agreement No. 636069), the Austrian Federal Ministry of Science, Research and Economy, and the Austrian Research Promotion Agency (Grant No. 845364). We acknowledge A. Zankel and H. Schroettner for support with SEM measurements. C.P. thanks N. Kostoglou, C. Koczwara, M. Hartmann, and M. Burian for discussions on gas sorption analysis, C++ programming, Monte Carlo modeling, and in situ SAXS experiments, respectively. We thank S. Stadlbauer for help with Karl Fischer titration, R. Riccò for gas sorption measurements, and acknowledge Graz University of Technology for support through the Lead Project LP-03. Likewise, the use of SOMAPP Lab, a core facility supported by the Austrian Federal Ministry of Education, Science and Research, the Graz University of Technology, the University of Graz, and Anton Paar GmbH is acknowledged. S.A.F. is indebted to Institute of Science and Technology Austria (IST Austria) for support. This research was supported by the Scientific Service Units of IST Austria through resources provided by the Electron Microscopy Facility. article_number: e2021893118 article_processing_charge: No article_type: original author: - first_name: Christian full_name: Prehal, Christian last_name: Prehal - first_name: Aleksej full_name: Samojlov, Aleksej last_name: Samojlov - first_name: Manfred full_name: Nachtnebel, Manfred last_name: Nachtnebel - first_name: Ludek full_name: Lovicar, Ludek id: 36DB3A20-F248-11E8-B48F-1D18A9856A87 last_name: Lovicar orcid: 0000-0001-6206-4200 - first_name: Manfred full_name: Kriechbaum, Manfred last_name: Kriechbaum - first_name: Heinz full_name: Amenitsch, Heinz last_name: Amenitsch - first_name: Stefan Alexander full_name: Freunberger, Stefan Alexander id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425 last_name: Freunberger orcid: 0000-0003-2902-5319 citation: ama: Prehal C, Samojlov A, Nachtnebel M, et al. In situ small-angle X-ray scattering reveals solution phase discharge of Li–O2 batteries with weakly solvating electrolytes. Proceedings of the National Academy of Sciences. 2021;118(14). doi:10.1073/pnas.2021893118 apa: Prehal, C., Samojlov, A., Nachtnebel, M., Lovicar, L., Kriechbaum, M., Amenitsch, H., & Freunberger, S. A. (2021). In situ small-angle X-ray scattering reveals solution phase discharge of Li–O2 batteries with weakly solvating electrolytes. Proceedings of the National Academy of Sciences. National Academy of Sciences. https://doi.org/10.1073/pnas.2021893118 chicago: Prehal, Christian, Aleksej Samojlov, Manfred Nachtnebel, Ludek Lovicar, Manfred Kriechbaum, Heinz Amenitsch, and Stefan Alexander Freunberger. “In Situ Small-Angle X-Ray Scattering Reveals Solution Phase Discharge of Li–O2 Batteries with Weakly Solvating Electrolytes.” Proceedings of the National Academy of Sciences. National Academy of Sciences, 2021. https://doi.org/10.1073/pnas.2021893118. ieee: C. Prehal et al., “In situ small-angle X-ray scattering reveals solution phase discharge of Li–O2 batteries with weakly solvating electrolytes,” Proceedings of the National Academy of Sciences, vol. 118, no. 14. National Academy of Sciences, 2021. ista: Prehal C, Samojlov A, Nachtnebel M, Lovicar L, Kriechbaum M, Amenitsch H, Freunberger SA. 2021. In situ small-angle X-ray scattering reveals solution phase discharge of Li–O2 batteries with weakly solvating electrolytes. Proceedings of the National Academy of Sciences. 118(14), e2021893118. mla: Prehal, Christian, et al. “In Situ Small-Angle X-Ray Scattering Reveals Solution Phase Discharge of Li–O2 Batteries with Weakly Solvating Electrolytes.” Proceedings of the National Academy of Sciences, vol. 118, no. 14, e2021893118, National Academy of Sciences, 2021, doi:10.1073/pnas.2021893118. short: C. Prehal, A. Samojlov, M. Nachtnebel, L. Lovicar, M. Kriechbaum, H. Amenitsch, S.A. Freunberger, Proceedings of the National Academy of Sciences 118 (2021). date_created: 2021-03-31T07:00:01Z date_published: 2021-04-06T00:00:00Z date_updated: 2023-09-05T13:27:18Z day: '06' department: - _id: StFr - _id: EM-Fac doi: 10.1073/pnas.2021893118 external_id: isi: - '000637398300050' intvolume: ' 118' isi: 1 issue: '14' keyword: - small-angle X-ray scattering - oxygen reduction - disproportionation - Li-air battery language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.26434/chemrxiv.11447775 month: '04' oa: 1 oa_version: Preprint publication: Proceedings of the National Academy of Sciences publication_identifier: eissn: - 1091-6490 issn: - 0027-8424 publication_status: published publisher: National Academy of Sciences quality_controlled: '1' status: public title: In situ small-angle X-ray scattering reveals solution phase discharge of Li–O2 batteries with weakly solvating electrolytes type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 118 year: '2021' ... --- _id: '9094' abstract: - lang: eng text: Dendritic cells (DCs) are crucial for the priming of naive T cells and the initiation of adaptive immunity. Priming is initiated at a heterologous cell–cell contact, the immunological synapse (IS). While it is established that F-actin dynamics regulates signaling at the T cell side of the contact, little is known about the cytoskeletal contribution on the DC side. Here, we show that the DC actin cytoskeleton is decisive for the formation of a multifocal synaptic structure, which correlates with T cell priming efficiency. DC actin at the IS appears in transient foci that are dynamized by the WAVE regulatory complex (WRC). The absence of the WRC in DCs leads to stabilized contacts with T cells, caused by an increase in ICAM1-integrin–mediated cell–cell adhesion. This results in lower numbers of activated and proliferating T cells, demonstrating an important role for DC actin in the regulation of immune synapse functionality. article_number: e202006081 article_processing_charge: No article_type: original author: - first_name: Alexander F full_name: Leithner, Alexander F id: 3B1B77E4-F248-11E8-B48F-1D18A9856A87 last_name: Leithner orcid: 0000-0002-1073-744X - first_name: LM full_name: Altenburger, LM last_name: Altenburger - first_name: R full_name: Hauschild, R last_name: Hauschild - first_name: Frank P full_name: Assen, Frank P id: 3A8E7F24-F248-11E8-B48F-1D18A9856A87 last_name: Assen orcid: 0000-0003-3470-6119 - first_name: K full_name: Rottner, K last_name: Rottner - first_name: Stradal full_name: TEB, Stradal last_name: TEB - first_name: A full_name: Diz-Muñoz, A last_name: Diz-Muñoz - first_name: JV full_name: Stein, JV last_name: Stein - first_name: Michael K full_name: Sixt, Michael K id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87 last_name: Sixt orcid: 0000-0002-6620-9179 citation: ama: Leithner AF, Altenburger L, Hauschild R, et al. Dendritic cell actin dynamics control contact duration and priming efficiency at the immunological synapse. Journal of Cell Biology. 2021;220(4). doi:10.1083/jcb.202006081 apa: Leithner, A. F., Altenburger, L., Hauschild, R., Assen, F. P., Rottner, K., TEB, S., … Sixt, M. K. (2021). Dendritic cell actin dynamics control contact duration and priming efficiency at the immunological synapse. Journal of Cell Biology. Rockefeller University Press. https://doi.org/10.1083/jcb.202006081 chicago: Leithner, Alexander F, LM Altenburger, R Hauschild, Frank P Assen, K Rottner, Stradal TEB, A Diz-Muñoz, JV Stein, and Michael K Sixt. “Dendritic Cell Actin Dynamics Control Contact Duration and Priming Efficiency at the Immunological Synapse.” Journal of Cell Biology. Rockefeller University Press, 2021. https://doi.org/10.1083/jcb.202006081. ieee: A. F. Leithner et al., “Dendritic cell actin dynamics control contact duration and priming efficiency at the immunological synapse,” Journal of Cell Biology, vol. 220, no. 4. Rockefeller University Press, 2021. ista: Leithner AF, Altenburger L, Hauschild R, Assen FP, Rottner K, TEB S, Diz-Muñoz A, Stein J, Sixt MK. 2021. Dendritic cell actin dynamics control contact duration and priming efficiency at the immunological synapse. Journal of Cell Biology. 220(4), e202006081. mla: Leithner, Alexander F., et al. “Dendritic Cell Actin Dynamics Control Contact Duration and Priming Efficiency at the Immunological Synapse.” Journal of Cell Biology, vol. 220, no. 4, e202006081, Rockefeller University Press, 2021, doi:10.1083/jcb.202006081. short: A.F. Leithner, L. Altenburger, R. Hauschild, F.P. Assen, K. Rottner, S. TEB, A. Diz-Muñoz, J. Stein, M.K. Sixt, Journal of Cell Biology 220 (2021). date_created: 2021-02-05T10:08:04Z date_published: 2021-04-05T00:00:00Z date_updated: 2023-09-05T13:57:53Z day: '05' ddc: - '570' department: - _id: MiSi doi: 10.1083/jcb.202006081 external_id: isi: - '000626365700001' pmid: - '33533935' file: - access_level: open_access checksum: 843ebc153847c8626e13c9c5ce71d533 content_type: application/pdf creator: dernst date_created: 2022-05-12T14:16:21Z date_updated: 2022-05-12T14:16:21Z file_id: '11367' file_name: 2021_JournCellBiology_Leithner.pdf file_size: 5102328 relation: main_file success: 1 file_date_updated: 2022-05-12T14:16:21Z has_accepted_license: '1' intvolume: ' 220' isi: 1 issue: '4' language: - iso: eng license: https://creativecommons.org/licenses/by-nc-sa/4.0/ month: '04' oa: 1 oa_version: Published Version pmid: 1 publication: Journal of Cell Biology publication_identifier: eissn: - 1540-8140 issn: - 0021-9525 publication_status: published publisher: Rockefeller University Press quality_controlled: '1' scopus_import: '1' status: public title: Dendritic cell actin dynamics control contact duration and priming efficiency at the immunological synapse tmp: image: /images/cc_by_nc_sa.png legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) short: CC BY-NC-SA (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 220 year: '2021' ... --- _id: '9073' abstract: - lang: eng text: The sensory and cognitive abilities of the mammalian neocortex are underpinned by intricate columnar and laminar circuits formed from an array of diverse neuronal populations. One approach to determining how interactions between these circuit components give rise to complex behavior is to investigate the rules by which cortical circuits are formed and acquire functionality during development. This review summarizes recent research on the development of the neocortex, from genetic determination in neural stem cells through to the dynamic role that specific neuronal populations play in the earliest circuits of neocortex, and how they contribute to emergent function and cognition. While many of these endeavors take advantage of model systems, consideration will also be given to advances in our understanding of activity in nascent human circuits. Such cross-species perspective is imperative when investigating the mechanisms underlying the dysfunction of early neocortical circuits in neurodevelopmental disorders, so that one can identify targets amenable to therapeutic intervention. acknowledgement: Work in the I.L.H.-O. laboratory was supported by European Research Council Grant ERC-2015-CoG 681577 and German Research Foundation Ha 4466/10-1, Ha4466/11-1, Ha4466/12-1, SPP 1665, and SFB 936B5. Work in the S.J.B.B. laboratory was supported by Biotechnology and Biological Sciences Research Council BB/P003796/1, Medical Research Council MR/K004387/1 and MR/T033320/1, Wellcome Trust 215199/Z/19/Z and 102386/Z/13/Z, and John Fell Fund. Work in the S.H. laboratory was supported by European Research Council Grants ERC-2016-CoG 725780 LinPro and FWF SFB F78. This work was supported by National Institutes of Health Grant NIMH 1R01MH110553 to N.V.D.M.G. Work in the J.A.C. laboratory was supported by the Ludwig Family Foundation, Simons Foundation SFARI Research Award, and National Institutes of Health/National Institute of Mental Health R01 MH102365 and R01MH113852. The B.V. laboratory was supported by Whitehall Foundation 2017-12-73, National Science Foundation 1736028, National Institutes of Health, National Institute of General Medical Sciences R01GM134363-01, and Halıcıoğlu Data Science Institute Fellowship. This work was supported by the University of California San Diego School of Medicine. article_processing_charge: No article_type: original author: - first_name: Ileana L. full_name: Hanganu-Opatz, Ileana L. last_name: Hanganu-Opatz - first_name: Simon J. B. full_name: Butt, Simon J. B. last_name: Butt - first_name: Simon full_name: Hippenmeyer, Simon id: 37B36620-F248-11E8-B48F-1D18A9856A87 last_name: Hippenmeyer orcid: 0000-0003-2279-1061 - first_name: Natalia V. full_name: De Marco García, Natalia V. last_name: De Marco García - first_name: Jessica A. full_name: Cardin, Jessica A. last_name: Cardin - first_name: Bradley full_name: Voytek, Bradley last_name: Voytek - first_name: Alysson R. full_name: Muotri, Alysson R. last_name: Muotri citation: ama: Hanganu-Opatz IL, Butt SJB, Hippenmeyer S, et al. The logic of developing neocortical circuits in health and disease. The Journal of Neuroscience. 2021;41(5):813-822. doi:10.1523/jneurosci.1655-20.2020 apa: Hanganu-Opatz, I. L., Butt, S. J. B., Hippenmeyer, S., De Marco García, N. V., Cardin, J. A., Voytek, B., & Muotri, A. R. (2021). The logic of developing neocortical circuits in health and disease. The Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/jneurosci.1655-20.2020 chicago: Hanganu-Opatz, Ileana L., Simon J. B. Butt, Simon Hippenmeyer, Natalia V. De Marco García, Jessica A. Cardin, Bradley Voytek, and Alysson R. Muotri. “The Logic of Developing Neocortical Circuits in Health and Disease.” The Journal of Neuroscience. Society for Neuroscience, 2021. https://doi.org/10.1523/jneurosci.1655-20.2020. ieee: I. L. Hanganu-Opatz et al., “The logic of developing neocortical circuits in health and disease,” The Journal of Neuroscience, vol. 41, no. 5. Society for Neuroscience, pp. 813–822, 2021. ista: Hanganu-Opatz IL, Butt SJB, Hippenmeyer S, De Marco García NV, Cardin JA, Voytek B, Muotri AR. 2021. The logic of developing neocortical circuits in health and disease. The Journal of Neuroscience. 41(5), 813–822. mla: Hanganu-Opatz, Ileana L., et al. “The Logic of Developing Neocortical Circuits in Health and Disease.” The Journal of Neuroscience, vol. 41, no. 5, Society for Neuroscience, 2021, pp. 813–22, doi:10.1523/jneurosci.1655-20.2020. short: I.L. Hanganu-Opatz, S.J.B. Butt, S. Hippenmeyer, N.V. De Marco García, J.A. Cardin, B. Voytek, A.R. Muotri, The Journal of Neuroscience 41 (2021) 813–822. date_created: 2021-02-03T12:23:51Z date_published: 2021-02-03T00:00:00Z date_updated: 2023-09-05T14:03:17Z day: '03' ddc: - '570' department: - _id: SiHi doi: 10.1523/jneurosci.1655-20.2020 ec_funded: 1 external_id: isi: - '000616763400002' pmid: - '33431633' file: - access_level: open_access checksum: 578fd7ed1a0aef74bce61bea2d987b33 content_type: application/pdf creator: dernst date_created: 2022-05-27T06:59:55Z date_updated: 2022-05-27T06:59:55Z file_id: '11414' file_name: 2021_JourNeuroscience_Hanganu.pdf file_size: 1031150 relation: main_file success: 1 file_date_updated: 2022-05-27T06:59:55Z has_accepted_license: '1' intvolume: ' 41' isi: 1 issue: '5' keyword: - General Neuroscience language: - iso: eng month: '02' oa: 1 oa_version: Published Version page: 813-822 pmid: 1 project: - _id: 260018B0-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '725780' name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development - _id: 059F6AB4-7A3F-11EA-A408-12923DDC885E grant_number: F07805 name: Molecular Mechanisms of Neural Stem Cell Lineage Progression publication: The Journal of Neuroscience publication_identifier: eissn: - 1529-2401 issn: - 0270-6474 publication_status: published publisher: Society for Neuroscience quality_controlled: '1' scopus_import: '1' status: public title: The logic of developing neocortical circuits in health and disease type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 41 year: '2021' ... --- _id: '10211' abstract: - lang: eng text: "We study the problem of recovering an unknown signal \U0001D465\U0001D465 given measurements obtained from a generalized linear model with a Gaussian sensing matrix. Two popular solutions are based on a linear estimator \U0001D465\U0001D465^L and a spectral estimator \U0001D465\U0001D465^s. The former is a data-dependent linear combination of the columns of the measurement matrix, and its analysis is quite simple. The latter is the principal eigenvector of a data-dependent matrix, and a recent line of work has studied its performance. In this paper, we show how to optimally combine \U0001D465\U0001D465^L and \U0001D465\U0001D465^s. At the heart of our analysis is the exact characterization of the empirical joint distribution of (\U0001D465\U0001D465,\U0001D465\U0001D465^L,\U0001D465\U0001D465^s) in the high-dimensional limit. This allows us to compute the Bayes-optimal combination of \U0001D465\U0001D465^L and \U0001D465\U0001D465^s, given the limiting distribution of the signal \U0001D465\U0001D465. When the distribution of the signal is Gaussian, then the Bayes-optimal combination has the form \U0001D703\U0001D465\U0001D465^L+\U0001D465\U0001D465^s and we derive the optimal combination coefficient. In order to establish the limiting distribution of (\U0001D465\U0001D465,\U0001D465\U0001D465^L,\U0001D465\U0001D465^s), we design and analyze an approximate message passing algorithm whose iterates give \U0001D465\U0001D465^L and approach \U0001D465\U0001D465^s. Numerical simulations demonstrate the improvement of the proposed combination with respect to the two methods considered separately." acknowledgement: M. Mondelli would like to thank Andrea Montanari for helpful discussions. All the authors would like to thank the anonymous reviewers for their helpful comments. article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Marco full_name: Mondelli, Marco id: 27EB676C-8706-11E9-9510-7717E6697425 last_name: Mondelli orcid: 0000-0002-3242-7020 - first_name: Christos full_name: Thrampoulidis, Christos last_name: Thrampoulidis - first_name: Ramji full_name: Venkataramanan, Ramji last_name: Venkataramanan citation: ama: Mondelli M, Thrampoulidis C, Venkataramanan R. Optimal combination of linear and spectral estimators for generalized linear models. Foundations of Computational Mathematics. 2021. doi:10.1007/s10208-021-09531-x apa: Mondelli, M., Thrampoulidis, C., & Venkataramanan, R. (2021). Optimal combination of linear and spectral estimators for generalized linear models. Foundations of Computational Mathematics. Springer. https://doi.org/10.1007/s10208-021-09531-x chicago: Mondelli, Marco, Christos Thrampoulidis, and Ramji Venkataramanan. “Optimal Combination of Linear and Spectral Estimators for Generalized Linear Models.” Foundations of Computational Mathematics. Springer, 2021. https://doi.org/10.1007/s10208-021-09531-x. ieee: M. Mondelli, C. Thrampoulidis, and R. Venkataramanan, “Optimal combination of linear and spectral estimators for generalized linear models,” Foundations of Computational Mathematics. Springer, 2021. ista: Mondelli M, Thrampoulidis C, Venkataramanan R. 2021. Optimal combination of linear and spectral estimators for generalized linear models. Foundations of Computational Mathematics. mla: Mondelli, Marco, et al. “Optimal Combination of Linear and Spectral Estimators for Generalized Linear Models.” Foundations of Computational Mathematics, Springer, 2021, doi:10.1007/s10208-021-09531-x. short: M. Mondelli, C. Thrampoulidis, R. Venkataramanan, Foundations of Computational Mathematics (2021). date_created: 2021-11-03T10:59:08Z date_published: 2021-08-17T00:00:00Z date_updated: 2023-09-05T14:13:57Z day: '17' ddc: - '510' department: - _id: MaMo doi: 10.1007/s10208-021-09531-x external_id: arxiv: - '2008.03326' isi: - '000685721000001' file: - access_level: open_access checksum: 9ea12dd8045a0678000a3a59295221cb content_type: application/pdf creator: alisjak date_created: 2021-12-13T15:47:54Z date_updated: 2021-12-13T15:47:54Z file_id: '10542' file_name: 2021_Springer_Mondelli.pdf file_size: 2305731 relation: main_file success: 1 file_date_updated: 2021-12-13T15:47:54Z has_accepted_license: '1' isi: 1 keyword: - Applied Mathematics - Computational Theory and Mathematics - Computational Mathematics - Analysis language: - iso: eng month: '08' oa: 1 oa_version: Published Version project: - _id: B67AFEDC-15C9-11EA-A837-991A96BB2854 name: IST Austria Open Access Fund publication: Foundations of Computational Mathematics publication_identifier: eissn: - 1615-3383 issn: - 1615-3375 publication_status: published publisher: Springer quality_controlled: '1' scopus_import: '1' status: public title: Optimal combination of linear and spectral estimators for generalized linear models tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 year: '2021' ... --- _id: '8940' abstract: - lang: eng text: We quantise Whitney’s construction to prove the existence of a triangulation for any C^2 manifold, so that we get an algorithm with explicit bounds. We also give a new elementary proof, which is completely geometric. acknowledgement: This work has been funded by the European Research Council under the European Union’s ERC Grant Agreement Number 339025 GUDHI (Algorithmic Foundations of Geometric Understanding in Higher Dimensions). The third author also received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411. Open access funding provided by the Institute of Science and Technology (IST Austria). article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Jean-Daniel full_name: Boissonnat, Jean-Daniel last_name: Boissonnat - first_name: Siargey full_name: Kachanovich, Siargey last_name: Kachanovich - first_name: Mathijs full_name: Wintraecken, Mathijs id: 307CFBC8-F248-11E8-B48F-1D18A9856A87 last_name: Wintraecken orcid: 0000-0002-7472-2220 citation: ama: 'Boissonnat J-D, Kachanovich S, Wintraecken M. Triangulating submanifolds: An elementary and quantified version of Whitney’s method. Discrete & Computational Geometry. 2021;66(1):386-434. doi:10.1007/s00454-020-00250-8' apa: 'Boissonnat, J.-D., Kachanovich, S., & Wintraecken, M. (2021). Triangulating submanifolds: An elementary and quantified version of Whitney’s method. Discrete & Computational Geometry. Springer Nature. https://doi.org/10.1007/s00454-020-00250-8' chicago: 'Boissonnat, Jean-Daniel, Siargey Kachanovich, and Mathijs Wintraecken. “Triangulating Submanifolds: An Elementary and Quantified Version of Whitney’s Method.” Discrete & Computational Geometry. Springer Nature, 2021. https://doi.org/10.1007/s00454-020-00250-8.' ieee: 'J.-D. Boissonnat, S. Kachanovich, and M. Wintraecken, “Triangulating submanifolds: An elementary and quantified version of Whitney’s method,” Discrete & Computational Geometry, vol. 66, no. 1. Springer Nature, pp. 386–434, 2021.' ista: 'Boissonnat J-D, Kachanovich S, Wintraecken M. 2021. Triangulating submanifolds: An elementary and quantified version of Whitney’s method. Discrete & Computational Geometry. 66(1), 386–434.' mla: 'Boissonnat, Jean-Daniel, et al. “Triangulating Submanifolds: An Elementary and Quantified Version of Whitney’s Method.” Discrete & Computational Geometry, vol. 66, no. 1, Springer Nature, 2021, pp. 386–434, doi:10.1007/s00454-020-00250-8.' short: J.-D. Boissonnat, S. Kachanovich, M. Wintraecken, Discrete & Computational Geometry 66 (2021) 386–434. date_created: 2020-12-12T11:07:02Z date_published: 2021-07-01T00:00:00Z date_updated: 2023-09-05T15:02:40Z day: '01' ddc: - '516' department: - _id: HeEd doi: 10.1007/s00454-020-00250-8 ec_funded: 1 external_id: isi: - '000597770300001' file: - access_level: open_access checksum: c848986091e56699dc12de85adb1e39c content_type: application/pdf creator: kschuh date_created: 2021-08-06T09:52:29Z date_updated: 2021-08-06T09:52:29Z file_id: '9795' file_name: 2021_DescreteCompGeopmetry_Boissonnat.pdf file_size: 983307 relation: main_file success: 1 file_date_updated: 2021-08-06T09:52:29Z has_accepted_license: '1' intvolume: ' 66' isi: 1 issue: '1' keyword: - Theoretical Computer Science - Computational Theory and Mathematics - Geometry and Topology - Discrete Mathematics and Combinatorics language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 386-434 project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: Discrete & Computational Geometry publication_identifier: eissn: - 1432-0444 issn: - 0179-5376 publication_status: published publisher: Springer Nature quality_controlled: '1' status: public title: 'Triangulating submanifolds: An elementary and quantified version of Whitney’s method' tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 66 year: '2021' ... --- _id: '9121' abstract: - lang: eng text: "We show that the energy gap for the BCS gap equation is\r\nΞ=μ(8e−2+o(1))exp(π2μ−−√a)\r\nin the low density limit μ→0. Together with the similar result for the critical temperature by Hainzl and Seiringer (Lett Math Phys 84: 99–107, 2008), this shows that, in the low density limit, the ratio of the energy gap and critical temperature is a universal constant independent of the interaction potential V. The results hold for a class of potentials with negative scattering length a and no bound states." acknowledgement: "Most of this work was done as part of the author’s master’s thesis. The author would like to thank Jan Philip Solovej for his supervision of this process.\r\nOpen Access funding provided by Institute of Science and Technology (IST Austria)" article_number: '20' article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Asbjørn Bækgaard full_name: Lauritsen, Asbjørn Bækgaard id: e1a2682f-dc8d-11ea-abe3-81da9ac728f1 last_name: Lauritsen orcid: 0000-0003-4476-2288 citation: ama: Lauritsen AB. The BCS energy gap at low density. Letters in Mathematical Physics. 2021;111. doi:10.1007/s11005-021-01358-5 apa: Lauritsen, A. B. (2021). The BCS energy gap at low density. Letters in Mathematical Physics. Springer Nature. https://doi.org/10.1007/s11005-021-01358-5 chicago: Lauritsen, Asbjørn Bækgaard. “The BCS Energy Gap at Low Density.” Letters in Mathematical Physics. Springer Nature, 2021. https://doi.org/10.1007/s11005-021-01358-5. ieee: A. B. Lauritsen, “The BCS energy gap at low density,” Letters in Mathematical Physics, vol. 111. Springer Nature, 2021. ista: Lauritsen AB. 2021. The BCS energy gap at low density. Letters in Mathematical Physics. 111, 20. mla: Lauritsen, Asbjørn Bækgaard. “The BCS Energy Gap at Low Density.” Letters in Mathematical Physics, vol. 111, 20, Springer Nature, 2021, doi:10.1007/s11005-021-01358-5. short: A.B. Lauritsen, Letters in Mathematical Physics 111 (2021). date_created: 2021-02-15T09:27:14Z date_published: 2021-02-12T00:00:00Z date_updated: 2023-09-05T15:17:16Z day: '12' ddc: - '510' department: - _id: GradSch doi: 10.1007/s11005-021-01358-5 external_id: isi: - '000617531900001' file: - access_level: open_access checksum: eaf1b3ff5026f120f0929a5c417dc842 content_type: application/pdf creator: dernst date_created: 2021-02-15T09:31:07Z date_updated: 2021-02-15T09:31:07Z file_id: '9122' file_name: 2021_LettersMathPhysics_Lauritsen.pdf file_size: 329332 relation: main_file success: 1 file_date_updated: 2021-02-15T09:31:07Z has_accepted_license: '1' intvolume: ' 111' isi: 1 keyword: - Mathematical Physics - Statistical and Nonlinear Physics language: - iso: eng month: '02' oa: 1 oa_version: Published Version project: - _id: B67AFEDC-15C9-11EA-A837-991A96BB2854 name: IST Austria Open Access Fund publication: Letters in Mathematical Physics publication_identifier: eissn: - 1573-0530 issn: - 0377-9017 publication_status: published publisher: Springer Nature quality_controlled: '1' status: public title: The BCS energy gap at low density tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 111 year: '2021' ... --- _id: '9234' abstract: - lang: eng text: In this paper, we present two new inertial projection-type methods for solving multivalued variational inequality problems in finite-dimensional spaces. We establish the convergence of the sequence generated by these methods when the multivalued mapping associated with the problem is only required to be locally bounded without any monotonicity assumption. Furthermore, the inertial techniques that we employ in this paper are quite different from the ones used in most papers. Moreover, based on the weaker assumptions on the inertial factor in our methods, we derive several special cases of our methods. Finally, we present some experimental results to illustrate the profits that we gain by introducing the inertial extrapolation steps. acknowledgement: 'The authors sincerely thank the Editor-in-Chief and anonymous referees for their careful reading, constructive comments and fruitful suggestions that help improve the manuscript. The research of the first author is supported by the National Research Foundation (NRF) South Africa (S& F-DSI/NRF Free Standing Postdoctoral Fellowship; Grant Number: 120784). The first author also acknowledges the financial support from DSI/NRF, South Africa Center of Excellence in Mathematical and Statistical Sciences (CoE-MaSS) Postdoctoral Fellowship. The second author has received funding from the European Research Council (ERC) under the European Union’s Seventh Framework Program (FP7 - 2007-2013) (Grant agreement No. 616160). Open Access funding provided by Institute of Science and Technology (IST Austria).' article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Chinedu full_name: Izuchukwu, Chinedu last_name: Izuchukwu - first_name: Yekini full_name: Shehu, Yekini id: 3FC7CB58-F248-11E8-B48F-1D18A9856A87 last_name: Shehu orcid: 0000-0001-9224-7139 citation: ama: Izuchukwu C, Shehu Y. New inertial projection methods for solving multivalued variational inequality problems beyond monotonicity. Networks and Spatial Economics. 2021;21(2):291-323. doi:10.1007/s11067-021-09517-w apa: Izuchukwu, C., & Shehu, Y. (2021). New inertial projection methods for solving multivalued variational inequality problems beyond monotonicity. Networks and Spatial Economics. Springer Nature. https://doi.org/10.1007/s11067-021-09517-w chicago: Izuchukwu, Chinedu, and Yekini Shehu. “New Inertial Projection Methods for Solving Multivalued Variational Inequality Problems beyond Monotonicity.” Networks and Spatial Economics. Springer Nature, 2021. https://doi.org/10.1007/s11067-021-09517-w. ieee: C. Izuchukwu and Y. Shehu, “New inertial projection methods for solving multivalued variational inequality problems beyond monotonicity,” Networks and Spatial Economics, vol. 21, no. 2. Springer Nature, pp. 291–323, 2021. ista: Izuchukwu C, Shehu Y. 2021. New inertial projection methods for solving multivalued variational inequality problems beyond monotonicity. Networks and Spatial Economics. 21(2), 291–323. mla: Izuchukwu, Chinedu, and Yekini Shehu. “New Inertial Projection Methods for Solving Multivalued Variational Inequality Problems beyond Monotonicity.” Networks and Spatial Economics, vol. 21, no. 2, Springer Nature, 2021, pp. 291–323, doi:10.1007/s11067-021-09517-w. short: C. Izuchukwu, Y. Shehu, Networks and Spatial Economics 21 (2021) 291–323. date_created: 2021-03-10T12:18:47Z date_published: 2021-06-01T00:00:00Z date_updated: 2023-09-05T15:32:32Z day: '01' ddc: - '510' department: - _id: VlKo doi: 10.1007/s11067-021-09517-w ec_funded: 1 external_id: isi: - '000625002100001' file: - access_level: open_access checksum: 22b4253a2e5da843622a2df713784b4c content_type: application/pdf creator: kschuh date_created: 2021-08-11T12:44:16Z date_updated: 2021-08-11T12:44:16Z file_id: '9884' file_name: 2021_NetworksSpatialEconomics_Shehu.pdf file_size: 834964 relation: main_file success: 1 file_date_updated: 2021-08-11T12:44:16Z has_accepted_license: '1' intvolume: ' 21' isi: 1 issue: '2' keyword: - Computer Networks and Communications - Software - Artificial Intelligence language: - iso: eng month: '06' oa: 1 oa_version: Published Version page: 291-323 project: - _id: 25FBA906-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '616160' name: 'Discrete Optimization in Computer Vision: Theory and Practice' - _id: B67AFEDC-15C9-11EA-A837-991A96BB2854 name: IST Austria Open Access Fund publication: Networks and Spatial Economics publication_identifier: eissn: - 1572-9427 issn: - 1566-113X publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: New inertial projection methods for solving multivalued variational inequality problems beyond monotonicity tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 21 year: '2021' ... --- _id: '9111' abstract: - lang: eng text: 'We study the probabilistic convergence between the mapper graph and the Reeb graph of a topological space X equipped with a continuous function f:X→R. We first give a categorification of the mapper graph and the Reeb graph by interpreting them in terms of cosheaves and stratified covers of the real line R. We then introduce a variant of the classic mapper graph of Singh et al. (in: Eurographics symposium on point-based graphics, 2007), referred to as the enhanced mapper graph, and demonstrate that such a construction approximates the Reeb graph of (X,f) when it is applied to points randomly sampled from a probability density function concentrated on (X,f). Our techniques are based on the interleaving distance of constructible cosheaves and topological estimation via kernel density estimates. Following Munch and Wang (In: 32nd international symposium on computational geometry, volume 51 of Leibniz international proceedings in informatics (LIPIcs), Dagstuhl, Germany, pp 53:1–53:16, 2016), we first show that the mapper graph of (X,f), a constructible R-space (with a fixed open cover), approximates the Reeb graph of the same space. We then construct an isomorphism between the mapper of (X,f) to the mapper of a super-level set of a probability density function concentrated on (X,f). Finally, building on the approach of Bobrowski et al. (Bernoulli 23(1):288–328, 2017b), we show that, with high probability, we can recover the mapper of the super-level set given a sufficiently large sample. Our work is the first to consider the mapper construction using the theory of cosheaves in a probabilistic setting. It is part of an ongoing effort to combine sheaf theory, probability, and statistics, to support topological data analysis with random data.' acknowledgement: "AB was supported in part by the European Union’s Horizon 2020 research and innovation\r\nprogramme under the Marie Sklodowska-Curie GrantAgreement No. 754411 and NSF IIS-1513616. OB was supported in part by the Israel Science Foundation, Grant 1965/19. BW was supported in part by NSF IIS-1513616 and DBI-1661375. EM was supported in part by NSF CMMI-1800466, DMS-1800446, and CCF-1907591.We would like to thank the Institute for Mathematics and its Applications for hosting a workshop titled Bridging Statistics and Sheaves in May 2018, where this work was conceived.\r\nOpen Access funding provided by Institute of Science and Technology (IST Austria)." article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Adam full_name: Brown, Adam id: 70B7FDF6-608D-11E9-9333-8535E6697425 last_name: Brown - first_name: Omer full_name: Bobrowski, Omer last_name: Bobrowski - first_name: Elizabeth full_name: Munch, Elizabeth last_name: Munch - first_name: Bei full_name: Wang, Bei last_name: Wang citation: ama: Brown A, Bobrowski O, Munch E, Wang B. Probabilistic convergence and stability of random mapper graphs. Journal of Applied and Computational Topology. 2021;5(1):99-140. doi:10.1007/s41468-020-00063-x apa: Brown, A., Bobrowski, O., Munch, E., & Wang, B. (2021). Probabilistic convergence and stability of random mapper graphs. Journal of Applied and Computational Topology. Springer Nature. https://doi.org/10.1007/s41468-020-00063-x chicago: Brown, Adam, Omer Bobrowski, Elizabeth Munch, and Bei Wang. “Probabilistic Convergence and Stability of Random Mapper Graphs.” Journal of Applied and Computational Topology. Springer Nature, 2021. https://doi.org/10.1007/s41468-020-00063-x. ieee: A. Brown, O. Bobrowski, E. Munch, and B. Wang, “Probabilistic convergence and stability of random mapper graphs,” Journal of Applied and Computational Topology, vol. 5, no. 1. Springer Nature, pp. 99–140, 2021. ista: Brown A, Bobrowski O, Munch E, Wang B. 2021. Probabilistic convergence and stability of random mapper graphs. Journal of Applied and Computational Topology. 5(1), 99–140. mla: Brown, Adam, et al. “Probabilistic Convergence and Stability of Random Mapper Graphs.” Journal of Applied and Computational Topology, vol. 5, no. 1, Springer Nature, 2021, pp. 99–140, doi:10.1007/s41468-020-00063-x. short: A. Brown, O. Bobrowski, E. Munch, B. Wang, Journal of Applied and Computational Topology 5 (2021) 99–140. date_created: 2021-02-11T14:41:02Z date_published: 2021-03-01T00:00:00Z date_updated: 2023-09-05T15:37:56Z day: '01' ddc: - '510' department: - _id: HeEd doi: 10.1007/s41468-020-00063-x ec_funded: 1 external_id: arxiv: - '1909.03488' file: - access_level: open_access checksum: 3f02e9d47c428484733da0f588a3c069 content_type: application/pdf creator: dernst date_created: 2021-02-11T14:43:59Z date_updated: 2021-02-11T14:43:59Z file_id: '9112' file_name: 2020_JourApplCompTopology_Brown.pdf file_size: 2090265 relation: main_file success: 1 file_date_updated: 2021-02-11T14:43:59Z has_accepted_license: '1' intvolume: ' 5' issue: '1' language: - iso: eng month: '03' oa: 1 oa_version: Published Version page: 99-140 project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: Journal of Applied and Computational Topology publication_identifier: eissn: - 2367-1734 issn: - 2367-1726 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Probabilistic convergence and stability of random mapper graphs tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 5 year: '2021' ... --- _id: '9252' abstract: - lang: eng text: 'This paper analyses the conditions for local adaptation in a metapopulation with infinitely many islands under a model of hard selection, where population size depends on local fitness. Each island belongs to one of two distinct ecological niches or habitats. Fitness is influenced by an additive trait which is under habitat‐dependent directional selection. Our analysis is based on the diffusion approximation and accounts for both genetic drift and demographic stochasticity. By neglecting linkage disequilibria, it yields the joint distribution of allele frequencies and population size on each island. We find that under hard selection, the conditions for local adaptation in a rare habitat are more restrictive for more polygenic traits: even moderate migration load per locus at very many loci is sufficient for population sizes to decline. This further reduces the efficacy of selection at individual loci due to increased drift and because smaller populations are more prone to swamping due to migration, causing a positive feedback between increasing maladaptation and declining population sizes. Our analysis also highlights the importance of demographic stochasticity, which exacerbates the decline in numbers of maladapted populations, leading to population collapse in the rare habitat at significantly lower migration than predicted by deterministic arguments.' acknowledgement: We thank the reviewers for their helpful comments, and also our colleagues, for illuminating discussions over the long gestation of this paper. article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Eniko full_name: Szep, Eniko id: 485BB5A4-F248-11E8-B48F-1D18A9856A87 last_name: Szep - first_name: Himani full_name: Sachdeva, Himani id: 42377A0A-F248-11E8-B48F-1D18A9856A87 last_name: Sachdeva - first_name: Nicholas H full_name: Barton, Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 citation: ama: 'Szep E, Sachdeva H, Barton NH. Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary model. Evolution. 2021;75(5):1030-1045. doi:10.1111/evo.14210' apa: 'Szep, E., Sachdeva, H., & Barton, N. H. (2021). Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary model. Evolution. Wiley. https://doi.org/10.1111/evo.14210' chicago: 'Szep, Eniko, Himani Sachdeva, and Nicholas H Barton. “Polygenic Local Adaptation in Metapopulations: A Stochastic Eco‐evolutionary Model.” Evolution. Wiley, 2021. https://doi.org/10.1111/evo.14210.' ieee: 'E. Szep, H. Sachdeva, and N. H. Barton, “Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary model,” Evolution, vol. 75, no. 5. Wiley, pp. 1030–1045, 2021.' ista: 'Szep E, Sachdeva H, Barton NH. 2021. Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary model. Evolution. 75(5), 1030–1045.' mla: 'Szep, Eniko, et al. “Polygenic Local Adaptation in Metapopulations: A Stochastic Eco‐evolutionary Model.” Evolution, vol. 75, no. 5, Wiley, 2021, pp. 1030–45, doi:10.1111/evo.14210.' short: E. Szep, H. Sachdeva, N.H. Barton, Evolution 75 (2021) 1030–1045. date_created: 2021-03-20T08:22:10Z date_published: 2021-05-01T00:00:00Z date_updated: 2023-09-05T15:44:06Z day: '01' ddc: - '570' department: - _id: NiBa doi: 10.1111/evo.14210 external_id: isi: - '000636966300001' file: - access_level: open_access checksum: b90fb5767d623602046fed03725e16ca content_type: application/pdf creator: kschuh date_created: 2021-08-11T13:39:19Z date_updated: 2021-08-11T13:39:19Z file_id: '9886' file_name: 2021_Evolution_Szep.pdf file_size: 734102 relation: main_file success: 1 file_date_updated: 2021-08-11T13:39:19Z has_accepted_license: '1' intvolume: ' 75' isi: 1 issue: '5' keyword: - Genetics - Ecology - Evolution - Behavior and Systematics - General Agricultural and Biological Sciences language: - iso: eng month: '05' oa: 1 oa_version: Published Version page: 1030-1045 publication: Evolution publication_identifier: eissn: - 1558-5646 issn: - 0014-3820 publication_status: published publisher: Wiley quality_controlled: '1' related_material: record: - id: '13062' relation: research_data status: public scopus_import: '1' status: public title: 'Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary model' tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 75 year: '2021' ... --- _id: '9374' abstract: - lang: eng text: If there are no constraints on the process of speciation, then the number of species might be expected to match the number of available niches and this number might be indefinitely large. One possible constraint is the opportunity for allopatric divergence. In 1981, Felsenstein used a simple and elegant model to ask if there might also be genetic constraints. He showed that progress towards speciation could be described by the build‐up of linkage disequilibrium among divergently selected loci and between these loci and those contributing to other forms of reproductive isolation. Therefore, speciation is opposed by recombination, because it tends to break down linkage disequilibria. Felsenstein then introduced a crucial distinction between “two‐allele” models, which are subject to this effect, and “one‐allele” models, which are free from the recombination constraint. These fundamentally important insights have been the foundation for both empirical and theoretical studies of speciation ever since. acknowledgement: RKB was funded by the Natural Environment Research Council (NE/P012272/1 & NE/P001610/1), the European Research Council (693030 BARRIERS), and the Swedish Research Council (VR) (2018‐03695). MRS was funded by the National Science Foundation (Grant No. DEB1939290). article_processing_charge: No article_type: original author: - first_name: Roger K. full_name: Butlin, Roger K. last_name: Butlin - first_name: Maria R. full_name: Servedio, Maria R. last_name: Servedio - first_name: Carole M. full_name: Smadja, Carole M. last_name: Smadja - first_name: Claudia full_name: Bank, Claudia last_name: Bank - first_name: Nicholas H full_name: Barton, Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 - first_name: Samuel M. full_name: Flaxman, Samuel M. last_name: Flaxman - first_name: Tatiana full_name: Giraud, Tatiana last_name: Giraud - first_name: Robin full_name: Hopkins, Robin last_name: Hopkins - first_name: Erica L. full_name: Larson, Erica L. last_name: Larson - first_name: Martine E. full_name: Maan, Martine E. last_name: Maan - first_name: Joana full_name: Meier, Joana last_name: Meier - first_name: Richard full_name: Merrill, Richard last_name: Merrill - first_name: Mohamed A. F. full_name: Noor, Mohamed A. F. last_name: Noor - first_name: Daniel full_name: Ortiz‐Barrientos, Daniel last_name: Ortiz‐Barrientos - first_name: Anna full_name: Qvarnström, Anna last_name: Qvarnström citation: ama: Butlin RK, Servedio MR, Smadja CM, et al. Homage to Felsenstein 1981, or why are there so few/many species? Evolution. 2021;75(5):978-988. doi:10.1111/evo.14235 apa: Butlin, R. K., Servedio, M. R., Smadja, C. M., Bank, C., Barton, N. H., Flaxman, S. M., … Qvarnström, A. (2021). Homage to Felsenstein 1981, or why are there so few/many species? Evolution. Wiley. https://doi.org/10.1111/evo.14235 chicago: Butlin, Roger K., Maria R. Servedio, Carole M. Smadja, Claudia Bank, Nicholas H Barton, Samuel M. Flaxman, Tatiana Giraud, et al. “Homage to Felsenstein 1981, or Why Are There so Few/Many Species?” Evolution. Wiley, 2021. https://doi.org/10.1111/evo.14235. ieee: R. K. Butlin et al., “Homage to Felsenstein 1981, or why are there so few/many species?,” Evolution, vol. 75, no. 5. Wiley, pp. 978–988, 2021. ista: Butlin RK, Servedio MR, Smadja CM, Bank C, Barton NH, Flaxman SM, Giraud T, Hopkins R, Larson EL, Maan ME, Meier J, Merrill R, Noor MAF, Ortiz‐Barrientos D, Qvarnström A. 2021. Homage to Felsenstein 1981, or why are there so few/many species? Evolution. 75(5), 978–988. mla: Butlin, Roger K., et al. “Homage to Felsenstein 1981, or Why Are There so Few/Many Species?” Evolution, vol. 75, no. 5, Wiley, 2021, pp. 978–88, doi:10.1111/evo.14235. short: R.K. Butlin, M.R. Servedio, C.M. Smadja, C. Bank, N.H. Barton, S.M. Flaxman, T. Giraud, R. Hopkins, E.L. Larson, M.E. Maan, J. Meier, R. Merrill, M.A.F. Noor, D. Ortiz‐Barrientos, A. Qvarnström, Evolution 75 (2021) 978–988. date_created: 2021-05-06T04:34:47Z date_published: 2021-04-19T00:00:00Z date_updated: 2023-09-05T15:44:33Z day: '19' department: - _id: NiBa doi: 10.1111/evo.14235 external_id: isi: - '000647224000001' intvolume: ' 75' isi: 1 issue: '5' keyword: - Genetics - Ecology - Evolution - Behavior and Systematics - General Agricultural and Biological Sciences language: - iso: eng main_file_link: - open_access: '1' url: https://onlinelibrary.wiley.com/doi/10.1111/evo.14235 month: '04' oa: 1 oa_version: Published Version page: 978-988 publication: Evolution publication_identifier: eissn: - 1558-5646 issn: - 0014-3820 publication_status: published publisher: Wiley quality_controlled: '1' status: public title: Homage to Felsenstein 1981, or why are there so few/many species? tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 75 year: '2021' ... --- _id: '13062' abstract: - lang: eng text: 'This paper analyzes the conditions for local adaptation in a metapopulation with infinitely many islands under a model of hard selection, where population size depends on local fitness. Each island belongs to one of two distinct ecological niches or habitats. Fitness is influenced by an additive trait which is under habitat-dependent directional selection. Our analysis is based on the diffusion approximation and accounts for both genetic drift and demographic stochasticity. By neglecting linkage disequilibria, it yields the joint distribution of allele frequencies and population size on each island. We find that under hard selection, the conditions for local adaptation in a rare habitat are more restrictive for more polygenic traits: even moderate migration load per locus at very many loci is sufficient for population sizes to decline. This further reduces the efficacy of selection at individual loci due to increased drift and because smaller populations are more prone to swamping due to migration, causing a positive feedback between increasing maladaptation and declining population sizes. Our analysis also highlights the importance of demographic stochasticity, which exacerbates the decline in numbers of maladapted populations, leading to population collapse in the rare habitat at significantly lower migration than predicted by deterministic arguments.' article_processing_charge: No author: - first_name: Eniko full_name: Szep, Eniko id: 485BB5A4-F248-11E8-B48F-1D18A9856A87 last_name: Szep - first_name: Himani full_name: Sachdeva, Himani id: 42377A0A-F248-11E8-B48F-1D18A9856A87 last_name: Sachdeva - first_name: Nicholas H full_name: Barton, Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 citation: ama: 'Szep E, Sachdeva H, Barton NH. Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model. 2021. doi:10.5061/DRYAD.8GTHT76P1' apa: 'Szep, E., Sachdeva, H., & Barton, N. H. (2021). Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model. Dryad. https://doi.org/10.5061/DRYAD.8GTHT76P1' chicago: 'Szep, Eniko, Himani Sachdeva, and Nicholas H Barton. “Supplementary Code for: Polygenic Local Adaptation in Metapopulations: A Stochastic Eco-Evolutionary Model.” Dryad, 2021. https://doi.org/10.5061/DRYAD.8GTHT76P1.' ieee: 'E. Szep, H. Sachdeva, and N. H. Barton, “Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model.” Dryad, 2021.' ista: 'Szep E, Sachdeva H, Barton NH. 2021. Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model, Dryad, 10.5061/DRYAD.8GTHT76P1.' mla: 'Szep, Eniko, et al. Supplementary Code for: Polygenic Local Adaptation in Metapopulations: A Stochastic Eco-Evolutionary Model. Dryad, 2021, doi:10.5061/DRYAD.8GTHT76P1.' short: E. Szep, H. Sachdeva, N.H. Barton, (2021). date_created: 2023-05-23T16:17:02Z date_published: 2021-03-02T00:00:00Z date_updated: 2023-09-05T15:44:05Z day: '02' ddc: - '570' department: - _id: NiBa doi: 10.5061/DRYAD.8GTHT76P1 license: https://creativecommons.org/publicdomain/zero/1.0/ main_file_link: - open_access: '1' url: https://doi.org/10.5061/dryad.8gtht76p1 month: '03' oa: 1 oa_version: Published Version publisher: Dryad related_material: record: - id: '9252' relation: used_in_publication status: public status: public title: 'Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model' tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data_reference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '10838' abstract: - lang: eng text: Combining hybrid zone analysis with genomic data is a promising approach to understanding the genomic basis of adaptive divergence. It allows for the identification of genomic regions underlying barriers to gene flow. It also provides insights into spatial patterns of allele frequency change, informing about the interplay between environmental factors, dispersal and selection. However, when only a single hybrid zone is analysed, it is difficult to separate patterns generated by selection from those resulting from chance. Therefore, it is beneficial to look for repeatable patterns across replicate hybrid zones in the same system. We applied this approach to the marine snail Littorina saxatilis, which contains two ecotypes, adapted to wave-exposed rocks vs. high-predation boulder fields. The existence of numerous hybrid zones between ecotypes offered the opportunity to test for the repeatability of genomic architectures and spatial patterns of divergence. We sampled and phenotyped snails from seven replicate hybrid zones on the Swedish west coast and genotyped them for thousands of single nucleotide polymorphisms. Shell shape and size showed parallel clines across all zones. Many genomic regions showing steep clines and/or high differentiation were shared among hybrid zones, consistent with a common evolutionary history and extensive gene flow between zones, and supporting the importance of these regions for divergence. In particular, we found that several large putative inversions contribute to divergence in all locations. Additionally, we found evidence for consistent displacement of clines from the boulder–rock transition. Our results demonstrate patterns of spatial variation that would not be accessible without continuous spatial sampling, a large genomic data set and replicate hybrid zones. acknowledgement: "We thank everyone who helped with fieldwork, snail processing and DNA extractions, particularly Laura Brettell, Mårten Duvetorp, Juan Galindo, Anne-Lise Liabot, Mark Ravinet, Irena Senčić and Zuzanna Zagrodzka. We are also grateful to Edinburgh Genomics for library preparation and sequencing, to Stuart Baird and Mark Ravinet for helpful discussions, and to three anonymous reviewers for their constructive comments. This work was supported by the Natural Environment Research Council (NE/K014021/1), the European Research Council (AdG-693030-BARRIERS), Swedish Research Councils Formas and Vetenskapsrådet through a Linnaeus grant to the Centre for Marine Evolutionary Biology (217-2008-1719), the European Regional Development Fund (POCI-01-0145-FEDER-030628), and the Fundação para a iência e a Tecnologia,\r\nPortugal (PTDC/BIA-EVL/\r\n30628/2017). A.M.W. and R.F. were\r\nfunded by the European Union’s Horizon 2020 research and innovation\r\nprogramme under Marie Skłodowska-Curie\r\ngrant agreements\r\nno. 754411/797747 and no. 706376, respectively." article_processing_charge: No article_type: original author: - first_name: Anja M full_name: Westram, Anja M id: 3C147470-F248-11E8-B48F-1D18A9856A87 last_name: Westram orcid: 0000-0003-1050-4969 - first_name: Rui full_name: Faria, Rui last_name: Faria - first_name: Kerstin full_name: Johannesson, Kerstin last_name: Johannesson - first_name: Roger full_name: Butlin, Roger last_name: Butlin citation: ama: Westram AM, Faria R, Johannesson K, Butlin R. Using replicate hybrid zones to understand the genomic basis of adaptive divergence. Molecular Ecology. 2021;30(15):3797-3814. doi:10.1111/mec.15861 apa: Westram, A. M., Faria, R., Johannesson, K., & Butlin, R. (2021). Using replicate hybrid zones to understand the genomic basis of adaptive divergence. Molecular Ecology. Wiley. https://doi.org/10.1111/mec.15861 chicago: Westram, Anja M, Rui Faria, Kerstin Johannesson, and Roger Butlin. “Using Replicate Hybrid Zones to Understand the Genomic Basis of Adaptive Divergence.” Molecular Ecology. Wiley, 2021. https://doi.org/10.1111/mec.15861. ieee: A. M. Westram, R. Faria, K. Johannesson, and R. Butlin, “Using replicate hybrid zones to understand the genomic basis of adaptive divergence,” Molecular Ecology, vol. 30, no. 15. Wiley, pp. 3797–3814, 2021. ista: Westram AM, Faria R, Johannesson K, Butlin R. 2021. Using replicate hybrid zones to understand the genomic basis of adaptive divergence. Molecular Ecology. 30(15), 3797–3814. mla: Westram, Anja M., et al. “Using Replicate Hybrid Zones to Understand the Genomic Basis of Adaptive Divergence.” Molecular Ecology, vol. 30, no. 15, Wiley, 2021, pp. 3797–814, doi:10.1111/mec.15861. short: A.M. Westram, R. Faria, K. Johannesson, R. Butlin, Molecular Ecology 30 (2021) 3797–3814. date_created: 2022-03-08T11:28:32Z date_published: 2021-08-01T00:00:00Z date_updated: 2023-09-05T16:02:19Z day: '01' ddc: - '570' department: - _id: BeVi doi: 10.1111/mec.15861 external_id: isi: - '000669439700001' pmid: - '33638231' file: - access_level: open_access checksum: d5611f243ceb63a0e091d6662ebd9cda content_type: application/pdf creator: dernst date_created: 2022-03-08T11:31:30Z date_updated: 2022-03-08T11:31:30Z file_id: '10839' file_name: 2021_MolecularEcology_Westram.pdf file_size: 1726548 relation: main_file success: 1 file_date_updated: 2022-03-08T11:31:30Z has_accepted_license: '1' intvolume: ' 30' isi: 1 issue: '15' keyword: - Genetics - Ecology - Evolution - Behavior and Systematics language: - iso: eng month: '08' oa: 1 oa_version: Published Version page: 3797-3814 pmid: 1 publication: Molecular Ecology publication_identifier: eissn: - 1365-294X issn: - 0962-1083 publication_status: published publisher: Wiley quality_controlled: '1' scopus_import: '1' status: public title: Using replicate hybrid zones to understand the genomic basis of adaptive divergence tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 30 year: '2021' ... --- _id: '9288' abstract: - lang: eng text: "• The phenylpropanoid pathway serves a central role in plant metabolism, providing numerous compounds involved in diverse physiological processes. Most carbon entering the pathway is incorporated into lignin. Although several phenylpropanoid pathway mutants show seedling growth arrest, the role for lignin in seedling growth and development is unexplored.\r\n• We use complementary pharmacological and genetic approaches to block CINNAMATE‐4‐HYDROXYLASE (C4H) functionality in Arabidopsis seedlings and a set of molecular and biochemical techniques to investigate the underlying phenotypes.\r\n• Blocking C4H resulted in reduced lateral rooting and increased adventitious rooting apically in the hypocotyl. These phenotypes coincided with an inhibition in auxin transport. The upstream accumulation in cis‐cinnamic acid was found to likely cause polar auxin transport inhibition. Conversely, a downstream depletion in lignin perturbed phloem‐mediated auxin transport. Restoring lignin deposition effectively reestablished phloem transport and, accordingly, auxin homeostasis.\r\n• Our results show that the accumulation of bioactive intermediates and depletion in lignin jointly cause the aberrant phenotypes upon blocking C4H, and demonstrate that proper deposition of lignin is essential for the establishment of auxin distribution in seedlings. Our data position the phenylpropanoid pathway and lignin in a new physiological framework, consolidating their importance in plant growth and development." article_processing_charge: No article_type: original author: - first_name: I full_name: El Houari, I last_name: El Houari - first_name: C full_name: Van Beirs, C last_name: Van Beirs - first_name: HE full_name: Arents, HE last_name: Arents - first_name: Huibin full_name: Han, Huibin id: 31435098-F248-11E8-B48F-1D18A9856A87 last_name: Han - first_name: A full_name: Chanoca, A last_name: Chanoca - first_name: D full_name: Opdenacker, D last_name: Opdenacker - first_name: J full_name: Pollier, J last_name: Pollier - first_name: V full_name: Storme, V last_name: Storme - first_name: W full_name: Steenackers, W last_name: Steenackers - first_name: M full_name: Quareshy, M last_name: Quareshy - first_name: R full_name: Napier, R last_name: Napier - first_name: T full_name: Beeckman, T last_name: Beeckman - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: B full_name: De Rybel, B last_name: De Rybel - first_name: W full_name: Boerjan, W last_name: Boerjan - first_name: B full_name: Vanholme, B last_name: Vanholme citation: ama: El Houari I, Van Beirs C, Arents H, et al. Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport. New Phytologist. 2021;230(6):2275-2291. doi:10.1111/nph.17349 apa: El Houari, I., Van Beirs, C., Arents, H., Han, H., Chanoca, A., Opdenacker, D., … Vanholme, B. (2021). Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport. New Phytologist. Wiley. https://doi.org/10.1111/nph.17349 chicago: El Houari, I, C Van Beirs, HE Arents, Huibin Han, A Chanoca, D Opdenacker, J Pollier, et al. “Seedling Developmental Defects upon Blocking CINNAMATE-4-HYDROXYLASE Are Caused by Perturbations in Auxin Transport.” New Phytologist. Wiley, 2021. https://doi.org/10.1111/nph.17349. ieee: I. El Houari et al., “Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport,” New Phytologist, vol. 230, no. 6. Wiley, pp. 2275–2291, 2021. ista: El Houari I, Van Beirs C, Arents H, Han H, Chanoca A, Opdenacker D, Pollier J, Storme V, Steenackers W, Quareshy M, Napier R, Beeckman T, Friml J, De Rybel B, Boerjan W, Vanholme B. 2021. Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport. New Phytologist. 230(6), 2275–2291. mla: El Houari, I., et al. “Seedling Developmental Defects upon Blocking CINNAMATE-4-HYDROXYLASE Are Caused by Perturbations in Auxin Transport.” New Phytologist, vol. 230, no. 6, Wiley, 2021, pp. 2275–91, doi:10.1111/nph.17349. short: I. El Houari, C. Van Beirs, H. Arents, H. Han, A. Chanoca, D. Opdenacker, J. Pollier, V. Storme, W. Steenackers, M. Quareshy, R. Napier, T. Beeckman, J. Friml, B. De Rybel, W. Boerjan, B. Vanholme, New Phytologist 230 (2021) 2275–2291. date_created: 2021-03-26T12:09:01Z date_published: 2021-03-17T00:00:00Z date_updated: 2023-09-05T15:46:55Z day: '17' department: - _id: JiFr doi: 10.1111/nph.17349 external_id: isi: - '000639552400001' pmid: - '33728703' intvolume: ' 230' isi: 1 issue: '6' language: - iso: eng main_file_link: - open_access: '1' url: https://biblio.ugent.be/publication/8703799/file/8703800.pdf month: '03' oa: 1 oa_version: Published Version page: 2275-2291 pmid: 1 publication: New Phytologist publication_identifier: eissn: - 1469-8137 issn: - 0028-646x publication_status: published publisher: Wiley quality_controlled: '1' scopus_import: '1' status: public title: Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 230 year: '2021' ... --- _id: '10836' acknowledgement: This work was supported by the Austrian Science Fund (FWF) grants MCCA W1248-B30 and SFB F4606-B28 to EJJ. CP received a short-term research fellowship of the European Federation of Immunological Societies (EFIS-IL) for a research visit at Biocruces Bizkaia Health Research Institute, Barakaldo, Spain. VKK received an EFIS-IL short-term research fellowship for a research visit at King’s College London. The research was funded by the National Institute for Health Research (NIHR) Biomedical Research Centre (BRC) based at Guy's and St Thomas' NHS Foundation Trust and King's College London (IS-BRC-1215-20006) (SNK). The authors acknowledge support by the Medical Research Council (MR/L023091/1) (SNK); Breast Cancer Now (147; KCL-BCN-Q3)(SNK); Cancer Research UK (C30122/A11527; C30122/A15774) (SNK); Cancer Research UK King's Health Partners Centre at King's College London (C604/A25135) (SNK); CRUK/NIHR in England/DoH for Scotland, Wales and Northern Ireland Experimental Cancer Medicine Centre (C10355/A15587) (SNK). The views expressed are those of the author(s) and not necessarily those of the NHS, the NIHR or the Department of Health. Additionally, this work was funded by Instituto de Salud Carlos III through the project "PI16/01223" (Co-funded by European Regional Development Fund; “A way to make Europe”) to FB and by the Department of Health, Basque Government through the project “2019111031” to OZ. OZ is recipient of a Sara Borrell 2017 post-doctoral contract “CD17/00128” funded by Instituto de Salud Carlos III (Co-funded by European Social Fund; “Investing in your future”). article_processing_charge: No article_type: letter_note author: - first_name: Christina L. full_name: Pranger, Christina L. last_name: Pranger - first_name: Judit full_name: Fazekas-Singer, Judit id: 36432834-F248-11E8-B48F-1D18A9856A87 last_name: Fazekas-Singer orcid: 0000-0002-8777-3502 - first_name: Verena K. full_name: Köhler, Verena K. last_name: Köhler - first_name: Isabella full_name: Pali‐Schöll, Isabella last_name: Pali‐Schöll - first_name: Alessandro full_name: Fiocchi, Alessandro last_name: Fiocchi - first_name: Sophia N. full_name: Karagiannis, Sophia N. last_name: Karagiannis - first_name: Olatz full_name: Zenarruzabeitia, Olatz last_name: Zenarruzabeitia - first_name: Francisco full_name: Borrego, Francisco last_name: Borrego - first_name: Erika full_name: Jensen‐Jarolim, Erika last_name: Jensen‐Jarolim citation: ama: 'Pranger CL, Singer J, Köhler VK, et al. PIPE‐cloned human IgE and IgG4 antibodies: New tools for investigating cow’s milk allergy and tolerance. Allergy. 2021;76(5):1553-1556. doi:10.1111/all.14604' apa: 'Pranger, C. L., Singer, J., Köhler, V. K., Pali‐Schöll, I., Fiocchi, A., Karagiannis, S. N., … Jensen‐Jarolim, E. (2021). PIPE‐cloned human IgE and IgG4 antibodies: New tools for investigating cow’s milk allergy and tolerance. Allergy. Wiley. https://doi.org/10.1111/all.14604' chicago: 'Pranger, Christina L., Judit Singer, Verena K. Köhler, Isabella Pali‐Schöll, Alessandro Fiocchi, Sophia N. Karagiannis, Olatz Zenarruzabeitia, Francisco Borrego, and Erika Jensen‐Jarolim. “PIPE‐cloned Human IgE and IgG4 Antibodies: New Tools for Investigating Cow’s Milk Allergy and Tolerance.” Allergy. Wiley, 2021. https://doi.org/10.1111/all.14604.' ieee: 'C. L. Pranger et al., “PIPE‐cloned human IgE and IgG4 antibodies: New tools for investigating cow’s milk allergy and tolerance,” Allergy, vol. 76, no. 5. Wiley, pp. 1553–1556, 2021.' ista: 'Pranger CL, Singer J, Köhler VK, Pali‐Schöll I, Fiocchi A, Karagiannis SN, Zenarruzabeitia O, Borrego F, Jensen‐Jarolim E. 2021. PIPE‐cloned human IgE and IgG4 antibodies: New tools for investigating cow’s milk allergy and tolerance. Allergy. 76(5), 1553–1556.' mla: 'Pranger, Christina L., et al. “PIPE‐cloned Human IgE and IgG4 Antibodies: New Tools for Investigating Cow’s Milk Allergy and Tolerance.” Allergy, vol. 76, no. 5, Wiley, 2021, pp. 1553–56, doi:10.1111/all.14604.' short: C.L. Pranger, J. Singer, V.K. Köhler, I. Pali‐Schöll, A. Fiocchi, S.N. Karagiannis, O. Zenarruzabeitia, F. Borrego, E. Jensen‐Jarolim, Allergy 76 (2021) 1553–1556. date_created: 2022-03-08T11:19:05Z date_published: 2021-05-01T00:00:00Z date_updated: 2023-09-05T15:58:53Z day: '01' ddc: - '570' department: - _id: Bio doi: 10.1111/all.14604 external_id: isi: - '000577708800001' pmid: - '32990982' file: - access_level: open_access checksum: 9526f9554112fc027c9f7fa540c488cd content_type: application/pdf creator: dernst date_created: 2022-03-08T11:23:16Z date_updated: 2022-03-08T11:23:16Z file_id: '10837' file_name: 2021_Allergy_Pranger.pdf file_size: 626081 relation: main_file success: 1 file_date_updated: 2022-03-08T11:23:16Z has_accepted_license: '1' intvolume: ' 76' isi: 1 issue: '5' keyword: - Immunology - Immunology and Allergy language: - iso: eng month: '05' oa: 1 oa_version: Published Version page: 1553-1556 pmid: 1 publication: Allergy publication_identifier: eissn: - 1398-9995 issn: - 0105-4538 publication_status: published publisher: Wiley quality_controlled: '1' scopus_import: '1' status: public title: 'PIPE‐cloned human IgE and IgG4 antibodies: New tools for investigating cow''s milk allergy and tolerance' tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 76 year: '2021' ... --- _id: '8608' abstract: - lang: eng text: To adapt to the diverse array of biotic and abiotic cues, plants have evolved sophisticated mechanisms to sense changes in environmental conditions and modulate their growth. Growth-promoting hormones and defence signalling fine tune plant development antagonistically. During host-pathogen interactions, this defence-growth trade-off is mediated by the counteractive effects of the defence hormone salicylic acid (SA) and the growth hormone auxin. Here we revealed an underlying mechanism of SA regulating auxin signalling by constraining the plasma membrane dynamics of PIN2 auxin efflux transporter in Arabidopsis thaliana roots. The lateral diffusion of PIN2 proteins is constrained by SA signalling, during which PIN2 proteins are condensed into hyperclusters depending on REM1.2-mediated nanodomain compartmentalisation. Furthermore, membrane nanodomain compartmentalisation by SA or Remorin (REM) assembly significantly suppressed clathrin-mediated endocytosis. Consequently, SA-induced heterogeneous surface condensation disrupted asymmetric auxin distribution and the resultant gravitropic response. Our results demonstrated a defence-growth trade-off mechanism by which SA signalling crosstalked with auxin transport by concentrating membrane-resident PIN2 into heterogeneous compartments. acknowledgement: This work was supported by the National Key Research andDevelopment Programme of China (2017YFA0506100), theNational Natural Science Foundation of China (31870170 and31701168), and the Fok Ying Tung Education Foundation(161027) to XC; NTU startup grant (M4081533) and NIM/01/2016 (NTU, Singapore) to YM. We thank Lei Shi andZhongquan Lin for microscopy assistance. article_processing_charge: No article_type: original author: - first_name: M full_name: Ke, M last_name: Ke - first_name: Z full_name: Ma, Z last_name: Ma - first_name: D full_name: Wang, D last_name: Wang - first_name: Y full_name: Sun, Y last_name: Sun - first_name: C full_name: Wen, C last_name: Wen - first_name: D full_name: Huang, D last_name: Huang - first_name: Z full_name: Chen, Z last_name: Chen - first_name: L full_name: Yang, L last_name: Yang - first_name: Shutang full_name: Tan, Shutang id: 2DE75584-F248-11E8-B48F-1D18A9856A87 last_name: Tan orcid: 0000-0002-0471-8285 - first_name: R full_name: Li, R last_name: Li - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Y full_name: Miao, Y last_name: Miao - first_name: X full_name: Chen, X last_name: Chen citation: ama: Ke M, Ma Z, Wang D, et al. Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana. New Phytologist. 2021;229(2):963-978. doi:10.1111/nph.16915 apa: Ke, M., Ma, Z., Wang, D., Sun, Y., Wen, C., Huang, D., … Chen, X. (2021). Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana. New Phytologist. Wiley. https://doi.org/10.1111/nph.16915 chicago: Ke, M, Z Ma, D Wang, Y Sun, C Wen, D Huang, Z Chen, et al. “Salicylic Acid Regulates PIN2 Auxin Transporter Hyper-Clustering and Root Gravitropic Growth via Remorin-Dependent Lipid Nanodomain Organization in Arabidopsis Thaliana.” New Phytologist. Wiley, 2021. https://doi.org/10.1111/nph.16915. ieee: M. Ke et al., “Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana,” New Phytologist, vol. 229, no. 2. Wiley, pp. 963–978, 2021. ista: Ke M, Ma Z, Wang D, Sun Y, Wen C, Huang D, Chen Z, Yang L, Tan S, Li R, Friml J, Miao Y, Chen X. 2021. Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana. New Phytologist. 229(2), 963–978. mla: Ke, M., et al. “Salicylic Acid Regulates PIN2 Auxin Transporter Hyper-Clustering and Root Gravitropic Growth via Remorin-Dependent Lipid Nanodomain Organization in Arabidopsis Thaliana.” New Phytologist, vol. 229, no. 2, Wiley, 2021, pp. 963–78, doi:10.1111/nph.16915. short: M. Ke, Z. Ma, D. Wang, Y. Sun, C. Wen, D. Huang, Z. Chen, L. Yang, S. Tan, R. Li, J. Friml, Y. Miao, X. Chen, New Phytologist 229 (2021) 963–978. date_created: 2020-10-05T12:45:36Z date_published: 2021-01-01T00:00:00Z date_updated: 2023-09-05T16:06:24Z day: '01' ddc: - '580' department: - _id: JiFr doi: 10.1111/nph.16915 external_id: isi: - '000573568000001' pmid: - '32901934' file: - access_level: open_access checksum: d36b6a8c6fafab66264e0d27114dae63 content_type: application/pdf creator: dernst date_created: 2021-02-04T09:53:16Z date_updated: 2021-02-04T09:53:16Z file_id: '9085' file_name: 2021_NewPhytologist_Ke.pdf file_size: 3674502 relation: main_file success: 1 file_date_updated: 2021-02-04T09:53:16Z has_accepted_license: '1' intvolume: ' 229' isi: 1 issue: '2' language: - iso: eng month: '01' oa: 1 oa_version: Published Version page: 963-978 pmid: 1 publication: New Phytologist publication_identifier: eissn: - 1469-8137 issn: - 0028-646x publication_status: published publisher: Wiley quality_controlled: '1' scopus_import: '1' status: public title: Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 229 year: '2021' ... --- _id: '7900' abstract: - lang: eng text: Hartree–Fock theory has been justified as a mean-field approximation for fermionic systems. However, it suffers from some defects in predicting physical properties, making necessary a theory of quantum correlations. Recently, bosonization of many-body correlations has been rigorously justified as an upper bound on the correlation energy at high density with weak interactions. We review the bosonic approximation, deriving an effective Hamiltonian. We then show that for systems with Coulomb interaction this effective theory predicts collective excitations (plasmons) in accordance with the random phase approximation of Bohm and Pines, and with experimental observation. article_number: '2060009' article_processing_charge: No article_type: original author: - first_name: Niels P full_name: Benedikter, Niels P id: 3DE6C32A-F248-11E8-B48F-1D18A9856A87 last_name: Benedikter orcid: 0000-0002-1071-6091 citation: ama: Benedikter NP. Bosonic collective excitations in Fermi gases. Reviews in Mathematical Physics. 2021;33(1). doi:10.1142/s0129055x20600090 apa: Benedikter, N. P. (2021). Bosonic collective excitations in Fermi gases. Reviews in Mathematical Physics. World Scientific. https://doi.org/10.1142/s0129055x20600090 chicago: Benedikter, Niels P. “Bosonic Collective Excitations in Fermi Gases.” Reviews in Mathematical Physics. World Scientific, 2021. https://doi.org/10.1142/s0129055x20600090. ieee: N. P. Benedikter, “Bosonic collective excitations in Fermi gases,” Reviews in Mathematical Physics, vol. 33, no. 1. World Scientific, 2021. ista: Benedikter NP. 2021. Bosonic collective excitations in Fermi gases. Reviews in Mathematical Physics. 33(1), 2060009. mla: Benedikter, Niels P. “Bosonic Collective Excitations in Fermi Gases.” Reviews in Mathematical Physics, vol. 33, no. 1, 2060009, World Scientific, 2021, doi:10.1142/s0129055x20600090. short: N.P. Benedikter, Reviews in Mathematical Physics 33 (2021). date_created: 2020-05-28T16:47:55Z date_published: 2021-01-01T00:00:00Z date_updated: 2023-09-05T16:07:40Z day: '01' department: - _id: RoSe doi: 10.1142/s0129055x20600090 ec_funded: 1 external_id: arxiv: - '1910.08190' isi: - '000613313200010' intvolume: ' 33' isi: 1 issue: '1' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1910.08190 month: '01' oa: 1 oa_version: Preprint project: - _id: 25C6DC12-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '694227' name: Analysis of quantum many-body systems publication: Reviews in Mathematical Physics publication_identifier: eissn: - 1793-6659 issn: - 0129-055X publication_status: published publisher: World Scientific quality_controlled: '1' scopus_import: '1' status: public title: Bosonic collective excitations in Fermi gases type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 33 year: '2021' ... --- _id: '10852' abstract: - lang: eng text: ' We review old and new results on the Fröhlich polaron model. The discussion includes the validity of the (classical) Pekar approximation in the strong coupling limit, quantum corrections to this limit, as well as the divergence of the effective polaron mass.' acknowledgement: This work was supported by the European Research Council (ERC) under the Euro-pean Union’s Horizon 2020 research and innovation programme (grant agreementNo. 694227). article_number: '2060012' article_processing_charge: No article_type: original author: - first_name: Robert full_name: Seiringer, Robert id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 citation: ama: Seiringer R. The polaron at strong coupling. Reviews in Mathematical Physics. 2021;33(01). doi:10.1142/s0129055x20600120 apa: Seiringer, R. (2021). The polaron at strong coupling. Reviews in Mathematical Physics. World Scientific Publishing. https://doi.org/10.1142/s0129055x20600120 chicago: Seiringer, Robert. “The Polaron at Strong Coupling.” Reviews in Mathematical Physics. World Scientific Publishing, 2021. https://doi.org/10.1142/s0129055x20600120. ieee: R. Seiringer, “The polaron at strong coupling,” Reviews in Mathematical Physics, vol. 33, no. 01. World Scientific Publishing, 2021. ista: Seiringer R. 2021. The polaron at strong coupling. Reviews in Mathematical Physics. 33(01), 2060012. mla: Seiringer, Robert. “The Polaron at Strong Coupling.” Reviews in Mathematical Physics, vol. 33, no. 01, 2060012, World Scientific Publishing, 2021, doi:10.1142/s0129055x20600120. short: R. Seiringer, Reviews in Mathematical Physics 33 (2021). date_created: 2022-03-18T08:11:34Z date_published: 2021-02-01T00:00:00Z date_updated: 2023-09-05T16:08:02Z day: '01' department: - _id: RoSe doi: 10.1142/s0129055x20600120 ec_funded: 1 external_id: arxiv: - '1912.12509' isi: - '000613313200013' intvolume: ' 33' isi: 1 issue: '01' keyword: - Mathematical Physics - Statistical and Nonlinear Physics language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1912.12509 month: '02' oa: 1 oa_version: Preprint project: - _id: 25C6DC12-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '694227' name: Analysis of quantum many-body systems publication: Reviews in Mathematical Physics publication_identifier: eissn: - 1793-6659 issn: - 0129-055X publication_status: published publisher: World Scientific Publishing quality_controlled: '1' scopus_import: '1' status: public title: The polaron at strong coupling type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 33 year: '2021' ... --- _id: '9056' abstract: - lang: eng text: "In this thesis we study persistence of multi-covers of Euclidean balls and the geometric structures underlying their computation, in particular Delaunay mosaics and Voronoi tessellations. The k-fold cover for some discrete input point set consists of the space where at least k balls of radius r around the input points overlap. Persistence is a notion that captures, in some sense, the topology of the shape underlying the input. While persistence is usually computed for the union of balls, the k-fold cover is of interest as it captures local density,\r\nand thus might approximate the shape of the input better if the input data is noisy. To compute persistence of these k-fold covers, we need a discretization that is provided by higher-order Delaunay mosaics. We present and implement a simple and efficient algorithm for the computation of higher-order Delaunay mosaics, and use it to give experimental results for their combinatorial properties. The algorithm makes use of a new geometric structure, the rhomboid tiling. It contains the higher-order Delaunay mosaics as slices, and by introducing a filtration\r\nfunction on the tiling, we also obtain higher-order α-shapes as slices. These allow us to compute persistence of the multi-covers for varying radius r; the computation for varying k is less straight-foward and involves the rhomboid tiling directly. We apply our algorithms to experimental sphere packings to shed light on their structural properties. Finally, inspired by periodic structures in packings and materials, we propose and implement an algorithm for periodic Delaunay triangulations to be integrated into the Computational Geometry Algorithms Library (CGAL), and discuss the implications on persistence for periodic data sets." alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Georg F full_name: Osang, Georg F id: 464B40D6-F248-11E8-B48F-1D18A9856A87 last_name: Osang orcid: 0000-0002-8882-5116 citation: ama: Osang GF. Multi-cover persistence and Delaunay mosaics. 2021. doi:10.15479/AT:ISTA:9056 apa: Osang, G. F. (2021). Multi-cover persistence and Delaunay mosaics. Institute of Science and Technology Austria, Klosterneuburg. https://doi.org/10.15479/AT:ISTA:9056 chicago: Osang, Georg F. “Multi-Cover Persistence and Delaunay Mosaics.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9056. ieee: G. F. Osang, “Multi-cover persistence and Delaunay mosaics,” Institute of Science and Technology Austria, Klosterneuburg, 2021. ista: 'Osang GF. 2021. Multi-cover persistence and Delaunay mosaics. Klosterneuburg: Institute of Science and Technology Austria.' mla: Osang, Georg F. Multi-Cover Persistence and Delaunay Mosaics. Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9056. short: G.F. Osang, Multi-Cover Persistence and Delaunay Mosaics, Institute of Science and Technology Austria, 2021. date_created: 2021-02-02T14:11:06Z date_published: 2021-02-01T00:00:00Z date_updated: 2023-09-07T13:29:01Z day: '01' ddc: - '006' - '514' - '516' degree_awarded: PhD department: - _id: HeEd - _id: GradSch doi: 10.15479/AT:ISTA:9056 file: - access_level: closed checksum: bcf27986147cab0533b6abadd74e7629 content_type: application/zip creator: patrickd date_created: 2021-02-02T14:09:25Z date_updated: 2021-02-03T10:37:28Z file_id: '9063' file_name: thesis_source.zip file_size: 13446994 relation: source_file - access_level: open_access checksum: 9cc8af266579a464385bbe2aff6af606 content_type: application/pdf creator: patrickd date_created: 2021-02-02T14:09:18Z date_updated: 2021-02-02T14:09:18Z file_id: '9064' file_name: thesis_pdfA2b.pdf file_size: 5210329 relation: main_file success: 1 file_date_updated: 2021-02-03T10:37:28Z has_accepted_license: '1' language: - iso: eng month: '02' oa: 1 oa_version: Published Version page: '134' place: Klosterneuburg publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '187' relation: part_of_dissertation status: public - id: '8703' relation: part_of_dissertation status: public status: public supervisor: - first_name: Herbert full_name: Edelsbrunner, Herbert id: 3FB178DA-F248-11E8-B48F-1D18A9856A87 last_name: Edelsbrunner orcid: 0000-0002-9823-6833 title: Multi-cover persistence and Delaunay mosaics tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: dissertation user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 year: '2021' ... --- _id: '9022' abstract: - lang: eng text: "In the first part of the thesis we consider Hermitian random matrices. Firstly, we consider sample covariance matrices XX∗ with X having independent identically distributed (i.i.d.) centred entries. We prove a Central Limit Theorem for differences of linear statistics of XX∗ and its minor after removing the first column of X. Secondly, we consider Wigner-type matrices and prove that the eigenvalue statistics near cusp singularities of the limiting density of states are universal and that they form a Pearcey process. Since the limiting eigenvalue distribution admits only square root (edge) and cubic root (cusp) singularities, this concludes the third and last remaining case of the Wigner-Dyson-Mehta universality conjecture. The main technical ingredients are an optimal local law at the cusp, and the proof of the fast relaxation to equilibrium of the Dyson Brownian motion in the cusp regime.\r\nIn the second part we consider non-Hermitian matrices X with centred i.i.d. entries. We normalise the entries of X to have variance N −1. It is well known that the empirical eigenvalue density converges to the uniform distribution on the unit disk (circular law). In the first project, we prove universality of the local eigenvalue statistics close to the edge of the spectrum. This is the non-Hermitian analogue of the TracyWidom universality at the Hermitian edge. Technically we analyse the evolution of the spectral distribution of X along the Ornstein-Uhlenbeck flow for very long time\r\n(up to t = +∞). In the second project, we consider linear statistics of eigenvalues for macroscopic test functions f in the Sobolev space H2+ϵ and prove their convergence to the projection of the Gaussian Free Field on the unit disk. We prove this result for non-Hermitian matrices with real or complex entries. The main technical ingredients are: (i) local law for products of two resolvents at different spectral parameters, (ii) analysis of correlated Dyson Brownian motions.\r\nIn the third and final part we discuss the mathematically rigorous application of supersymmetric techniques (SUSY ) to give a lower tail estimate of the lowest singular value of X − z, with z ∈ C. More precisely, we use superbosonisation formula to give an integral representation of the resolvent of (X − z)(X − z)∗ which reduces to two and three contour integrals in the complex and real case, respectively. The rigorous analysis of these integrals is quite challenging since simple saddle point analysis cannot be applied (the main contribution comes from a non-trivial manifold). Our result\r\nimproves classical smoothing inequalities in the regime |z| ≈ 1; this result is essential to prove edge universality for i.i.d. non-Hermitian matrices." acknowledgement: I gratefully acknowledge the financial support from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 665385 and my advisor’s ERC Advanced Grant No. 338804. alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Giorgio full_name: Cipolloni, Giorgio id: 42198EFA-F248-11E8-B48F-1D18A9856A87 last_name: Cipolloni orcid: 0000-0002-4901-7992 citation: ama: Cipolloni G. Fluctuations in the spectrum of random matrices. 2021. doi:10.15479/AT:ISTA:9022 apa: Cipolloni, G. (2021). Fluctuations in the spectrum of random matrices. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9022 chicago: Cipolloni, Giorgio. “Fluctuations in the Spectrum of Random Matrices.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9022. ieee: G. Cipolloni, “Fluctuations in the spectrum of random matrices,” Institute of Science and Technology Austria, 2021. ista: Cipolloni G. 2021. Fluctuations in the spectrum of random matrices. Institute of Science and Technology Austria. mla: Cipolloni, Giorgio. Fluctuations in the Spectrum of Random Matrices. Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9022. short: G. Cipolloni, Fluctuations in the Spectrum of Random Matrices, Institute of Science and Technology Austria, 2021. date_created: 2021-01-21T18:16:54Z date_published: 2021-01-25T00:00:00Z date_updated: 2023-09-07T13:29:32Z day: '25' ddc: - '510' degree_awarded: PhD department: - _id: GradSch - _id: LaEr doi: 10.15479/AT:ISTA:9022 ec_funded: 1 file: - access_level: open_access checksum: 5a93658a5f19478372523ee232887e2b content_type: application/pdf creator: gcipollo date_created: 2021-01-25T14:19:03Z date_updated: 2021-01-25T14:19:03Z file_id: '9043' file_name: thesis.pdf file_size: 4127796 relation: main_file success: 1 - access_level: closed checksum: e8270eddfe6a988e92a53c88d1d19b8c content_type: application/zip creator: gcipollo date_created: 2021-01-25T14:19:10Z date_updated: 2021-01-25T14:19:10Z file_id: '9044' file_name: Thesis_files.zip file_size: 12775206 relation: source_file file_date_updated: 2021-01-25T14:19:10Z has_accepted_license: '1' language: - iso: eng month: '01' oa: 1 oa_version: Published Version page: '380' project: - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: 258DCDE6-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '338804' name: Random matrices, universality and disordered quantum systems publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria status: public supervisor: - first_name: László full_name: Erdös, László id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 title: Fluctuations in the spectrum of random matrices type: dissertation user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 year: '2021' ... --- _id: '9416' abstract: - lang: eng text: 'We study the inductive bias of two-layer ReLU networks trained by gradient flow. We identify a class of easy-to-learn (`orthogonally separable'') datasets, and characterise the solution that ReLU networks trained on such datasets converge to. Irrespective of network width, the solution turns out to be a combination of two max-margin classifiers: one corresponding to the positive data subset and one corresponding to the negative data subset. The proof is based on the recently introduced concept of extremal sectors, for which we prove a number of properties in the context of orthogonal separability. In particular, we prove stationarity of activation patterns from some time onwards, which enables a reduction of the ReLU network to an ensemble of linear subnetworks.' article_processing_charge: No author: - first_name: Phuong full_name: Bui Thi Mai, Phuong id: 3EC6EE64-F248-11E8-B48F-1D18A9856A87 last_name: Bui Thi Mai - first_name: Christoph full_name: Lampert, Christoph id: 40C20FD2-F248-11E8-B48F-1D18A9856A87 last_name: Lampert orcid: 0000-0001-8622-7887 citation: ama: 'Phuong M, Lampert C. The inductive bias of ReLU networks on orthogonally separable data. In: 9th International Conference on Learning Representations. ; 2021.' apa: Phuong, M., & Lampert, C. (2021). The inductive bias of ReLU networks on orthogonally separable data. In 9th International Conference on Learning Representations. Virtual. chicago: Phuong, Mary, and Christoph Lampert. “The Inductive Bias of ReLU Networks on Orthogonally Separable Data.” In 9th International Conference on Learning Representations, 2021. ieee: M. Phuong and C. Lampert, “The inductive bias of ReLU networks on orthogonally separable data,” in 9th International Conference on Learning Representations, Virtual, 2021. ista: 'Phuong M, Lampert C. 2021. The inductive bias of ReLU networks on orthogonally separable data. 9th International Conference on Learning Representations. ICLR: International Conference on Learning Representations.' mla: Phuong, Mary, and Christoph Lampert. “The Inductive Bias of ReLU Networks on Orthogonally Separable Data.” 9th International Conference on Learning Representations, 2021. short: M. Phuong, C. Lampert, in:, 9th International Conference on Learning Representations, 2021. conference: end_date: 2021-05-07 location: Virtual name: ' ICLR: International Conference on Learning Representations' start_date: 2021-05-03 date_created: 2021-05-24T11:16:46Z date_published: 2021-05-01T00:00:00Z date_updated: 2023-09-07T13:29:50Z day: '01' ddc: - '000' department: - _id: GradSch - _id: ChLa file: - access_level: open_access checksum: f34ff17017527db5ba6927f817bdd125 content_type: application/pdf creator: bphuong date_created: 2021-05-24T11:15:57Z date_updated: 2021-05-24T11:15:57Z file_id: '9417' file_name: iclr2021_conference.pdf file_size: 502356 relation: main_file file_date_updated: 2021-05-24T11:15:57Z has_accepted_license: '1' language: - iso: eng main_file_link: - open_access: '1' url: https://openreview.net/pdf?id=krz7T0xU9Z_ month: '05' oa: 1 oa_version: Published Version publication: 9th International Conference on Learning Representations publication_status: published quality_controlled: '1' related_material: record: - id: '9418' relation: dissertation_contains status: public scopus_import: '1' status: public title: The inductive bias of ReLU networks on orthogonally separable data type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '9225' abstract: - lang: eng text: "The Landau–Pekar equations describe the dynamics of a strongly coupled polaron.\r\nHere, we provide a class of initial data for which the associated effective Hamiltonian\r\nhas a uniform spectral gap for all times. For such initial data, this allows us to extend the\r\nresults on the adiabatic theorem for the Landau–Pekar equations and their derivation\r\nfrom the Fröhlich model obtained in previous works to larger times." acknowledgement: Funding from the European Union’s Horizon 2020 research and innovation programme under the ERC Grant Agreement No 694227 (D.F. and R.S.) and under the Marie Skłodowska-Curie Grant Agreement No. 754411 (S.R.) is gratefully acknowledged. Open Access funding provided by Institute of Science and Technology (IST Austria) article_number: '19' article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Dario full_name: Feliciangeli, Dario id: 41A639AA-F248-11E8-B48F-1D18A9856A87 last_name: Feliciangeli orcid: 0000-0003-0754-8530 - first_name: Simone Anna Elvira full_name: Rademacher, Simone Anna Elvira id: 856966FE-A408-11E9-977E-802DE6697425 last_name: Rademacher orcid: 0000-0001-5059-4466 - first_name: Robert full_name: Seiringer, Robert id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 citation: ama: Feliciangeli D, Rademacher SAE, Seiringer R. Persistence of the spectral gap for the Landau–Pekar equations. Letters in Mathematical Physics. 2021;111. doi:10.1007/s11005-020-01350-5 apa: Feliciangeli, D., Rademacher, S. A. E., & Seiringer, R. (2021). Persistence of the spectral gap for the Landau–Pekar equations. Letters in Mathematical Physics. Springer Nature. https://doi.org/10.1007/s11005-020-01350-5 chicago: Feliciangeli, Dario, Simone Anna Elvira Rademacher, and Robert Seiringer. “Persistence of the Spectral Gap for the Landau–Pekar Equations.” Letters in Mathematical Physics. Springer Nature, 2021. https://doi.org/10.1007/s11005-020-01350-5. ieee: D. Feliciangeli, S. A. E. Rademacher, and R. Seiringer, “Persistence of the spectral gap for the Landau–Pekar equations,” Letters in Mathematical Physics, vol. 111. Springer Nature, 2021. ista: Feliciangeli D, Rademacher SAE, Seiringer R. 2021. Persistence of the spectral gap for the Landau–Pekar equations. Letters in Mathematical Physics. 111, 19. mla: Feliciangeli, Dario, et al. “Persistence of the Spectral Gap for the Landau–Pekar Equations.” Letters in Mathematical Physics, vol. 111, 19, Springer Nature, 2021, doi:10.1007/s11005-020-01350-5. short: D. Feliciangeli, S.A.E. Rademacher, R. Seiringer, Letters in Mathematical Physics 111 (2021). date_created: 2021-03-07T23:01:25Z date_published: 2021-02-11T00:00:00Z date_updated: 2023-09-07T13:30:11Z day: '11' ddc: - '510' department: - _id: RoSe doi: 10.1007/s11005-020-01350-5 ec_funded: 1 external_id: isi: - '000617195700001' file: - access_level: open_access checksum: ffbfe1aad623bce7ff529c207e343b53 content_type: application/pdf creator: dernst date_created: 2021-03-09T11:44:34Z date_updated: 2021-03-09T11:44:34Z file_id: '9232' file_name: 2021_LettersMathPhysics_Feliciangeli.pdf file_size: 391205 relation: main_file success: 1 file_date_updated: 2021-03-09T11:44:34Z has_accepted_license: '1' intvolume: ' 111' isi: 1 language: - iso: eng month: '02' oa: 1 oa_version: Published Version project: - _id: 25C6DC12-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '694227' name: Analysis of quantum many-body systems - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships - _id: B67AFEDC-15C9-11EA-A837-991A96BB2854 name: IST Austria Open Access Fund publication: Letters in Mathematical Physics publication_identifier: eissn: - '15730530' issn: - '03779017' publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '9733' relation: dissertation_contains status: public scopus_import: '1' status: public title: Persistence of the spectral gap for the Landau–Pekar equations tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 111 year: '2021' ... --- _id: '9787' abstract: - lang: eng text: We investigate the Fröhlich polaron model on a three-dimensional torus, and give a proof of the second-order quantum corrections to its ground-state energy in the strong-coupling limit. Compared to previous work in the confined case, the translational symmetry (and its breaking in the Pekar approximation) makes the analysis substantially more challenging. acknowledgement: "Funding from the European Union’s Horizon 2020 research and innovation programme under the ERC grant agreement No 694227 is gratefully acknowledged. We would also like to thank Rupert Frank for many helpful discussions, especially related to the Gross coordinate transformation defined in Def. 4.1.\r\n" article_number: '2101.12566' article_processing_charge: No author: - first_name: Dario full_name: Feliciangeli, Dario id: 41A639AA-F248-11E8-B48F-1D18A9856A87 last_name: Feliciangeli orcid: 0000-0003-0754-8530 - first_name: Robert full_name: Seiringer, Robert id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 citation: ama: 'Feliciangeli D, Seiringer R. The strongly coupled polaron on the torus: Quantum corrections to the Pekar asymptotics. arXiv.' apa: 'Feliciangeli, D., & Seiringer, R. (n.d.). The strongly coupled polaron on the torus: Quantum corrections to the Pekar asymptotics. arXiv.' chicago: 'Feliciangeli, Dario, and Robert Seiringer. “The Strongly Coupled Polaron on the Torus: Quantum Corrections to the Pekar Asymptotics.” ArXiv, n.d.' ieee: 'D. Feliciangeli and R. Seiringer, “The strongly coupled polaron on the torus: Quantum corrections to the Pekar asymptotics,” arXiv. .' ista: 'Feliciangeli D, Seiringer R. The strongly coupled polaron on the torus: Quantum corrections to the Pekar asymptotics. arXiv, 2101.12566.' mla: 'Feliciangeli, Dario, and Robert Seiringer. “The Strongly Coupled Polaron on the Torus: Quantum Corrections to the Pekar Asymptotics.” ArXiv, 2101.12566.' short: D. Feliciangeli, R. Seiringer, ArXiv (n.d.). date_created: 2021-08-06T08:25:57Z date_published: 2021-02-01T00:00:00Z date_updated: 2023-09-07T13:30:10Z day: '01' ddc: - '510' department: - _id: RoSe ec_funded: 1 external_id: arxiv: - '2101.12566' has_accepted_license: '1' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2101.12566 month: '02' oa: 1 oa_version: Preprint project: - _id: 25C6DC12-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '694227' name: Analysis of quantum many-body systems publication: arXiv publication_status: submitted related_material: record: - id: '10224' relation: later_version status: public - id: '9733' relation: dissertation_contains status: public status: public title: 'The strongly coupled polaron on the torus: Quantum corrections to the Pekar asymptotics' tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: preprint user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425 year: '2021' ... --- _id: '9987' abstract: - lang: eng text: 'Stateless model checking (SMC) is one of the standard approaches to the verification of concurrent programs. As scheduling non-determinism creates exponentially large spaces of thread interleavings, SMC attempts to partition this space into equivalence classes and explore only a few representatives from each class. The efficiency of this approach depends on two factors: (a) the coarseness of the partitioning, and (b) the time to generate representatives in each class. For this reason, the search for coarse partitionings that are efficiently explorable is an active research challenge. In this work we present RVF-SMC , a new SMC algorithm that uses a novel reads-value-from (RVF) partitioning. Intuitively, two interleavings are deemed equivalent if they agree on the value obtained in each read event, and read events induce consistent causal orderings between them. The RVF partitioning is provably coarser than recent approaches based on Mazurkiewicz and “reads-from” partitionings. Our experimental evaluation reveals that RVF is quite often a very effective equivalence, as the underlying partitioning is exponentially coarser than other approaches. Moreover, RVF-SMC generates representatives very efficiently, as the reduction in the partitioning is often met with significant speed-ups in the model checking task.' acknowledgement: The research was partially funded by the ERC CoG 863818 (ForM-SMArt) and the Vienna Science and Technology Fund (WWTF) through project ICT15-003. alternative_title: - LNCS article_processing_charge: Yes author: - first_name: Pratyush full_name: Agarwal, Pratyush last_name: Agarwal - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Shreya full_name: Pathak, Shreya last_name: Pathak - first_name: Andreas full_name: Pavlogiannis, Andreas id: 49704004-F248-11E8-B48F-1D18A9856A87 last_name: Pavlogiannis orcid: 0000-0002-8943-0722 - first_name: Viktor full_name: Toman, Viktor id: 3AF3DA7C-F248-11E8-B48F-1D18A9856A87 last_name: Toman orcid: 0000-0001-9036-063X citation: ama: 'Agarwal P, Chatterjee K, Pathak S, Pavlogiannis A, Toman V. Stateless model checking under a reads-value-from equivalence. In: 33rd International Conference on Computer-Aided Verification . Vol 12759. Springer Nature; 2021:341-366. doi:10.1007/978-3-030-81685-8_16' apa: 'Agarwal, P., Chatterjee, K., Pathak, S., Pavlogiannis, A., & Toman, V. (2021). Stateless model checking under a reads-value-from equivalence. In 33rd International Conference on Computer-Aided Verification (Vol. 12759, pp. 341–366). Virtual: Springer Nature. https://doi.org/10.1007/978-3-030-81685-8_16' chicago: Agarwal, Pratyush, Krishnendu Chatterjee, Shreya Pathak, Andreas Pavlogiannis, and Viktor Toman. “Stateless Model Checking under a Reads-Value-from Equivalence.” In 33rd International Conference on Computer-Aided Verification , 12759:341–66. Springer Nature, 2021. https://doi.org/10.1007/978-3-030-81685-8_16. ieee: P. Agarwal, K. Chatterjee, S. Pathak, A. Pavlogiannis, and V. Toman, “Stateless model checking under a reads-value-from equivalence,” in 33rd International Conference on Computer-Aided Verification , Virtual, 2021, vol. 12759, pp. 341–366. ista: 'Agarwal P, Chatterjee K, Pathak S, Pavlogiannis A, Toman V. 2021. Stateless model checking under a reads-value-from equivalence. 33rd International Conference on Computer-Aided Verification . CAV: Computer Aided Verification , LNCS, vol. 12759, 341–366.' mla: Agarwal, Pratyush, et al. “Stateless Model Checking under a Reads-Value-from Equivalence.” 33rd International Conference on Computer-Aided Verification , vol. 12759, Springer Nature, 2021, pp. 341–66, doi:10.1007/978-3-030-81685-8_16. short: P. Agarwal, K. Chatterjee, S. Pathak, A. Pavlogiannis, V. Toman, in:, 33rd International Conference on Computer-Aided Verification , Springer Nature, 2021, pp. 341–366. conference: end_date: 2021-07-23 location: Virtual name: 'CAV: Computer Aided Verification ' start_date: 2021-07-20 date_created: 2021-09-05T22:01:24Z date_published: 2021-07-15T00:00:00Z date_updated: 2023-09-07T13:30:27Z day: '15' ddc: - '000' department: - _id: KrCh doi: 10.1007/978-3-030-81685-8_16 ec_funded: 1 external_id: arxiv: - '2105.06424' isi: - '000698732400016' file: - access_level: open_access checksum: 4b346e5fbaa8b9bdf107819c7b2aadee content_type: application/pdf creator: dernst date_created: 2022-05-13T07:00:20Z date_updated: 2022-05-13T07:00:20Z file_id: '11368' file_name: 2021_LNCS_Agarwal.pdf file_size: 1516756 relation: main_file success: 1 file_date_updated: 2022-05-13T07:00:20Z has_accepted_license: '1' isi: 1 language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 341-366 project: - _id: 25892FC0-B435-11E9-9278-68D0E5697425 grant_number: ICT15-003 name: Efficient Algorithms for Computer Aided Verification - _id: 0599E47C-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '863818' name: 'Formal Methods for Stochastic Models: Algorithms and Applications' publication: '33rd International Conference on Computer-Aided Verification ' publication_identifier: eisbn: - 978-3-030-81685-8 eissn: - 1611-3349 isbn: - 978-3-030-81684-1 issn: - 0302-9743 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '10199' relation: dissertation_contains status: public scopus_import: '1' status: public title: Stateless model checking under a reads-value-from equivalence tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: conference user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: '12759 ' year: '2021' ... --- _id: '10007' abstract: - lang: eng text: The present thesis is concerned with the derivation of weak-strong uniqueness principles for curvature driven interface evolution problems not satisfying a comparison principle. The specific examples being treated are two-phase Navier-Stokes flow with surface tension, modeling the evolution of two incompressible, viscous and immiscible fluids separated by a sharp interface, and multiphase mean curvature flow, which serves as an idealized model for the motion of grain boundaries in an annealing polycrystalline material. Our main results - obtained in joint works with Julian Fischer, Tim Laux and Theresa M. Simon - state that prior to the formation of geometric singularities due to topology changes, the weak solution concept of Abels (Interfaces Free Bound. 9, 2007) to two-phase Navier-Stokes flow with surface tension and the weak solution concept of Laux and Otto (Calc. Var. Partial Differential Equations 55, 2016) to multiphase mean curvature flow (for networks in R^2 or double bubbles in R^3) represents the unique solution to these interface evolution problems within the class of classical solutions, respectively. To the best of the author's knowledge, for interface evolution problems not admitting a geometric comparison principle the derivation of a weak-strong uniqueness principle represented an open problem, so that the works contained in the present thesis constitute the first positive results in this direction. The key ingredient of our approach consists of the introduction of a novel concept of relative entropies for a class of curvature driven interface evolution problems, for which the associated energy contains an interfacial contribution being proportional to the surface area of the evolving (network of) interface(s). The interfacial part of the relative entropy gives sufficient control on the interface error between a weak and a classical solution, and its time evolution can be computed, at least in principle, for any energy dissipating weak solution concept. A resulting stability estimate for the relative entropy essentially entails the above mentioned weak-strong uniqueness principles. The present thesis contains a detailed introduction to our relative entropy approach, which in particular highlights potential applications to other problems in curvature driven interface evolution not treated in this thesis. alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Sebastian full_name: Hensel, Sebastian id: 4D23B7DA-F248-11E8-B48F-1D18A9856A87 last_name: Hensel orcid: 0000-0001-7252-8072 citation: ama: 'Hensel S. Curvature driven interface evolution: Uniqueness properties of weak solution concepts. 2021. doi:10.15479/at:ista:10007' apa: 'Hensel, S. (2021). Curvature driven interface evolution: Uniqueness properties of weak solution concepts. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:10007' chicago: 'Hensel, Sebastian. “Curvature Driven Interface Evolution: Uniqueness Properties of Weak Solution Concepts.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:10007.' ieee: 'S. Hensel, “Curvature driven interface evolution: Uniqueness properties of weak solution concepts,” Institute of Science and Technology Austria, 2021.' ista: 'Hensel S. 2021. Curvature driven interface evolution: Uniqueness properties of weak solution concepts. Institute of Science and Technology Austria.' mla: 'Hensel, Sebastian. Curvature Driven Interface Evolution: Uniqueness Properties of Weak Solution Concepts. Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:10007.' short: 'S. Hensel, Curvature Driven Interface Evolution: Uniqueness Properties of Weak Solution Concepts, Institute of Science and Technology Austria, 2021.' date_created: 2021-09-13T11:12:34Z date_published: 2021-09-14T00:00:00Z date_updated: 2023-09-07T13:30:45Z day: '14' ddc: - '515' degree_awarded: PhD department: - _id: GradSch - _id: JuFi doi: 10.15479/at:ista:10007 ec_funded: 1 file: - access_level: closed checksum: c8475faaf0b680b4971f638f1db16347 content_type: application/x-zip-compressed creator: shensel date_created: 2021-09-13T11:03:24Z date_updated: 2021-09-15T14:37:30Z file_id: '10008' file_name: thesis_final_Hensel.zip file_size: 15022154 relation: source_file - access_level: open_access checksum: 1a609937aa5275452822f45f2da17f07 content_type: application/pdf creator: shensel date_created: 2021-09-13T14:18:56Z date_updated: 2021-09-14T09:52:47Z file_id: '10014' file_name: thesis_final_Hensel.pdf file_size: 6583638 relation: main_file file_date_updated: 2021-09-15T14:37:30Z has_accepted_license: '1' language: - iso: eng month: '09' oa: 1 oa_version: Published Version page: '300' project: - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: 0aa76401-070f-11eb-9043-b5bb049fa26d call_identifier: H2020 grant_number: '948819' name: Bridging Scales in Random Materials publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '10012' relation: part_of_dissertation status: public - id: '10013' relation: part_of_dissertation status: public - id: '7489' relation: part_of_dissertation status: public status: public supervisor: - first_name: Julian L full_name: Fischer, Julian L id: 2C12A0B0-F248-11E8-B48F-1D18A9856A87 last_name: Fischer orcid: 0000-0002-0479-558X title: 'Curvature driven interface evolution: Uniqueness properties of weak solution concepts' type: dissertation user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 year: '2021' ... --- _id: '10191' abstract: - lang: eng text: "In this work we solve the algorithmic problem of consistency verification for the TSO and PSO memory models given a reads-from map, denoted VTSO-rf and VPSO-rf, respectively. For an execution of n events over k threads and d variables, we establish novel bounds that scale as nk+1 for TSO and as nk+1· min(nk2, 2k· d) for PSO. Moreover, based on our solution to these problems, we develop an SMC algorithm under TSO and PSO that uses the RF equivalence. The algorithm is exploration-optimal, in the sense that it is guaranteed to explore each class of the RF partitioning exactly once, and spends polynomial time per class when k is bounded. Finally, we implement all our algorithms in the SMC tool Nidhugg, and perform a large number of experiments over benchmarks from existing literature. Our experimental results show that our algorithms for VTSO-rf and VPSO-rf provide significant scalability improvements over standard alternatives. Moreover, when used for SMC, the RF partitioning is often much coarser than the standard Shasha-Snir partitioning for TSO/PSO, which yields a significant speedup in the model checking task.\r\n\r\n" acknowledgement: "The research was partially funded by the ERC CoG 863818 (ForM-SMArt) and the Vienna Science\r\nand Technology Fund (WWTF) through project ICT15-003." article_number: '164' article_processing_charge: No article_type: original author: - first_name: Truc Lam full_name: Bui, Truc Lam last_name: Bui - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Tushar full_name: Gautam, Tushar last_name: Gautam - first_name: Andreas full_name: Pavlogiannis, Andreas id: 49704004-F248-11E8-B48F-1D18A9856A87 last_name: Pavlogiannis orcid: 0000-0002-8943-0722 - first_name: Viktor full_name: Toman, Viktor id: 3AF3DA7C-F248-11E8-B48F-1D18A9856A87 last_name: Toman orcid: 0000-0001-9036-063X citation: ama: Bui TL, Chatterjee K, Gautam T, Pavlogiannis A, Toman V. The reads-from equivalence for the TSO and PSO memory models. Proceedings of the ACM on Programming Languages. 2021;5(OOPSLA). doi:10.1145/3485541 apa: Bui, T. L., Chatterjee, K., Gautam, T., Pavlogiannis, A., & Toman, V. (2021). The reads-from equivalence for the TSO and PSO memory models. Proceedings of the ACM on Programming Languages. Association for Computing Machinery. https://doi.org/10.1145/3485541 chicago: Bui, Truc Lam, Krishnendu Chatterjee, Tushar Gautam, Andreas Pavlogiannis, and Viktor Toman. “The Reads-from Equivalence for the TSO and PSO Memory Models.” Proceedings of the ACM on Programming Languages. Association for Computing Machinery, 2021. https://doi.org/10.1145/3485541. ieee: T. L. Bui, K. Chatterjee, T. Gautam, A. Pavlogiannis, and V. Toman, “The reads-from equivalence for the TSO and PSO memory models,” Proceedings of the ACM on Programming Languages, vol. 5, no. OOPSLA. Association for Computing Machinery, 2021. ista: Bui TL, Chatterjee K, Gautam T, Pavlogiannis A, Toman V. 2021. The reads-from equivalence for the TSO and PSO memory models. Proceedings of the ACM on Programming Languages. 5(OOPSLA), 164. mla: Bui, Truc Lam, et al. “The Reads-from Equivalence for the TSO and PSO Memory Models.” Proceedings of the ACM on Programming Languages, vol. 5, no. OOPSLA, 164, Association for Computing Machinery, 2021, doi:10.1145/3485541. short: T.L. Bui, K. Chatterjee, T. Gautam, A. Pavlogiannis, V. Toman, Proceedings of the ACM on Programming Languages 5 (2021). date_created: 2021-10-27T15:05:34Z date_published: 2021-10-15T00:00:00Z date_updated: 2023-09-07T13:30:27Z day: '15' ddc: - '000' department: - _id: GradSch - _id: KrCh doi: 10.1145/3485541 ec_funded: 1 external_id: arxiv: - '2011.11763' file: - access_level: open_access checksum: 9d6dce7b611853c529bb7b1915ac579e content_type: application/pdf creator: cchlebak date_created: 2021-11-04T07:24:48Z date_updated: 2021-11-04T07:24:48Z file_id: '10215' file_name: 2021_ProcACMPL_Bui.pdf file_size: 2903485 relation: main_file success: 1 file_date_updated: 2021-11-04T07:24:48Z has_accepted_license: '1' intvolume: ' 5' issue: OOPSLA keyword: - safety - risk - reliability and quality - software language: - iso: eng month: '10' oa: 1 oa_version: Published Version project: - _id: 0599E47C-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '863818' name: 'Formal Methods for Stochastic Models: Algorithms and Applications' - _id: 25892FC0-B435-11E9-9278-68D0E5697425 grant_number: ICT15-003 name: Efficient Algorithms for Computer Aided Verification publication: Proceedings of the ACM on Programming Languages publication_identifier: eissn: - 2475-1421 publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' related_material: record: - id: '10199' relation: dissertation_contains status: public scopus_import: '1' status: public title: The reads-from equivalence for the TSO and PSO memory models tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 volume: 5 year: '2021' ... --- _id: '10013' abstract: - lang: eng text: We derive a weak-strong uniqueness principle for BV solutions to multiphase mean curvature flow of triple line clusters in three dimensions. Our proof is based on the explicit construction of a gradient-flow calibration in the sense of the recent work of Fischer et al. [arXiv:2003.05478] for any such cluster. This extends the two-dimensional construction to the three-dimensional case of surfaces meeting along triple junctions. acknowledgement: This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 948819), and from the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy – EXC-2047/1 – 390685813. article_number: '2108.01733' article_processing_charge: No author: - first_name: Sebastian full_name: Hensel, Sebastian id: 4D23B7DA-F248-11E8-B48F-1D18A9856A87 last_name: Hensel orcid: 0000-0001-7252-8072 - first_name: Tim full_name: Laux, Tim last_name: Laux citation: ama: Hensel S, Laux T. Weak-strong uniqueness for the mean curvature flow of double bubbles. arXiv. doi:10.48550/arXiv.2108.01733 apa: Hensel, S., & Laux, T. (n.d.). Weak-strong uniqueness for the mean curvature flow of double bubbles. arXiv. https://doi.org/10.48550/arXiv.2108.01733 chicago: Hensel, Sebastian, and Tim Laux. “Weak-Strong Uniqueness for the Mean Curvature Flow of Double Bubbles.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2108.01733. ieee: S. Hensel and T. Laux, “Weak-strong uniqueness for the mean curvature flow of double bubbles,” arXiv. . ista: Hensel S, Laux T. Weak-strong uniqueness for the mean curvature flow of double bubbles. arXiv, 2108.01733. mla: Hensel, Sebastian, and Tim Laux. “Weak-Strong Uniqueness for the Mean Curvature Flow of Double Bubbles.” ArXiv, 2108.01733, doi:10.48550/arXiv.2108.01733. short: S. Hensel, T. Laux, ArXiv (n.d.). date_created: 2021-09-13T12:17:11Z date_published: 2021-08-03T00:00:00Z date_updated: 2023-09-07T13:30:45Z day: '03' department: - _id: JuFi doi: 10.48550/arXiv.2108.01733 ec_funded: 1 external_id: arxiv: - '2108.01733' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2108.01733 month: '08' oa: 1 oa_version: Preprint project: - _id: 0aa76401-070f-11eb-9043-b5bb049fa26d call_identifier: H2020 grant_number: '948819' name: Bridging Scales in Random Materials publication: arXiv publication_status: submitted related_material: record: - id: '13043' relation: later_version status: public - id: '10007' relation: dissertation_contains status: public status: public title: Weak-strong uniqueness for the mean curvature flow of double bubbles type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '9928' abstract: - lang: eng text: There are two elementary superconducting qubit types that derive directly from the quantum harmonic oscillator. In one, the inductor is replaced by a nonlinear Josephson junction to realize the widely used charge qubits with a compact phase variable and a discrete charge wave function. In the other, the junction is added in parallel, which gives rise to an extended phase variable, continuous wave functions, and a rich energy-level structure due to the loop topology. While the corresponding rf superconducting quantum interference device Hamiltonian was introduced as a quadratic quasi-one-dimensional potential approximation to describe the fluxonium qubit implemented with long Josephson-junction arrays, in this work we implement it directly using a linear superinductor formed by a single uninterrupted aluminum wire. We present a large variety of qubits, all stemming from the same circuit but with drastically different characteristic energy scales. This includes flux and fluxonium qubits but also the recently introduced quasicharge qubit with strongly enhanced zero-point phase fluctuations and a heavily suppressed flux dispersion. The use of a geometric inductor results in high reproducibility of the inductive energy as guaranteed by top-down lithography—a key ingredient for intrinsically protected superconducting qubits. acknowledged_ssus: - _id: NanoFab - _id: M-Shop acknowledgement: We thank W. Hughes for analytic and numerical modeling during the early stages of this work, J. Koch for discussions and support with the scqubits package, R. Sett, P. Zielinski, and L. Drmic for software development, and G. Katsaros for equipment support, as well as the MIBA workshop and the Institute of Science and Technology Austria nanofabrication facility. We thank I. Pop, S. Deleglise, and E. Flurin for discussions. This work was supported by a NOMIS Foundation research grant, the Austrian Science Fund (FWF) through BeyondC (F7105), and IST Austria. M.P. is the recipient of a Pöttinger scholarship at IST Austria. E.R. is the recipient of a DOC fellowship of the Austrian Academy of Sciences at IST Austria. article_processing_charge: No article_type: original author: - first_name: Matilda full_name: Peruzzo, Matilda id: 3F920B30-F248-11E8-B48F-1D18A9856A87 last_name: Peruzzo orcid: 0000-0002-3415-4628 - first_name: Farid full_name: Hassani, Farid id: 2AED110C-F248-11E8-B48F-1D18A9856A87 last_name: Hassani orcid: 0000-0001-6937-5773 - first_name: Gregory full_name: Szep, Gregory last_name: Szep - first_name: Andrea full_name: Trioni, Andrea id: 42F71B44-F248-11E8-B48F-1D18A9856A87 last_name: Trioni - first_name: Elena full_name: Redchenko, Elena id: 2C21D6E8-F248-11E8-B48F-1D18A9856A87 last_name: Redchenko - first_name: Martin full_name: Zemlicka, Martin id: 2DCF8DE6-F248-11E8-B48F-1D18A9856A87 last_name: Zemlicka - first_name: Johannes M full_name: Fink, Johannes M id: 4B591CBA-F248-11E8-B48F-1D18A9856A87 last_name: Fink orcid: 0000-0001-8112-028X citation: ama: 'Peruzzo M, Hassani F, Szep G, et al. Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. PRX Quantum. 2021;2(4):040341. doi:10.1103/PRXQuantum.2.040341' apa: 'Peruzzo, M., Hassani, F., Szep, G., Trioni, A., Redchenko, E., Zemlicka, M., & Fink, J. M. (2021). Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. PRX Quantum. American Physical Society. https://doi.org/10.1103/PRXQuantum.2.040341' chicago: 'Peruzzo, Matilda, Farid Hassani, Gregory Szep, Andrea Trioni, Elena Redchenko, Martin Zemlicka, and Johannes M Fink. “Geometric Superinductance Qubits: Controlling Phase Delocalization across a Single Josephson Junction.” PRX Quantum. American Physical Society, 2021. https://doi.org/10.1103/PRXQuantum.2.040341.' ieee: 'M. Peruzzo et al., “Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction,” PRX Quantum, vol. 2, no. 4. American Physical Society, p. 040341, 2021.' ista: 'Peruzzo M, Hassani F, Szep G, Trioni A, Redchenko E, Zemlicka M, Fink JM. 2021. Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. PRX Quantum. 2(4), 040341.' mla: 'Peruzzo, Matilda, et al. “Geometric Superinductance Qubits: Controlling Phase Delocalization across a Single Josephson Junction.” PRX Quantum, vol. 2, no. 4, American Physical Society, 2021, p. 040341, doi:10.1103/PRXQuantum.2.040341.' short: M. Peruzzo, F. Hassani, G. Szep, A. Trioni, E. Redchenko, M. Zemlicka, J.M. Fink, PRX Quantum 2 (2021) 040341. date_created: 2021-08-17T08:14:18Z date_published: 2021-11-24T00:00:00Z date_updated: 2023-09-07T13:31:22Z day: '24' ddc: - '530' department: - _id: JoFi - _id: NanoFab - _id: M-Shop doi: 10.1103/PRXQuantum.2.040341 ec_funded: 1 external_id: arxiv: - '2106.05882' isi: - '000723015100001' file: - access_level: open_access checksum: 36eb41ea43d8ca22b0efab12419e4eb2 content_type: application/pdf creator: cchlebak date_created: 2022-01-18T11:29:33Z date_updated: 2022-01-18T11:29:33Z file_id: '10641' file_name: 2021_PRXQuantum_Peruzzo.pdf file_size: 4247422 relation: main_file success: 1 file_date_updated: 2022-01-18T11:29:33Z has_accepted_license: '1' intvolume: ' 2' isi: 1 issue: '4' keyword: - quantum physics - mesoscale and nanoscale physics language: - iso: eng month: '11' oa: 1 oa_version: Published Version page: '040341' project: - _id: 26927A52-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: F07105 name: Integrating superconducting quantum circuits - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: 2622978C-B435-11E9-9278-68D0E5697425 name: Hybrid Semiconductor - Superconductor Quantum Devices publication: PRX Quantum publication_identifier: eissn: - 2691-3399 publication_status: published publisher: American Physical Society quality_controlled: '1' related_material: record: - id: '13057' relation: research_data status: public - id: '9920' relation: dissertation_contains status: public scopus_import: '1' status: public title: 'Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction' tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 2 year: '2021' ... --- _id: '10030' abstract: - lang: eng text: "This PhD thesis is primarily focused on the study of discrete transport problems, introduced for the first time in the seminal works of Maas [Maa11] and Mielke [Mie11] on finite state Markov chains and reaction-diffusion equations, respectively. More in detail, my research focuses on the study of transport costs on graphs, in particular the convergence and the stability of such problems in the discrete-to-continuum limit. This thesis also includes some results concerning\r\nnon-commutative optimal transport. The first chapter of this thesis consists of a general introduction to the optimal transport problems, both in the discrete, the continuous, and the non-commutative setting. Chapters 2 and 3 present the content of two works, obtained in collaboration with Peter Gladbach, Eva Kopfer, and Jan Maas, where we have been able to show the convergence of discrete transport costs on periodic graphs to suitable continuous ones, which can be described by means of a homogenisation result. We first focus on the particular case of quadratic costs on the real line and then extending the result to more general costs in arbitrary dimension. Our results are the first complete characterisation of limits of transport costs on periodic graphs in arbitrary dimension which do not rely on any additional symmetry. In Chapter 4 we turn our attention to one of the intriguing connection between evolution equations and optimal transport, represented by the theory of gradient flows. We show that discrete gradient flow structures associated to a finite volume approximation of a certain class of diffusive equations (Fokker–Planck) is stable in the limit of vanishing meshes, reproving the convergence of the scheme via the method of evolutionary Γ-convergence and exploiting a more variational point of view on the problem. This is based on a collaboration with Dominik Forkert and Jan Maas. Chapter 5 represents a change of perspective, moving away from the discrete world and reaching the non-commutative one. As in the discrete case, we discuss how classical tools coming from the commutative optimal transport can be translated into the setting of density matrices. In particular, in this final chapter we present a non-commutative version of the Schrödinger problem (or entropic regularised optimal transport problem) and discuss existence and characterisation of minimisers, a duality result, and present a non-commutative version of the well-known Sinkhorn algorithm to compute the above mentioned optimisers. This is based on a joint work with Dario Feliciangeli and Augusto Gerolin. Finally, Appendix A and B contain some additional material and discussions, with particular attention to Harnack inequalities and the regularity of flows on discrete spaces." acknowledged_ssus: - _id: M-Shop - _id: NanoFab acknowledgement: The author gratefully acknowledges support by the Austrian Science Fund (FWF), grants No W1245. alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Lorenzo full_name: Portinale, Lorenzo id: 30AD2CBC-F248-11E8-B48F-1D18A9856A87 last_name: Portinale citation: ama: Portinale L. Discrete-to-continuum limits of transport problems and gradient flows in the space of measures. 2021. doi:10.15479/at:ista:10030 apa: Portinale, L. (2021). Discrete-to-continuum limits of transport problems and gradient flows in the space of measures. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:10030 chicago: Portinale, Lorenzo. “Discrete-to-Continuum Limits of Transport Problems and Gradient Flows in the Space of Measures.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:10030. ieee: L. Portinale, “Discrete-to-continuum limits of transport problems and gradient flows in the space of measures,” Institute of Science and Technology Austria, 2021. ista: Portinale L. 2021. Discrete-to-continuum limits of transport problems and gradient flows in the space of measures. Institute of Science and Technology Austria. mla: Portinale, Lorenzo. Discrete-to-Continuum Limits of Transport Problems and Gradient Flows in the Space of Measures. Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:10030. short: L. Portinale, Discrete-to-Continuum Limits of Transport Problems and Gradient Flows in the Space of Measures, Institute of Science and Technology Austria, 2021. date_created: 2021-09-21T09:14:15Z date_published: 2021-09-22T00:00:00Z date_updated: 2023-09-07T13:31:06Z day: '22' ddc: - '515' degree_awarded: PhD department: - _id: GradSch - _id: JaMa doi: 10.15479/at:ista:10030 file: - access_level: closed checksum: 8cd60dcb8762e8f21867e21e8001e183 content_type: application/x-zip-compressed creator: cchlebak date_created: 2021-09-21T09:17:34Z date_updated: 2022-03-10T12:14:42Z file_id: '10032' file_name: tex_and_pictures.zip file_size: 3876668 relation: source_file - access_level: open_access checksum: 9789e9d967c853c1503ec7f307170279 content_type: application/pdf creator: cchlebak date_created: 2021-09-27T11:14:31Z date_updated: 2021-09-27T11:14:31Z file_id: '10047' file_name: thesis_portinale_Final (1).pdf file_size: 2532673 relation: main_file file_date_updated: 2022-03-10T12:14:42Z has_accepted_license: '1' language: - iso: eng month: '09' oa: 1 oa_version: Published Version project: - _id: 260788DE-B435-11E9-9278-68D0E5697425 call_identifier: FWF name: Dissipation and Dispersion in Nonlinear Partial Differential Equations - _id: fc31cba2-9c52-11eb-aca3-ff467d239cd2 grant_number: F6504 name: Taming Complexity in Partial Differential Systems publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '10022' relation: part_of_dissertation status: public - id: '9792' relation: part_of_dissertation status: public - id: '7573' relation: part_of_dissertation status: public status: public supervisor: - first_name: Jan full_name: Maas, Jan id: 4C5696CE-F248-11E8-B48F-1D18A9856A87 last_name: Maas orcid: 0000-0002-0845-1338 title: Discrete-to-continuum limits of transport problems and gradient flows in the space of measures tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: dissertation user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 year: '2021' ... --- _id: '9920' abstract: - lang: eng text: 'This work is concerned with two fascinating circuit quantum electrodynamics components, the Josephson junction and the geometric superinductor, and the interesting experiments that can be done by combining the two. The Josephson junction has revolutionized the field of superconducting circuits as a non-linear dissipation-less circuit element and is used in almost all superconducting qubit implementations since the 90s. On the other hand, the superinductor is a relatively new circuit element introduced as a key component of the fluxonium qubit in 2009. This is an inductor with characteristic impedance larger than the resistance quantum and self-resonance frequency in the GHz regime. The combination of these two elements can occur in two fundamental ways: in parallel and in series. When connected in parallel the two create the fluxonium qubit, a loop with large inductance and a rich energy spectrum reliant on quantum tunneling. On the other hand placing the two elements in series aids with the measurement of the IV curve of a single Josephson junction in a high impedance environment. In this limit theory predicts that the junction will behave as its dual element: the phase-slip junction. While the Josephson junction acts as a non-linear inductor the phase-slip junction has the behavior of a non-linear capacitance and can be used to measure new Josephson junction phenomena, namely Coulomb blockade of Cooper pairs and phase-locked Bloch oscillations. The latter experiment allows for a direct link between frequency and current which is an elusive connection in quantum metrology. This work introduces the geometric superinductor, a superconducting circuit element where the high inductance is due to the geometry rather than the material properties of the superconductor, realized from a highly miniaturized superconducting planar coil. These structures will be described and characterized as resonators and qubit inductors and progress towards the measurement of phase-locked Bloch oscillations will be presented.' acknowledged_ssus: - _id: NanoFab - _id: M-Shop alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Matilda full_name: Peruzzo, Matilda id: 3F920B30-F248-11E8-B48F-1D18A9856A87 last_name: Peruzzo orcid: 0000-0002-3415-4628 citation: ama: Peruzzo M. Geometric superinductors and their applications in circuit quantum electrodynamics. 2021. doi:10.15479/at:ista:9920 apa: Peruzzo, M. (2021). Geometric superinductors and their applications in circuit quantum electrodynamics. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:9920 chicago: Peruzzo, Matilda. “Geometric Superinductors and Their Applications in Circuit Quantum Electrodynamics.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:9920. ieee: M. Peruzzo, “Geometric superinductors and their applications in circuit quantum electrodynamics,” Institute of Science and Technology Austria, 2021. ista: Peruzzo M. 2021. Geometric superinductors and their applications in circuit quantum electrodynamics. Institute of Science and Technology Austria. mla: Peruzzo, Matilda. Geometric Superinductors and Their Applications in Circuit Quantum Electrodynamics. Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:9920. short: M. Peruzzo, Geometric Superinductors and Their Applications in Circuit Quantum Electrodynamics, Institute of Science and Technology Austria, 2021. date_created: 2021-08-16T09:44:09Z date_published: 2021-08-19T00:00:00Z date_updated: 2023-09-07T13:31:22Z day: '19' ddc: - '539' degree_awarded: PhD department: - _id: GradSch - _id: JoFi doi: 10.15479/at:ista:9920 file: - access_level: closed checksum: 3cd1986efde5121d7581f6fcf9090da8 content_type: application/x-zip-compressed creator: mperuzzo date_created: 2021-08-16T09:33:21Z date_updated: 2021-09-06T08:39:47Z file_id: '9924' file_name: GeometricSuperinductorsForCQED.zip file_size: 151387283 relation: source_file - access_level: open_access checksum: 50928c621cdf0775d7a5906b9dc8602c content_type: application/pdf creator: mperuzzo date_created: 2021-08-18T14:20:06Z date_updated: 2021-09-06T08:39:47Z file_id: '9939' file_name: GeometricSuperinductorsAndTheirApplicationsIncQED-1b.pdf file_size: 17596344 relation: main_file - access_level: closed checksum: 37f486aa1b622fe44af00d627ec13f6c content_type: application/pdf creator: mperuzzo date_created: 2021-08-18T14:20:09Z date_updated: 2021-09-06T08:39:47Z description: Extra copy of the thesis as PDF/A-2b file_id: '9940' file_name: GeometricSuperinductorsAndTheirApplicationsIncQED-2b.pdf file_size: 17592425 relation: other file_date_updated: 2021-09-06T08:39:47Z has_accepted_license: '1' keyword: - quantum computing - superinductor - quantum metrology language: - iso: eng month: '08' oa: 1 oa_version: Published Version page: '149' publication_identifier: isbn: - 978-3-99078-013-8 issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '9928' relation: part_of_dissertation status: public - id: '8755' relation: part_of_dissertation status: public status: public supervisor: - first_name: Johannes M full_name: Fink, Johannes M id: 4B591CBA-F248-11E8-B48F-1D18A9856A87 last_name: Fink orcid: 0000-0001-8112-028X title: Geometric superinductors and their applications in circuit quantum electrodynamics type: dissertation user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 year: '2021' ... --- _id: '10432' abstract: - lang: eng text: One key element behind the recent progress of machine learning has been the ability to train machine learning models in large-scale distributed shared-memory and message-passing environments. Most of these models are trained employing variants of stochastic gradient descent (SGD) based optimization, but most methods involve some type of consistency relaxation relative to sequential SGD, to mitigate its large communication or synchronization costs at scale. In this paper, we introduce a general consistency condition covering communication-reduced and asynchronous distributed SGD implementations. Our framework, called elastic consistency, decouples the system-specific aspects of the implementation from the SGD convergence requirements, giving a general way to obtain convergence bounds for a wide variety of distributed SGD methods used in practice. Elastic consistency can be used to re-derive or improve several previous convergence bounds in message-passing and shared-memory settings, but also to analyze new models and distribution schemes. As a direct application, we propose and analyze a new synchronization-avoiding scheduling scheme for distributed SGD, and show that it can be used to efficiently train deep convolutional models for image classification. acknowledgement: "We would like to thank Christopher De Sa for his feedback on an earlier draft of this paper, as well as the anonymous AAAI reviewers for their useful comments. This project has received\r\nfunding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 805223 ScaleML). Bapi\r\nChatterjee was supported by the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No. 754411 (ISTPlus)." article_processing_charge: No author: - first_name: Giorgi full_name: Nadiradze, Giorgi id: 3279A00C-F248-11E8-B48F-1D18A9856A87 last_name: Nadiradze orcid: 0000-0001-5634-0731 - first_name: Ilia full_name: Markov, Ilia id: D0CF4148-C985-11E9-8066-0BDEE5697425 last_name: Markov - first_name: Bapi full_name: Chatterjee, Bapi id: 3C41A08A-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-2742-4028 - first_name: 'Vyacheslav ' full_name: 'Kungurtsev, Vyacheslav ' last_name: Kungurtsev - first_name: Dan-Adrian full_name: Alistarh, Dan-Adrian id: 4A899BFC-F248-11E8-B48F-1D18A9856A87 last_name: Alistarh orcid: 0000-0003-3650-940X citation: ama: 'Nadiradze G, Markov I, Chatterjee B, Kungurtsev V, Alistarh D-A. Elastic consistency: A practical consistency model for distributed stochastic gradient descent. In: Proceedings of the AAAI Conference on Artificial Intelligence. Vol 35. ; 2021:9037-9045.' apa: 'Nadiradze, G., Markov, I., Chatterjee, B., Kungurtsev, V., & Alistarh, D.-A. (2021). Elastic consistency: A practical consistency model for distributed stochastic gradient descent. In Proceedings of the AAAI Conference on Artificial Intelligence (Vol. 35, pp. 9037–9045). Virtual.' chicago: 'Nadiradze, Giorgi, Ilia Markov, Bapi Chatterjee, Vyacheslav Kungurtsev, and Dan-Adrian Alistarh. “Elastic Consistency: A Practical Consistency Model for Distributed Stochastic Gradient Descent.” In Proceedings of the AAAI Conference on Artificial Intelligence, 35:9037–45, 2021.' ieee: 'G. Nadiradze, I. Markov, B. Chatterjee, V. Kungurtsev, and D.-A. Alistarh, “Elastic consistency: A practical consistency model for distributed stochastic gradient descent,” in Proceedings of the AAAI Conference on Artificial Intelligence, Virtual, 2021, vol. 35, no. 10, pp. 9037–9045.' ista: 'Nadiradze G, Markov I, Chatterjee B, Kungurtsev V, Alistarh D-A. 2021. Elastic consistency: A practical consistency model for distributed stochastic gradient descent. Proceedings of the AAAI Conference on Artificial Intelligence. AAAI: Association for the Advancement of Artificial Intelligence vol. 35, 9037–9045.' mla: 'Nadiradze, Giorgi, et al. “Elastic Consistency: A Practical Consistency Model for Distributed Stochastic Gradient Descent.” Proceedings of the AAAI Conference on Artificial Intelligence, vol. 35, no. 10, 2021, pp. 9037–45.' short: G. Nadiradze, I. Markov, B. Chatterjee, V. Kungurtsev, D.-A. Alistarh, in:, Proceedings of the AAAI Conference on Artificial Intelligence, 2021, pp. 9037–9045. conference: end_date: 2021-02-09 location: Virtual name: 'AAAI: Association for the Advancement of Artificial Intelligence' start_date: 2021-02-02 date_created: 2021-12-09T09:21:35Z date_published: 2021-05-18T00:00:00Z date_updated: 2023-09-07T13:31:39Z day: '18' department: - _id: DaAl ec_funded: 1 external_id: arxiv: - '2001.05918' intvolume: ' 35' issue: '10' language: - iso: eng main_file_link: - open_access: '1' url: https://ojs.aaai.org/index.php/AAAI/article/view/17092 month: '05' oa: 1 oa_version: Published Version page: 9037-9045 project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships - _id: 268A44D6-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '805223' name: Elastic Coordination for Scalable Machine Learning publication: Proceedings of the AAAI Conference on Artificial Intelligence publication_status: published quality_controlled: '1' related_material: record: - id: '10429' relation: dissertation_contains status: public status: public title: 'Elastic consistency: A practical consistency model for distributed stochastic gradient descent' type: conference user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 volume: 35 year: '2021' ... --- _id: '10041' abstract: - lang: eng text: Yao’s garbling scheme is one of the most fundamental cryptographic constructions. Lindell and Pinkas (Journal of Cryptograhy 2009) gave a formal proof of security in the selective setting where the adversary chooses the challenge inputs before seeing the garbled circuit assuming secure symmetric-key encryption (and hence one-way functions). This was followed by results, both positive and negative, concerning its security in the, stronger, adaptive setting. Applebaum et al. (Crypto 2013) showed that it cannot satisfy adaptive security as is, due to a simple incompressibility argument. Jafargholi and Wichs (TCC 2017) considered a natural adaptation of Yao’s scheme (where the output mapping is sent in the online phase, together with the garbled input) that circumvents this negative result, and proved that it is adaptively secure, at least for shallow circuits. In particular, they showed that for the class of circuits of depth δ , the loss in security is at most exponential in δ . The above results all concern the simulation-based notion of security. In this work, we show that the upper bound of Jafargholi and Wichs is basically optimal in a strong sense. As our main result, we show that there exists a family of Boolean circuits, one for each depth δ∈N , such that any black-box reduction proving the adaptive indistinguishability of the natural adaptation of Yao’s scheme from any symmetric-key encryption has to lose a factor that is exponential in δ√ . Since indistinguishability is a weaker notion than simulation, our bound also applies to adaptive simulation. To establish our results, we build on the recent approach of Kamath et al. (Eprint 2021), which uses pebbling lower bounds in conjunction with oracle separations to prove fine-grained lower bounds on loss in cryptographic security. acknowledgement: We would like to thank the anonymous reviewers of Crypto’21 whose detailed comments helped us considerably improve the presentation of the paper. alternative_title: - LCNS article_processing_charge: No author: - first_name: Chethan full_name: Kamath Hosdurg, Chethan id: 4BD3F30E-F248-11E8-B48F-1D18A9856A87 last_name: Kamath Hosdurg - first_name: Karen full_name: Klein, Karen id: 3E83A2F8-F248-11E8-B48F-1D18A9856A87 last_name: Klein - first_name: Krzysztof Z full_name: Pietrzak, Krzysztof Z id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87 last_name: Pietrzak orcid: 0000-0002-9139-1654 - first_name: Daniel full_name: Wichs, Daniel last_name: Wichs citation: ama: 'Kamath Hosdurg C, Klein K, Pietrzak KZ, Wichs D. Limits on the Adaptive Security of Yao’s Garbling. In: 41st Annual International Cryptology Conference, Part II . Vol 12826. Cham: Springer Nature; 2021:486-515. doi:10.1007/978-3-030-84245-1_17' apa: 'Kamath Hosdurg, C., Klein, K., Pietrzak, K. Z., & Wichs, D. (2021). Limits on the Adaptive Security of Yao’s Garbling. In 41st Annual International Cryptology Conference, Part II (Vol. 12826, pp. 486–515). Cham: Springer Nature. https://doi.org/10.1007/978-3-030-84245-1_17' chicago: 'Kamath Hosdurg, Chethan, Karen Klein, Krzysztof Z Pietrzak, and Daniel Wichs. “Limits on the Adaptive Security of Yao’s Garbling.” In 41st Annual International Cryptology Conference, Part II , 12826:486–515. Cham: Springer Nature, 2021. https://doi.org/10.1007/978-3-030-84245-1_17.' ieee: C. Kamath Hosdurg, K. Klein, K. Z. Pietrzak, and D. Wichs, “Limits on the Adaptive Security of Yao’s Garbling,” in 41st Annual International Cryptology Conference, Part II , Virtual, 2021, vol. 12826, pp. 486–515. ista: 'Kamath Hosdurg C, Klein K, Pietrzak KZ, Wichs D. 2021. Limits on the Adaptive Security of Yao’s Garbling. 41st Annual International Cryptology Conference, Part II . CRYPTO: Annual International Cryptology Conference, LCNS, vol. 12826, 486–515.' mla: Kamath Hosdurg, Chethan, et al. “Limits on the Adaptive Security of Yao’s Garbling.” 41st Annual International Cryptology Conference, Part II , vol. 12826, Springer Nature, 2021, pp. 486–515, doi:10.1007/978-3-030-84245-1_17. short: C. Kamath Hosdurg, K. Klein, K.Z. Pietrzak, D. Wichs, in:, 41st Annual International Cryptology Conference, Part II , Springer Nature, Cham, 2021, pp. 486–515. conference: end_date: 2021-08-20 location: Virtual name: 'CRYPTO: Annual International Cryptology Conference' start_date: 2021-08-16 date_created: 2021-09-23T14:06:15Z date_published: 2021-08-11T00:00:00Z date_updated: 2023-09-07T13:32:11Z day: '11' department: - _id: KrPi doi: 10.1007/978-3-030-84245-1_17 ec_funded: 1 intvolume: ' 12826' language: - iso: eng main_file_link: - open_access: '1' url: https://eprint.iacr.org/2021/945 month: '08' oa: 1 oa_version: Preprint page: 486-515 place: Cham project: - _id: 258AA5B2-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '682815' name: Teaching Old Crypto New Tricks publication: '41st Annual International Cryptology Conference, Part II ' publication_identifier: eisbn: - 978-3-030-84245-1 eissn: - 1611-3349 isbn: - 978-3-030-84244-4 issn: - 0302-9743 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '10035' relation: dissertation_contains status: public status: public title: Limits on the Adaptive Security of Yao’s Garbling type: conference user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 12826 year: '2021' ... --- _id: '10049' abstract: - lang: eng text: While messaging systems with strong security guarantees are widely used in practice, designing a protocol that scales efficiently to large groups and enjoys similar security guarantees remains largely open. The two existing proposals to date are ART (Cohn-Gordon et al., CCS18) and TreeKEM (IETF, The Messaging Layer Security Protocol, draft). TreeKEM is the currently considered candidate by the IETF MLS working group, but dynamic group operations (i.e. adding and removing users) can cause efficiency issues. In this paper we formalize and analyze a variant of TreeKEM which we term Tainted TreeKEM (TTKEM for short). The basic idea underlying TTKEM was suggested by Millican (MLS mailing list, February 2018). This version is more efficient than TreeKEM for some natural distributions of group operations, we quantify this through simulations.Our second contribution is two security proofs for TTKEM which establish post compromise and forward secrecy even against adaptive attackers. The security loss (to the underlying PKE) in the Random Oracle Model is a polynomial factor, and a quasipolynomial one in the Standard Model. Our proofs can be adapted to TreeKEM as well. Before our work no security proof for any TreeKEM-like protocol establishing tight security against an adversary who can adaptively choose the sequence of operations was known. We also are the first to prove (or even formalize) active security where the server can arbitrarily deviate from the protocol specification. Proving fully active security – where also the users can arbitrarily deviate – remains open. acknowledgement: The first three authors contributed equally to this work. Funded by the European Research Council (ERC) under the European Union’s Horizon2020 research and innovation programme (682815-TOCNeT). Funded by the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No.665385. article_processing_charge: No author: - first_name: Karen full_name: Klein, Karen id: 3E83A2F8-F248-11E8-B48F-1D18A9856A87 last_name: Klein - first_name: Guillermo full_name: Pascual Perez, Guillermo id: 2D7ABD02-F248-11E8-B48F-1D18A9856A87 last_name: Pascual Perez orcid: 0000-0001-8630-415X - first_name: Michael full_name: Walter, Michael id: 488F98B0-F248-11E8-B48F-1D18A9856A87 last_name: Walter orcid: 0000-0003-3186-2482 - first_name: Chethan full_name: Kamath Hosdurg, Chethan id: 4BD3F30E-F248-11E8-B48F-1D18A9856A87 last_name: Kamath Hosdurg - first_name: Margarita full_name: Capretto, Margarita last_name: Capretto - first_name: Miguel full_name: Cueto Noval, Miguel id: ffc563a3-f6e0-11ea-865d-e3cce03d17cc last_name: Cueto Noval - first_name: Ilia full_name: Markov, Ilia id: D0CF4148-C985-11E9-8066-0BDEE5697425 last_name: Markov - first_name: Michelle X full_name: Yeo, Michelle X id: 2D82B818-F248-11E8-B48F-1D18A9856A87 last_name: Yeo - first_name: Joel F full_name: Alwen, Joel F id: 2A8DFA8C-F248-11E8-B48F-1D18A9856A87 last_name: Alwen - first_name: Krzysztof Z full_name: Pietrzak, Krzysztof Z id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87 last_name: Pietrzak orcid: 0000-0002-9139-1654 citation: ama: 'Klein K, Pascual Perez G, Walter M, et al. Keep the dirt: tainted TreeKEM, adaptively and actively secure continuous group key agreement. In: 2021 IEEE Symposium on Security and Privacy . IEEE; 2021:268-284. doi:10.1109/sp40001.2021.00035' apa: 'Klein, K., Pascual Perez, G., Walter, M., Kamath Hosdurg, C., Capretto, M., Cueto Noval, M., … Pietrzak, K. Z. (2021). Keep the dirt: tainted TreeKEM, adaptively and actively secure continuous group key agreement. In 2021 IEEE Symposium on Security and Privacy (pp. 268–284). San Francisco, CA, United States: IEEE. https://doi.org/10.1109/sp40001.2021.00035' chicago: 'Klein, Karen, Guillermo Pascual Perez, Michael Walter, Chethan Kamath Hosdurg, Margarita Capretto, Miguel Cueto Noval, Ilia Markov, Michelle X Yeo, Joel F Alwen, and Krzysztof Z Pietrzak. “Keep the Dirt: Tainted TreeKEM, Adaptively and Actively Secure Continuous Group Key Agreement.” In 2021 IEEE Symposium on Security and Privacy , 268–84. IEEE, 2021. https://doi.org/10.1109/sp40001.2021.00035.' ieee: 'K. Klein et al., “Keep the dirt: tainted TreeKEM, adaptively and actively secure continuous group key agreement,” in 2021 IEEE Symposium on Security and Privacy , San Francisco, CA, United States, 2021, pp. 268–284.' ista: 'Klein K, Pascual Perez G, Walter M, Kamath Hosdurg C, Capretto M, Cueto Noval M, Markov I, Yeo MX, Alwen JF, Pietrzak KZ. 2021. Keep the dirt: tainted TreeKEM, adaptively and actively secure continuous group key agreement. 2021 IEEE Symposium on Security and Privacy . SP: Symposium on Security and Privacy, 268–284.' mla: 'Klein, Karen, et al. “Keep the Dirt: Tainted TreeKEM, Adaptively and Actively Secure Continuous Group Key Agreement.” 2021 IEEE Symposium on Security and Privacy , IEEE, 2021, pp. 268–84, doi:10.1109/sp40001.2021.00035.' short: K. Klein, G. Pascual Perez, M. Walter, C. Kamath Hosdurg, M. Capretto, M. Cueto Noval, I. Markov, M.X. Yeo, J.F. Alwen, K.Z. Pietrzak, in:, 2021 IEEE Symposium on Security and Privacy , IEEE, 2021, pp. 268–284. conference: end_date: 2021-05-27 location: San Francisco, CA, United States name: 'SP: Symposium on Security and Privacy' start_date: 2021-05-24 date_created: 2021-09-27T13:46:27Z date_published: 2021-08-26T00:00:00Z date_updated: 2023-09-07T13:32:11Z day: '26' department: - _id: KrPi - _id: DaAl doi: 10.1109/sp40001.2021.00035 ec_funded: 1 language: - iso: eng main_file_link: - open_access: '1' url: https://eprint.iacr.org/2019/1489 month: '08' oa: 1 oa_version: Preprint page: 268-284 project: - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: 258AA5B2-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '682815' name: Teaching Old Crypto New Tricks publication: '2021 IEEE Symposium on Security and Privacy ' publication_status: published publisher: IEEE quality_controlled: '1' related_material: record: - id: '10035' relation: dissertation_contains status: public status: public title: 'Keep the dirt: tainted TreeKEM, adaptively and actively secure continuous group key agreement' type: conference user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2021' ... --- _id: '10044' abstract: - lang: eng text: We show that Yao’s garbling scheme is adaptively indistinguishable for the class of Boolean circuits of size S and treewidth w with only a S^O(w) loss in security. For instance, circuits with constant treewidth are as a result adaptively indistinguishable with only a polynomial loss. This (partially) complements a negative result of Applebaum et al. (Crypto 2013), which showed (assuming one-way functions) that Yao’s garbling scheme cannot be adaptively simulatable. As main technical contributions, we introduce a new pebble game that abstracts out our security reduction and then present a pebbling strategy for this game where the number of pebbles used is roughly O(d w log(S)), d being the fan-out of the circuit. The design of the strategy relies on separators, a graph-theoretic notion with connections to circuit complexity. acknowledgement: 'We would like to thank Daniel Wichs for helpful discussions on the landscape of adaptive security of Yao’s garbling. ' article_number: 2021/926 article_processing_charge: No author: - first_name: Chethan full_name: Kamath Hosdurg, Chethan id: 4BD3F30E-F248-11E8-B48F-1D18A9856A87 last_name: Kamath Hosdurg - first_name: Karen full_name: Klein, Karen id: 3E83A2F8-F248-11E8-B48F-1D18A9856A87 last_name: Klein - first_name: Krzysztof Z full_name: Pietrzak, Krzysztof Z id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87 last_name: Pietrzak orcid: 0000-0002-9139-1654 citation: ama: 'Kamath Hosdurg C, Klein K, Pietrzak KZ. On treewidth, separators and Yao’s garbling. In: 19th Theory of Cryptography Conference 2021. International Association for Cryptologic Research; 2021.' apa: 'Kamath Hosdurg, C., Klein, K., & Pietrzak, K. Z. (2021). On treewidth, separators and Yao’s garbling. In 19th Theory of Cryptography Conference 2021. Raleigh, NC, United States: International Association for Cryptologic Research.' chicago: Kamath Hosdurg, Chethan, Karen Klein, and Krzysztof Z Pietrzak. “On Treewidth, Separators and Yao’s Garbling.” In 19th Theory of Cryptography Conference 2021. International Association for Cryptologic Research, 2021. ieee: C. Kamath Hosdurg, K. Klein, and K. Z. Pietrzak, “On treewidth, separators and Yao’s garbling,” in 19th Theory of Cryptography Conference 2021, Raleigh, NC, United States, 2021. ista: 'Kamath Hosdurg C, Klein K, Pietrzak KZ. 2021. On treewidth, separators and Yao’s garbling. 19th Theory of Cryptography Conference 2021. TCC: Theory of Cryptography Conference, 2021/926.' mla: Kamath Hosdurg, Chethan, et al. “On Treewidth, Separators and Yao’s Garbling.” 19th Theory of Cryptography Conference 2021, 2021/926, International Association for Cryptologic Research, 2021. short: C. Kamath Hosdurg, K. Klein, K.Z. Pietrzak, in:, 19th Theory of Cryptography Conference 2021, International Association for Cryptologic Research, 2021. conference: end_date: 2021-11-11 location: Raleigh, NC, United States name: 'TCC: Theory of Cryptography Conference' start_date: 2021-11-08 date_created: 2021-09-24T12:01:34Z date_published: 2021-07-08T00:00:00Z date_updated: 2023-09-07T13:32:11Z day: '08' department: - _id: KrPi ec_funded: 1 language: - iso: eng main_file_link: - open_access: '1' url: https://eprint.iacr.org/2021/926 month: '07' oa: 1 oa_version: Preprint project: - _id: 258AA5B2-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '682815' name: Teaching Old Crypto New Tricks publication: 19th Theory of Cryptography Conference 2021 publication_status: published publisher: International Association for Cryptologic Research quality_controlled: '1' related_material: record: - id: '10409' relation: later_version status: public - id: '10035' relation: dissertation_contains status: public status: public title: On treewidth, separators and Yao's garbling type: conference user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2021' ... --- _id: '10422' abstract: - lang: eng text: Those who aim to devise new materials with desirable properties usually examine present methods first. However, they will find out that some approaches can exist only conceptually without high chances to become practically useful. It seems that a numerical technique called automatic differentiation together with increasing supply of computational accelerators will soon shift many methods of the material design from the category ”unimaginable” to the category ”expensive but possible”. Approach we suggest is not an exception. Our overall goal is to have an efficient and generalizable approach allowing to solve inverse design problems. In this thesis we scratch its surface. We consider jammed systems of identical particles. And ask ourselves how the shape of those particles (or the parameters codifying it) may affect mechanical properties of the system. An indispensable part of reaching the answer is an appropriate particle parametrization. We come up with a simple, yet generalizable and purposeful scheme for it. Using our generalizable shape parameterization, we simulate the formation of a solid composed of pentagonal-like particles and measure anisotropy in the resulting elastic response. Through automatic differentiation techniques, we directly connect the shape parameters with the elastic response. Interestingly, for our system we find that less isotropic particles lead to a more isotropic elastic response. Together with other results known about our method it seems that it can be successfully generalized for different inverse design problems. alternative_title: - ISTA Master's Thesis article_processing_charge: No author: - first_name: Anton full_name: Piankov, Anton id: 865E3C26-AA8C-11E9-A409-C4C4E5697425 last_name: Piankov citation: ama: Piankov A. Towards designer materials using customizable particle shape. 2021. doi:10.15479/at:ista:10422 apa: Piankov, A. (2021). Towards designer materials using customizable particle shape. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:10422 chicago: Piankov, Anton. “Towards Designer Materials Using Customizable Particle Shape.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:10422. ieee: A. Piankov, “Towards designer materials using customizable particle shape,” Institute of Science and Technology Austria, 2021. ista: Piankov A. 2021. Towards designer materials using customizable particle shape. Institute of Science and Technology Austria. mla: Piankov, Anton. Towards Designer Materials Using Customizable Particle Shape. Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:10422. short: A. Piankov, Towards Designer Materials Using Customizable Particle Shape, Institute of Science and Technology Austria, 2021. date_created: 2021-12-07T10:48:06Z date_published: 2021-12-07T00:00:00Z date_updated: 2023-09-07T13:34:12Z day: '07' ddc: - '530' degree_awarded: MS department: - _id: GradSch - _id: CaGo doi: 10.15479/at:ista:10422 file: - access_level: closed checksum: 114e8f4b2c002c6c352416c12de2c695 content_type: application/x-zip-compressed creator: cchlebak date_created: 2021-12-07T11:13:52Z date_updated: 2022-03-10T12:10:25Z file_id: '10424' file_name: Thesis.zip file_size: 394018 relation: source_file - access_level: closed checksum: cd15ae991ced352a9959815f794e657c content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document creator: cchlebak date_created: 2021-12-07T11:14:01Z date_updated: 2022-03-10T12:10:25Z file_id: '10425' file_name: Preliminary_pages_Piankov.docx file_size: 47638 relation: source_file - access_level: open_access checksum: e6899c798b75ba42fab9822bce309050 content_type: application/pdf creator: cchlebak date_created: 2021-12-07T11:20:35Z date_updated: 2021-12-07T11:20:35Z file_id: '10426' file_name: 2021_Piankov_combined.pdf file_size: 484965 relation: main_file success: 1 file_date_updated: 2022-03-10T12:10:25Z has_accepted_license: '1' language: - iso: eng month: '12' oa: 1 oa_version: Published Version publication_identifier: issn: - 2791-4585 publication_status: published publisher: Institute of Science and Technology Austria status: public supervisor: - first_name: Carl Peter full_name: Goodrich, Carl Peter id: EB352CD2-F68A-11E9-89C5-A432E6697425 last_name: Goodrich orcid: 0000-0002-1307-5074 title: Towards designer materials using customizable particle shape type: dissertation user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 year: '2021' ... --- _id: '10803' abstract: - lang: eng text: Given the abundance of applications of ranking in recent years, addressing fairness concerns around automated ranking systems becomes necessary for increasing the trust among end-users. Previous work on fair ranking has mostly focused on application-specific fairness notions, often tailored to online advertising, and it rarely considers learning as part of the process. In this work, we show how to transfer numerous fairness notions from binary classification to a learning to rank setting. Our formalism allows us to design methods for incorporating fairness objectives with provable generalization guarantees. An extensive experimental evaluation shows that our method can improve ranking fairness substantially with no or only little loss of model quality. article_number: '2102.05996' article_processing_charge: No author: - first_name: Nikola H full_name: Konstantinov, Nikola H id: 4B9D76E4-F248-11E8-B48F-1D18A9856A87 last_name: Konstantinov - first_name: Christoph full_name: Lampert, Christoph id: 40C20FD2-F248-11E8-B48F-1D18A9856A87 last_name: Lampert orcid: 0000-0002-4561-241X citation: ama: Konstantinov NH, Lampert C. Fairness through regularization for learning to rank. arXiv. doi:10.48550/arXiv.2102.05996 apa: Konstantinov, N. H., & Lampert, C. (n.d.). Fairness through regularization for learning to rank. arXiv. https://doi.org/10.48550/arXiv.2102.05996 chicago: Konstantinov, Nikola H, and Christoph Lampert. “Fairness through Regularization for Learning to Rank.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2102.05996. ieee: N. H. Konstantinov and C. Lampert, “Fairness through regularization for learning to rank,” arXiv. . ista: Konstantinov NH, Lampert C. Fairness through regularization for learning to rank. arXiv, 2102.05996. mla: Konstantinov, Nikola H., and Christoph Lampert. “Fairness through Regularization for Learning to Rank.” ArXiv, 2102.05996, doi:10.48550/arXiv.2102.05996. short: N.H. Konstantinov, C. Lampert, ArXiv (n.d.). date_created: 2022-02-28T14:13:59Z date_published: 2021-06-07T00:00:00Z date_updated: 2023-09-07T13:42:08Z day: '07' department: - _id: ChLa doi: 10.48550/arXiv.2102.05996 external_id: arxiv: - '2102.05996' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2102.05996 month: '06' oa: 1 oa_version: Preprint publication: arXiv publication_status: submitted related_material: record: - id: '10799' relation: dissertation_contains status: public status: public title: Fairness through regularization for learning to rank type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '10762' abstract: - lang: eng text: Methods inspired from machine learning have recently attracted great interest in the computational study of quantum many-particle systems. So far, however, it has proven challenging to deal with microscopic models in which the total number of particles is not conserved. To address this issue, we propose a new variant of neural network states, which we term neural coherent states. Taking the Fröhlich impurity model as a case study, we show that neural coherent states can learn the ground state of non-additive systems very well. In particular, we observe substantial improvement over the standard coherent state estimates in the most challenging intermediate coupling regime. Our approach is generic and does not assume specific details of the system, suggesting wide applications. acknowledgement: "We acknowledge fruitful discussions with Giacomo Bighin, Giammarco Fabiani, Areg Ghazaryan, Christoph\r\nLampert, and Artem Volosniev at various stages of this work. W.R. is a recipient of a DOC Fellowship of the\r\nAustrian Academy of Sciences and has received funding from the EU Horizon 2020 programme under the Marie\r\nSkłodowska-Curie Grant Agreement No. 665385. M. L. acknowledges support by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). This work is part of the Shell-NWO/FOM-initiative “Computational sciences for energy research” of Shell and Chemical Sciences, Earth and Life Sciences, Physical Sciences, FOM and STW." article_processing_charge: No author: - first_name: Wojciech full_name: Rzadkowski, Wojciech id: 48C55298-F248-11E8-B48F-1D18A9856A87 last_name: Rzadkowski orcid: 0000-0002-1106-4419 - first_name: Mikhail full_name: Lemeshko, Mikhail id: 37CB05FA-F248-11E8-B48F-1D18A9856A87 last_name: Lemeshko orcid: 0000-0002-6990-7802 - first_name: Johan H. full_name: Mentink, Johan H. last_name: Mentink citation: ama: Rzadkowski W, Lemeshko M, Mentink JH. Artificial neural network states for non-additive systems. arXiv. doi:10.48550/arXiv.2105.15193 apa: Rzadkowski, W., Lemeshko, M., & Mentink, J. H. (n.d.). Artificial neural network states for non-additive systems. arXiv. https://doi.org/10.48550/arXiv.2105.15193 chicago: Rzadkowski, Wojciech, Mikhail Lemeshko, and Johan H. Mentink. “Artificial Neural Network States for Non-Additive Systems.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2105.15193. ieee: W. Rzadkowski, M. Lemeshko, and J. H. Mentink, “Artificial neural network states for non-additive systems,” arXiv. . ista: Rzadkowski W, Lemeshko M, Mentink JH. Artificial neural network states for non-additive systems. arXiv, 10.48550/arXiv.2105.15193. mla: Rzadkowski, Wojciech, et al. “Artificial Neural Network States for Non-Additive Systems.” ArXiv, doi:10.48550/arXiv.2105.15193. short: W. Rzadkowski, M. Lemeshko, J.H. Mentink, ArXiv (n.d.). date_created: 2022-02-17T11:18:57Z date_published: 2021-05-31T00:00:00Z date_updated: 2023-09-07T13:44:16Z day: '31' department: - _id: MiLe doi: 10.48550/arXiv.2105.15193 ec_funded: 1 external_id: arxiv: - '2105.15193' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2105.15193 month: '05' oa: 1 oa_version: Preprint page: '2105.15193' project: - _id: 2688CF98-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '801770' name: 'Angulon: physics and applications of a new quasiparticle' - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program publication: arXiv publication_status: submitted related_material: record: - id: '10759' relation: dissertation_contains status: public status: public title: Artificial neural network states for non-additive systems type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '9418' abstract: - lang: eng text: "Deep learning is best known for its empirical success across a wide range of applications\r\nspanning computer vision, natural language processing and speech. Of equal significance,\r\nthough perhaps less known, are its ramifications for learning theory: deep networks have\r\nbeen observed to perform surprisingly well in the high-capacity regime, aka the overfitting\r\nor underspecified regime. Classically, this regime on the far right of the bias-variance curve\r\nis associated with poor generalisation; however, recent experiments with deep networks\r\nchallenge this view.\r\n\r\nThis thesis is devoted to investigating various aspects of underspecification in deep learning.\r\nFirst, we argue that deep learning models are underspecified on two levels: a) any given\r\ntraining dataset can be fit by many different functions, and b) any given function can be\r\nexpressed by many different parameter configurations. We refer to the second kind of\r\nunderspecification as parameterisation redundancy and we precisely characterise its extent.\r\nSecond, we characterise the implicit criteria (the inductive bias) that guide learning in the\r\nunderspecified regime. Specifically, we consider a nonlinear but tractable classification\r\nsetting, and show that given the choice, neural networks learn classifiers with a large margin.\r\nThird, we consider learning scenarios where the inductive bias is not by itself sufficient to\r\ndeal with underspecification. We then study different ways of ‘tightening the specification’: i)\r\nIn the setting of representation learning with variational autoencoders, we propose a hand-\r\ncrafted regulariser based on mutual information. ii) In the setting of binary classification, we\r\nconsider soft-label (real-valued) supervision. We derive a generalisation bound for linear\r\nnetworks supervised in this way and verify that soft labels facilitate fast learning. Finally, we\r\nexplore an application of soft-label supervision to the training of multi-exit models." acknowledged_ssus: - _id: ScienComp - _id: CampIT - _id: E-Lib alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Phuong full_name: Bui Thi Mai, Phuong id: 3EC6EE64-F248-11E8-B48F-1D18A9856A87 last_name: Bui Thi Mai citation: ama: Phuong M. Underspecification in deep learning. 2021. doi:10.15479/AT:ISTA:9418 apa: Phuong, M. (2021). Underspecification in deep learning. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9418 chicago: Phuong, Mary. “Underspecification in Deep Learning.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9418. ieee: M. Phuong, “Underspecification in deep learning,” Institute of Science and Technology Austria, 2021. ista: Phuong M. 2021. Underspecification in deep learning. Institute of Science and Technology Austria. mla: Phuong, Mary. Underspecification in Deep Learning. Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9418. short: M. Phuong, Underspecification in Deep Learning, Institute of Science and Technology Austria, 2021. date_created: 2021-05-24T13:06:23Z date_published: 2021-05-30T00:00:00Z date_updated: 2023-09-08T11:11:12Z day: '30' ddc: - '000' degree_awarded: PhD department: - _id: GradSch - _id: ChLa doi: 10.15479/AT:ISTA:9418 file: - access_level: open_access checksum: 4f0abe64114cfed264f9d36e8d1197e3 content_type: application/pdf creator: bphuong date_created: 2021-05-24T11:22:29Z date_updated: 2021-05-24T11:22:29Z file_id: '9419' file_name: mph-thesis-v519-pdfimages.pdf file_size: 2673905 relation: main_file success: 1 - access_level: closed checksum: f5699e876bc770a9b0df8345a77720a2 content_type: application/zip creator: bphuong date_created: 2021-05-24T11:56:02Z date_updated: 2021-05-24T11:56:02Z file_id: '9420' file_name: thesis.zip file_size: 92995100 relation: source_file file_date_updated: 2021-05-24T11:56:02Z has_accepted_license: '1' language: - iso: eng month: '05' oa: 1 oa_version: Published Version page: '125' publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '7435' relation: part_of_dissertation status: deleted - id: '7481' relation: part_of_dissertation status: public - id: '9416' relation: part_of_dissertation status: public - id: '7479' relation: part_of_dissertation status: public status: public supervisor: - first_name: Christoph full_name: Lampert, Christoph id: 40C20FD2-F248-11E8-B48F-1D18A9856A87 last_name: Lampert orcid: 0000-0001-8622-7887 title: Underspecification in deep learning type: dissertation user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 year: '2021' ... --- _id: '14177' abstract: - lang: eng text: "The focus of disentanglement approaches has been on identifying independent factors of variation in data. However, the causal variables underlying real-world observations are often not statistically independent. In this work, we bridge the gap to real-world scenarios by analyzing the behavior of the most prominent disentanglement approaches on correlated data in a large-scale empirical study (including 4260 models). We show and quantify that systematically induced correlations in the dataset are being learned and reflected in the latent representations, which has implications for downstream applications of disentanglement such as fairness. We also demonstrate how to resolve these latent correlations, either using weak supervision during\r\ntraining or by post-hoc correcting a pre-trained model with a small number of labels." alternative_title: - PMLR article_processing_charge: No author: - first_name: Frederik full_name: Träuble, Frederik last_name: Träuble - first_name: Elliot full_name: Creager, Elliot last_name: Creager - first_name: Niki full_name: Kilbertus, Niki last_name: Kilbertus - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Andrea full_name: Dittadi, Andrea last_name: Dittadi - first_name: Anirudh full_name: Goyal, Anirudh last_name: Goyal - first_name: Bernhard full_name: Schölkopf, Bernhard last_name: Schölkopf - first_name: Stefan full_name: Bauer, Stefan last_name: Bauer citation: ama: 'Träuble F, Creager E, Kilbertus N, et al. On disentangled representations learned from correlated data. In: Proceedings of the 38th International Conference on Machine Learning. Vol 139. ML Research Press; 2021:10401-10412.' apa: 'Träuble, F., Creager, E., Kilbertus, N., Locatello, F., Dittadi, A., Goyal, A., … Bauer, S. (2021). On disentangled representations learned from correlated data. In Proceedings of the 38th International Conference on Machine Learning (Vol. 139, pp. 10401–10412). Virtual: ML Research Press.' chicago: Träuble, Frederik, Elliot Creager, Niki Kilbertus, Francesco Locatello, Andrea Dittadi, Anirudh Goyal, Bernhard Schölkopf, and Stefan Bauer. “On Disentangled Representations Learned from Correlated Data.” In Proceedings of the 38th International Conference on Machine Learning, 139:10401–12. ML Research Press, 2021. ieee: F. Träuble et al., “On disentangled representations learned from correlated data,” in Proceedings of the 38th International Conference on Machine Learning, Virtual, 2021, vol. 139, pp. 10401–10412. ista: 'Träuble F, Creager E, Kilbertus N, Locatello F, Dittadi A, Goyal A, Schölkopf B, Bauer S. 2021. On disentangled representations learned from correlated data. Proceedings of the 38th International Conference on Machine Learning. ICML: International Conference on Machine Learning, PMLR, vol. 139, 10401–10412.' mla: Träuble, Frederik, et al. “On Disentangled Representations Learned from Correlated Data.” Proceedings of the 38th International Conference on Machine Learning, vol. 139, ML Research Press, 2021, pp. 10401–12. short: F. Träuble, E. Creager, N. Kilbertus, F. Locatello, A. Dittadi, A. Goyal, B. Schölkopf, S. Bauer, in:, Proceedings of the 38th International Conference on Machine Learning, ML Research Press, 2021, pp. 10401–10412. conference: end_date: 2021-07-24 location: Virtual name: 'ICML: International Conference on Machine Learning' start_date: 2021-07-18 date_created: 2023-08-22T14:03:47Z date_published: 2021-08-01T00:00:00Z date_updated: 2023-09-11T10:18:48Z day: '01' department: - _id: FrLo extern: '1' external_id: arxiv: - '2006.07886' intvolume: ' 139' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2006.07886 month: '08' oa: 1 oa_version: Published Version page: 10401-10412 publication: Proceedings of the 38th International Conference on Machine Learning publication_status: published publisher: ML Research Press quality_controlled: '1' scopus_import: '1' status: public title: On disentangled representations learned from correlated data type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 139 year: '2021' ... --- _id: '14176' abstract: - lang: eng text: "Intensive care units (ICU) are increasingly looking towards machine learning for methods to provide online monitoring of critically ill patients. In machine learning, online monitoring is often formulated as a supervised learning problem. Recently, contrastive learning approaches have demonstrated promising improvements over competitive supervised benchmarks. These methods rely on well-understood data augmentation techniques developed for image data which do not apply to online monitoring. In this work, we overcome this limitation by\r\nsupplementing time-series data augmentation techniques with a novel contrastive\r\nlearning objective which we call neighborhood contrastive learning (NCL). Our objective explicitly groups together contiguous time segments from each patient while maintaining state-specific information. Our experiments demonstrate a marked improvement over existing work applying contrastive methods to medical time-series." alternative_title: - PMLR article_processing_charge: No author: - first_name: Hugo full_name: Yèche, Hugo last_name: Yèche - first_name: Gideon full_name: Dresdner, Gideon last_name: Dresdner - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Matthias full_name: Hüser, Matthias last_name: Hüser - first_name: Gunnar full_name: Rätsch, Gunnar last_name: Rätsch citation: ama: 'Yèche H, Dresdner G, Locatello F, Hüser M, Rätsch G. Neighborhood contrastive learning applied to online patient monitoring. In: Proceedings of 38th International Conference on Machine Learning. Vol 139. ML Research Press; 2021:11964-11974.' apa: 'Yèche, H., Dresdner, G., Locatello, F., Hüser, M., & Rätsch, G. (2021). Neighborhood contrastive learning applied to online patient monitoring. In Proceedings of 38th International Conference on Machine Learning (Vol. 139, pp. 11964–11974). Virtual: ML Research Press.' chicago: Yèche, Hugo, Gideon Dresdner, Francesco Locatello, Matthias Hüser, and Gunnar Rätsch. “Neighborhood Contrastive Learning Applied to Online Patient Monitoring.” In Proceedings of 38th International Conference on Machine Learning, 139:11964–74. ML Research Press, 2021. ieee: H. Yèche, G. Dresdner, F. Locatello, M. Hüser, and G. Rätsch, “Neighborhood contrastive learning applied to online patient monitoring,” in Proceedings of 38th International Conference on Machine Learning, Virtual, 2021, vol. 139, pp. 11964–11974. ista: Yèche H, Dresdner G, Locatello F, Hüser M, Rätsch G. 2021. Neighborhood contrastive learning applied to online patient monitoring. Proceedings of 38th International Conference on Machine Learning. International Conference on Machine Learning, PMLR, vol. 139, 11964–11974. mla: Yèche, Hugo, et al. “Neighborhood Contrastive Learning Applied to Online Patient Monitoring.” Proceedings of 38th International Conference on Machine Learning, vol. 139, ML Research Press, 2021, pp. 11964–74. short: H. Yèche, G. Dresdner, F. Locatello, M. Hüser, G. Rätsch, in:, Proceedings of 38th International Conference on Machine Learning, ML Research Press, 2021, pp. 11964–11974. conference: end_date: 2021-07-24 location: Virtual name: International Conference on Machine Learning start_date: 2021-07-18 date_created: 2023-08-22T14:03:04Z date_published: 2021-08-01T00:00:00Z date_updated: 2023-09-11T10:16:55Z day: '01' department: - _id: FrLo extern: '1' external_id: arxiv: - '2106.05142' intvolume: ' 139' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2106.05142 month: '08' oa: 1 oa_version: Preprint page: 11964-11974 publication: Proceedings of 38th International Conference on Machine Learning publication_status: published publisher: ML Research Press quality_controlled: '1' scopus_import: '1' status: public title: Neighborhood contrastive learning applied to online patient monitoring type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 139 year: '2021' ... --- _id: '14182' abstract: - lang: eng text: "When machine learning systems meet real world applications, accuracy is only\r\none of several requirements. In this paper, we assay a complementary\r\nperspective originating from the increasing availability of pre-trained and\r\nregularly improving state-of-the-art models. While new improved models develop\r\nat a fast pace, downstream tasks vary more slowly or stay constant. Assume that\r\nwe have a large unlabelled data set for which we want to maintain accurate\r\npredictions. Whenever a new and presumably better ML models becomes available,\r\nwe encounter two problems: (i) given a limited budget, which data points should\r\nbe re-evaluated using the new model?; and (ii) if the new predictions differ\r\nfrom the current ones, should we update? Problem (i) is about compute cost,\r\nwhich matters for very large data sets and models. Problem (ii) is about\r\nmaintaining consistency of the predictions, which can be highly relevant for\r\ndownstream applications; our demand is to avoid negative flips, i.e., changing\r\ncorrect to incorrect predictions. In this paper, we formalize the Prediction\r\nUpdate Problem and present an efficient probabilistic approach as answer to the\r\nabove questions. In extensive experiments on standard classification benchmark\r\ndata sets, we show that our method outperforms alternative strategies along key\r\nmetrics for backward-compatible prediction updates." article_processing_charge: No author: - first_name: Frederik full_name: Träuble, Frederik last_name: Träuble - first_name: Julius von full_name: Kügelgen, Julius von last_name: Kügelgen - first_name: Matthäus full_name: Kleindessner, Matthäus last_name: Kleindessner - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Bernhard full_name: Schölkopf, Bernhard last_name: Schölkopf - first_name: Peter full_name: Gehler, Peter last_name: Gehler citation: ama: 'Träuble F, Kügelgen J von, Kleindessner M, Locatello F, Schölkopf B, Gehler P. Backward-compatible prediction updates: A probabilistic approach. In: 35th Conference on Neural Information Processing Systems. Vol 34. ; 2021:116-128.' apa: 'Träuble, F., Kügelgen, J. von, Kleindessner, M., Locatello, F., Schölkopf, B., & Gehler, P. (2021). Backward-compatible prediction updates: A probabilistic approach. In 35th Conference on Neural Information Processing Systems (Vol. 34, pp. 116–128). Virtual.' chicago: 'Träuble, Frederik, Julius von Kügelgen, Matthäus Kleindessner, Francesco Locatello, Bernhard Schölkopf, and Peter Gehler. “Backward-Compatible Prediction Updates: A Probabilistic Approach.” In 35th Conference on Neural Information Processing Systems, 34:116–28, 2021.' ieee: 'F. Träuble, J. von Kügelgen, M. Kleindessner, F. Locatello, B. Schölkopf, and P. Gehler, “Backward-compatible prediction updates: A probabilistic approach,” in 35th Conference on Neural Information Processing Systems, Virtual, 2021, vol. 34, pp. 116–128.' ista: 'Träuble F, Kügelgen J von, Kleindessner M, Locatello F, Schölkopf B, Gehler P. 2021. Backward-compatible prediction updates: A probabilistic approach. 35th Conference on Neural Information Processing Systems. NeurIPS: Neural Information Processing Systems vol. 34, 116–128.' mla: 'Träuble, Frederik, et al. “Backward-Compatible Prediction Updates: A Probabilistic Approach.” 35th Conference on Neural Information Processing Systems, vol. 34, 2021, pp. 116–28.' short: F. Träuble, J. von Kügelgen, M. Kleindessner, F. Locatello, B. Schölkopf, P. Gehler, in:, 35th Conference on Neural Information Processing Systems, 2021, pp. 116–128. conference: end_date: 2021-12-10 location: Virtual name: 'NeurIPS: Neural Information Processing Systems' start_date: 2021-12-07 date_created: 2023-08-22T14:05:41Z date_published: 2021-07-02T00:00:00Z date_updated: 2023-09-11T11:31:59Z day: '02' department: - _id: FrLo extern: '1' external_id: arxiv: - '2107.01057' intvolume: ' 34' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2107.01057 month: '07' oa: 1 oa_version: Preprint page: 116-128 publication: 35th Conference on Neural Information Processing Systems publication_identifier: isbn: - '9781713845393' publication_status: published quality_controlled: '1' status: public title: 'Backward-compatible prediction updates: A probabilistic approach' type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 34 year: '2021' ... --- _id: '14181' abstract: - lang: eng text: Variational Inference makes a trade-off between the capacity of the variational family and the tractability of finding an approximate posterior distribution. Instead, Boosting Variational Inference allows practitioners to obtain increasingly good posterior approximations by spending more compute. The main obstacle to widespread adoption of Boosting Variational Inference is the amount of resources necessary to improve over a strong Variational Inference baseline. In our work, we trace this limitation back to the global curvature of the KL-divergence. We characterize how the global curvature impacts time and memory consumption, address the problem with the notion of local curvature, and provide a novel approximate backtracking algorithm for estimating local curvature. We give new theoretical convergence rates for our algorithms and provide experimental validation on synthetic and real-world datasets. article_processing_charge: No author: - first_name: Gideon full_name: Dresdner, Gideon last_name: Dresdner - first_name: Saurav full_name: Shekhar, Saurav last_name: Shekhar - first_name: Fabian full_name: Pedregosa, Fabian last_name: Pedregosa - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Gunnar full_name: Rätsch, Gunnar last_name: Rätsch citation: ama: 'Dresdner G, Shekhar S, Pedregosa F, Locatello F, Rätsch G. Boosting variational inference with locally adaptive step-sizes. In: Proceedings of the Thirtieth International Joint Conference on Artificial Intelligence. International Joint Conferences on Artificial Intelligence; 2021:2337-2343. doi:10.24963/ijcai.2021/322' apa: 'Dresdner, G., Shekhar, S., Pedregosa, F., Locatello, F., & Rätsch, G. (2021). Boosting variational inference with locally adaptive step-sizes. In Proceedings of the Thirtieth International Joint Conference on Artificial Intelligence (pp. 2337–2343). Montreal, Canada: International Joint Conferences on Artificial Intelligence. https://doi.org/10.24963/ijcai.2021/322' chicago: Dresdner, Gideon, Saurav Shekhar, Fabian Pedregosa, Francesco Locatello, and Gunnar Rätsch. “Boosting Variational Inference with Locally Adaptive Step-Sizes.” In Proceedings of the Thirtieth International Joint Conference on Artificial Intelligence, 2337–43. International Joint Conferences on Artificial Intelligence, 2021. https://doi.org/10.24963/ijcai.2021/322. ieee: G. Dresdner, S. Shekhar, F. Pedregosa, F. Locatello, and G. Rätsch, “Boosting variational inference with locally adaptive step-sizes,” in Proceedings of the Thirtieth International Joint Conference on Artificial Intelligence, Montreal, Canada, 2021, pp. 2337–2343. ista: 'Dresdner G, Shekhar S, Pedregosa F, Locatello F, Rätsch G. 2021. Boosting variational inference with locally adaptive step-sizes. Proceedings of the Thirtieth International Joint Conference on Artificial Intelligence. IJCAI: International Joint Conference on Artificial Intelligence, 2337–2343.' mla: Dresdner, Gideon, et al. “Boosting Variational Inference with Locally Adaptive Step-Sizes.” Proceedings of the Thirtieth International Joint Conference on Artificial Intelligence, International Joint Conferences on Artificial Intelligence, 2021, pp. 2337–43, doi:10.24963/ijcai.2021/322. short: G. Dresdner, S. Shekhar, F. Pedregosa, F. Locatello, G. Rätsch, in:, Proceedings of the Thirtieth International Joint Conference on Artificial Intelligence, International Joint Conferences on Artificial Intelligence, 2021, pp. 2337–2343. conference: end_date: 2021-08-27 location: Montreal, Canada name: 'IJCAI: International Joint Conference on Artificial Intelligence' start_date: 2021-08-19 date_created: 2023-08-22T14:05:14Z date_published: 2021-05-19T00:00:00Z date_updated: 2023-09-11T11:14:30Z day: '19' department: - _id: FrLo doi: 10.24963/ijcai.2021/322 extern: '1' external_id: arxiv: - '2105.09240' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2105.09240 month: '05' oa: 1 oa_version: Published Version page: 2337-2343 publication: Proceedings of the Thirtieth International Joint Conference on Artificial Intelligence publication_identifier: eisbn: - '9780999241196' publication_status: published publisher: International Joint Conferences on Artificial Intelligence quality_controlled: '1' status: public title: Boosting variational inference with locally adaptive step-sizes type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '14179' abstract: - lang: eng text: Self-supervised representation learning has shown remarkable success in a number of domains. A common practice is to perform data augmentation via hand-crafted transformations intended to leave the semantics of the data invariant. We seek to understand the empirical success of this approach from a theoretical perspective. We formulate the augmentation process as a latent variable model by postulating a partition of the latent representation into a content component, which is assumed invariant to augmentation, and a style component, which is allowed to change. Unlike prior work on disentanglement and independent component analysis, we allow for both nontrivial statistical and causal dependencies in the latent space. We study the identifiability of the latent representation based on pairs of views of the observations and prove sufficient conditions that allow us to identify the invariant content partition up to an invertible mapping in both generative and discriminative settings. We find numerical simulations with dependent latent variables are consistent with our theory. Lastly, we introduce Causal3DIdent, a dataset of high-dimensional, visually complex images with rich causal dependencies, which we use to study the effect of data augmentations performed in practice. article_processing_charge: No author: - first_name: Julius von full_name: Kügelgen, Julius von last_name: Kügelgen - first_name: Yash full_name: Sharma, Yash last_name: Sharma - first_name: Luigi full_name: Gresele, Luigi last_name: Gresele - first_name: Wieland full_name: Brendel, Wieland last_name: Brendel - first_name: Bernhard full_name: Schölkopf, Bernhard last_name: Schölkopf - first_name: Michel full_name: Besserve, Michel last_name: Besserve - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 citation: ama: 'Kügelgen J von, Sharma Y, Gresele L, et al. Self-supervised learning with data augmentations provably isolates content from style. In: Advances in Neural Information Processing Systems. Vol 34. ; 2021:16451-16467.' apa: Kügelgen, J. von, Sharma, Y., Gresele, L., Brendel, W., Schölkopf, B., Besserve, M., & Locatello, F. (2021). Self-supervised learning with data augmentations provably isolates content from style. In Advances in Neural Information Processing Systems (Vol. 34, pp. 16451–16467). Virtual. chicago: Kügelgen, Julius von, Yash Sharma, Luigi Gresele, Wieland Brendel, Bernhard Schölkopf, Michel Besserve, and Francesco Locatello. “Self-Supervised Learning with Data Augmentations Provably Isolates Content from Style.” In Advances in Neural Information Processing Systems, 34:16451–67, 2021. ieee: J. von Kügelgen et al., “Self-supervised learning with data augmentations provably isolates content from style,” in Advances in Neural Information Processing Systems, Virtual, 2021, vol. 34, pp. 16451–16467. ista: 'Kügelgen J von, Sharma Y, Gresele L, Brendel W, Schölkopf B, Besserve M, Locatello F. 2021. Self-supervised learning with data augmentations provably isolates content from style. Advances in Neural Information Processing Systems. NeurIPS: Neural Information Processing Systems vol. 34, 16451–16467.' mla: Kügelgen, Julius von, et al. “Self-Supervised Learning with Data Augmentations Provably Isolates Content from Style.” Advances in Neural Information Processing Systems, vol. 34, 2021, pp. 16451–67. short: J. von Kügelgen, Y. Sharma, L. Gresele, W. Brendel, B. Schölkopf, M. Besserve, F. Locatello, in:, Advances in Neural Information Processing Systems, 2021, pp. 16451–16467. conference: end_date: 2021-12-10 location: Virtual name: 'NeurIPS: Neural Information Processing Systems' start_date: 2021-12-07 date_created: 2023-08-22T14:04:36Z date_published: 2021-06-08T00:00:00Z date_updated: 2023-09-11T10:33:19Z day: '08' department: - _id: FrLo extern: '1' external_id: arxiv: - '2106.04619' intvolume: ' 34' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2106.04619 month: '06' oa: 1 oa_version: Preprint page: 16451-16467 publication: Advances in Neural Information Processing Systems publication_identifier: isbn: - '9781713845393' publication_status: published quality_controlled: '1' status: public title: Self-supervised learning with data augmentations provably isolates content from style type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 34 year: '2021' ... --- _id: '14180' abstract: - lang: eng text: 'Modern neural network architectures can leverage large amounts of data to generalize well within the training distribution. However, they are less capable of systematic generalization to data drawn from unseen but related distributions, a feat that is hypothesized to require compositional reasoning and reuse of knowledge. In this work, we present Neural Interpreters, an architecture that factorizes inference in a self-attention network as a system of modules, which we call \emph{functions}. Inputs to the model are routed through a sequence of functions in a way that is end-to-end learned. The proposed architecture can flexibly compose computation along width and depth, and lends itself well to capacity extension after training. To demonstrate the versatility of Neural Interpreters, we evaluate it in two distinct settings: image classification and visual abstract reasoning on Raven Progressive Matrices. In the former, we show that Neural Interpreters perform on par with the vision transformer using fewer parameters, while being transferrable to a new task in a sample efficient manner. In the latter, we find that Neural Interpreters are competitive with respect to the state-of-the-art in terms of systematic generalization. ' article_processing_charge: No author: - first_name: Nasim full_name: Rahaman, Nasim last_name: Rahaman - first_name: Muhammad Waleed full_name: Gondal, Muhammad Waleed last_name: Gondal - first_name: Shruti full_name: Joshi, Shruti last_name: Joshi - first_name: Peter full_name: Gehler, Peter last_name: Gehler - first_name: Yoshua full_name: Bengio, Yoshua last_name: Bengio - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Bernhard full_name: Schölkopf, Bernhard last_name: Schölkopf citation: ama: 'Rahaman N, Gondal MW, Joshi S, et al. Dynamic inference with neural interpreters. In: Advances in Neural Information Processing Systems. Vol 34. ; 2021:10985-10998.' apa: Rahaman, N., Gondal, M. W., Joshi, S., Gehler, P., Bengio, Y., Locatello, F., & Schölkopf, B. (2021). Dynamic inference with neural interpreters. In Advances in Neural Information Processing Systems (Vol. 34, pp. 10985–10998). Virtual. chicago: Rahaman, Nasim, Muhammad Waleed Gondal, Shruti Joshi, Peter Gehler, Yoshua Bengio, Francesco Locatello, and Bernhard Schölkopf. “Dynamic Inference with Neural Interpreters.” In Advances in Neural Information Processing Systems, 34:10985–98, 2021. ieee: N. Rahaman et al., “Dynamic inference with neural interpreters,” in Advances in Neural Information Processing Systems, Virtual, 2021, vol. 34, pp. 10985–10998. ista: 'Rahaman N, Gondal MW, Joshi S, Gehler P, Bengio Y, Locatello F, Schölkopf B. 2021. Dynamic inference with neural interpreters. Advances in Neural Information Processing Systems. NeurIPS: Neural Information Processing Systems vol. 34, 10985–10998.' mla: Rahaman, Nasim, et al. “Dynamic Inference with Neural Interpreters.” Advances in Neural Information Processing Systems, vol. 34, 2021, pp. 10985–98. short: N. Rahaman, M.W. Gondal, S. Joshi, P. Gehler, Y. Bengio, F. Locatello, B. Schölkopf, in:, Advances in Neural Information Processing Systems, 2021, pp. 10985–10998. conference: end_date: 2021-12-10 location: Virtual name: 'NeurIPS: Neural Information Processing Systems' start_date: 2021-12-07 date_created: 2023-08-22T14:04:55Z date_published: 2021-10-12T00:00:00Z date_updated: 2023-09-11T11:33:46Z day: '12' department: - _id: FrLo extern: '1' external_id: arxiv: - '2110.06399' intvolume: ' 34' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2110.06399 month: '10' oa: 1 oa_version: Preprint page: 10985-10998 publication: Advances in Neural Information Processing Systems publication_identifier: isbn: - '9781713845393' publication_status: published quality_controlled: '1' status: public title: Dynamic inference with neural interpreters type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 34 year: '2021' ... --- _id: '14117' abstract: - lang: eng text: 'The two fields of machine learning and graphical causality arose and are developed separately. However, there is, now, cross-pollination and increasing interest in both fields to benefit from the advances of the other. In this article, we review fundamental concepts of causal inference and relate them to crucial open problems of machine learning, including transfer and generalization, thereby assaying how causality can contribute to modern machine learning research. This also applies in the opposite direction: we note that most work in causality starts from the premise that the causal variables are given. A central problem for AI and causality is, thus, causal representation learning, that is, the discovery of high-level causal variables from low-level observations. Finally, we delineate some implications of causality for machine learning and propose key research areas at the intersection of both communities.' article_processing_charge: No article_type: original author: - first_name: Bernhard full_name: Scholkopf, Bernhard last_name: Scholkopf - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Stefan full_name: Bauer, Stefan last_name: Bauer - first_name: Nan Rosemary full_name: Ke, Nan Rosemary last_name: Ke - first_name: Nal full_name: Kalchbrenner, Nal last_name: Kalchbrenner - first_name: Anirudh full_name: Goyal, Anirudh last_name: Goyal - first_name: Yoshua full_name: Bengio, Yoshua last_name: Bengio citation: ama: Scholkopf B, Locatello F, Bauer S, et al. Toward causal representation learning. Proceedings of the IEEE. 2021;109(5):612-634. doi:10.1109/jproc.2021.3058954 apa: Scholkopf, B., Locatello, F., Bauer, S., Ke, N. R., Kalchbrenner, N., Goyal, A., & Bengio, Y. (2021). Toward causal representation learning. Proceedings of the IEEE. Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/jproc.2021.3058954 chicago: Scholkopf, Bernhard, Francesco Locatello, Stefan Bauer, Nan Rosemary Ke, Nal Kalchbrenner, Anirudh Goyal, and Yoshua Bengio. “Toward Causal Representation Learning.” Proceedings of the IEEE. Institute of Electrical and Electronics Engineers, 2021. https://doi.org/10.1109/jproc.2021.3058954. ieee: B. Scholkopf et al., “Toward causal representation learning,” Proceedings of the IEEE, vol. 109, no. 5. Institute of Electrical and Electronics Engineers, pp. 612–634, 2021. ista: Scholkopf B, Locatello F, Bauer S, Ke NR, Kalchbrenner N, Goyal A, Bengio Y. 2021. Toward causal representation learning. Proceedings of the IEEE. 109(5), 612–634. mla: Scholkopf, Bernhard, et al. “Toward Causal Representation Learning.” Proceedings of the IEEE, vol. 109, no. 5, Institute of Electrical and Electronics Engineers, 2021, pp. 612–34, doi:10.1109/jproc.2021.3058954. short: B. Scholkopf, F. Locatello, S. Bauer, N.R. Ke, N. Kalchbrenner, A. Goyal, Y. Bengio, Proceedings of the IEEE 109 (2021) 612–634. date_created: 2023-08-21T12:19:30Z date_published: 2021-05-01T00:00:00Z date_updated: 2023-09-11T11:43:35Z day: '01' department: - _id: FrLo doi: 10.1109/jproc.2021.3058954 extern: '1' external_id: arxiv: - '2102.11107' intvolume: ' 109' issue: '5' keyword: - Electrical and Electronic Engineering language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1109/JPROC.2021.3058954 month: '05' oa: 1 oa_version: Published Version page: 612-634 publication: Proceedings of the IEEE publication_identifier: eissn: - 1558-2256 issn: - 0018-9219 publication_status: published publisher: Institute of Electrical and Electronics Engineers quality_controlled: '1' scopus_import: '1' status: public title: Toward causal representation learning type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 109 year: '2021' ... --- _id: '14178' abstract: - lang: eng text: Learning meaningful representations that disentangle the underlying structure of the data generating process is considered to be of key importance in machine learning. While disentangled representations were found to be useful for diverse tasks such as abstract reasoning and fair classification, their scalability and real-world impact remain questionable. We introduce a new high-resolution dataset with 1M simulated images and over 1,800 annotated real-world images of the same setup. In contrast to previous work, this new dataset exhibits correlations, a complex underlying structure, and allows to evaluate transfer to unseen simulated and real-world settings where the encoder i) remains in distribution or ii) is out of distribution. We propose new architectures in order to scale disentangled representation learning to realistic high-resolution settings and conduct a large-scale empirical study of disentangled representations on this dataset. We observe that disentanglement is a good predictor for out-of-distribution (OOD) task performance. article_processing_charge: No author: - first_name: Andrea full_name: Dittadi, Andrea last_name: Dittadi - first_name: Frederik full_name: Träuble, Frederik last_name: Träuble - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Manuel full_name: Wüthrich, Manuel last_name: Wüthrich - first_name: Vaibhav full_name: Agrawal, Vaibhav last_name: Agrawal - first_name: Ole full_name: Winther, Ole last_name: Winther - first_name: Stefan full_name: Bauer, Stefan last_name: Bauer - first_name: Bernhard full_name: Schölkopf, Bernhard last_name: Schölkopf citation: ama: 'Dittadi A, Träuble F, Locatello F, et al. On the transfer of disentangled representations in realistic settings. In: The Ninth International Conference on Learning Representations. ; 2021.' apa: Dittadi, A., Träuble, F., Locatello, F., Wüthrich, M., Agrawal, V., Winther, O., … Schölkopf, B. (2021). On the transfer of disentangled representations in realistic settings. In The Ninth International Conference on Learning Representations. Virtual. chicago: Dittadi, Andrea, Frederik Träuble, Francesco Locatello, Manuel Wüthrich, Vaibhav Agrawal, Ole Winther, Stefan Bauer, and Bernhard Schölkopf. “On the Transfer of Disentangled Representations in Realistic Settings.” In The Ninth International Conference on Learning Representations, 2021. ieee: A. Dittadi et al., “On the transfer of disentangled representations in realistic settings,” in The Ninth International Conference on Learning Representations, Virtual, 2021. ista: 'Dittadi A, Träuble F, Locatello F, Wüthrich M, Agrawal V, Winther O, Bauer S, Schölkopf B. 2021. On the transfer of disentangled representations in realistic settings. The Ninth International Conference on Learning Representations. ICLR: International Conference on Learning Representations.' mla: Dittadi, Andrea, et al. “On the Transfer of Disentangled Representations in Realistic Settings.” The Ninth International Conference on Learning Representations, 2021. short: A. Dittadi, F. Träuble, F. Locatello, M. Wüthrich, V. Agrawal, O. Winther, S. Bauer, B. Schölkopf, in:, The Ninth International Conference on Learning Representations, 2021. conference: end_date: 2021-05-07 location: Virtual name: 'ICLR: International Conference on Learning Representations' start_date: 2021-05-03 date_created: 2023-08-22T14:04:16Z date_published: 2021-05-04T00:00:00Z date_updated: 2023-09-11T10:55:30Z day: '04' department: - _id: FrLo extern: '1' external_id: arxiv: - '2010.14407' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2010.14407 month: '05' oa: 1 oa_version: Preprint publication: The Ninth International Conference on Learning Representations publication_status: published quality_controlled: '1' status: public title: On the transfer of disentangled representations in realistic settings type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '14221' abstract: - lang: eng text: 'The world is structured in countless ways. It may be prudent to enforce corresponding structural properties to a learning algorithm''s solution, such as incorporating prior beliefs, natural constraints, or causal structures. Doing so may translate to faster, more accurate, and more flexible models, which may directly relate to real-world impact. In this dissertation, we consider two different research areas that concern structuring a learning algorithm''s solution: when the structure is known and when it has to be discovered.' article_number: '2111.13693' article_processing_charge: No author: - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 citation: ama: Locatello F. Enforcing and discovering structure in machine learning. arXiv. doi:10.48550/arXiv.2111.13693 apa: Locatello, F. (n.d.). Enforcing and discovering structure in machine learning. arXiv. https://doi.org/10.48550/arXiv.2111.13693 chicago: Locatello, Francesco. “Enforcing and Discovering Structure in Machine Learning.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2111.13693. ieee: F. Locatello, “Enforcing and discovering structure in machine learning,” arXiv. . ista: Locatello F. Enforcing and discovering structure in machine learning. arXiv, 2111.13693. mla: Locatello, Francesco. “Enforcing and Discovering Structure in Machine Learning.” ArXiv, 2111.13693, doi:10.48550/arXiv.2111.13693. short: F. Locatello, ArXiv (n.d.). date_created: 2023-08-22T14:23:35Z date_published: 2021-11-26T00:00:00Z date_updated: 2023-09-12T07:04:44Z day: '26' department: - _id: FrLo doi: 10.48550/arXiv.2111.13693 extern: '1' external_id: arxiv: - '2111.13693' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2111.13693 month: '11' oa: 1 oa_version: Preprint publication: arXiv publication_status: submitted status: public title: Enforcing and discovering structure in machine learning type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '14278' abstract: - lang: eng text: 'The Birkhoff conjecture says that the boundary of a strictly convex integrable billiard table is necessarily an ellipse. In this article, we consider a stronger notion of integrability, namely, integrability close to the boundary, and prove a local version of this conjecture: a small perturbation of almost every ellipse that preserves integrability near the boundary, is itself an ellipse. We apply this result to study local spectral rigidity of ellipses using the connection between the wave trace of the Laplacian and the dynamics near the boundary and establish rigidity for almost all of them.' article_number: '2111.12171' article_processing_charge: No author: - first_name: Illya full_name: Koval, Illya id: 2eed1f3b-896a-11ed-bdf8-93c7c4bf159e last_name: Koval citation: ama: Koval I. Local strong Birkhoff conjecture and local spectral rigidity of almost every ellipse. arXiv. doi:10.48550/ARXIV.2111.12171 apa: Koval, I. (n.d.). Local strong Birkhoff conjecture and local spectral rigidity of almost every ellipse. arXiv. https://doi.org/10.48550/ARXIV.2111.12171 chicago: Koval, Illya. “Local Strong Birkhoff Conjecture and Local Spectral Rigidity of Almost Every Ellipse.” ArXiv, n.d. https://doi.org/10.48550/ARXIV.2111.12171. ieee: I. Koval, “Local strong Birkhoff conjecture and local spectral rigidity of almost every ellipse,” arXiv. . ista: Koval I. Local strong Birkhoff conjecture and local spectral rigidity of almost every ellipse. arXiv, 2111.12171. mla: Koval, Illya. “Local Strong Birkhoff Conjecture and Local Spectral Rigidity of Almost Every Ellipse.” ArXiv, 2111.12171, doi:10.48550/ARXIV.2111.12171. short: I. Koval, ArXiv (n.d.). date_created: 2023-09-06T08:35:43Z date_published: 2021-11-23T00:00:00Z date_updated: 2023-09-15T06:44:00Z day: '23' department: - _id: GradSch doi: 10.48550/ARXIV.2111.12171 external_id: arxiv: - '2111.12171' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2111.12171 month: '11' oa: 1 oa_version: Preprint publication: arXiv publication_status: submitted status: public title: Local strong Birkhoff conjecture and local spectral rigidity of almost every ellipse type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '10199' abstract: - lang: eng text: The design and verification of concurrent systems remains an open challenge due to the non-determinism that arises from the inter-process communication. In particular, concurrent programs are notoriously difficult both to be written correctly and to be analyzed formally, as complex thread interaction has to be accounted for. The difficulties are further exacerbated when concurrent programs get executed on modern-day hardware, which contains various buffering and caching mechanisms for efficiency reasons. This causes further subtle non-determinism, which can often produce very unintuitive behavior of the concurrent programs. Model checking is at the forefront of tackling the verification problem, where the task is to decide, given as input a concurrent system and a desired property, whether the system satisfies the property. The inherent state-space explosion problem in model checking of concurrent systems causes naïve explicit methods not to scale, thus more inventive methods are required. One such method is stateless model checking (SMC), which explores in memory-efficient manner the program executions rather than the states of the program. State-of-the-art SMC is typically coupled with partial order reduction (POR) techniques, which argue that certain executions provably produce identical system behavior, thus limiting the amount of executions one needs to explore in order to cover all possible behaviors. Another method to tackle the state-space explosion is symbolic model checking, where the considered techniques operate on a succinct implicit representation of the input system rather than explicitly accessing the system. In this thesis we present new techniques for verification of concurrent systems. We present several novel POR methods for SMC of concurrent programs under various models of semantics, some of which account for write-buffering mechanisms. Additionally, we present novel algorithms for symbolic model checking of finite-state concurrent systems, where the desired property of the systems is to ensure a formally defined notion of fairness. acknowledged_ssus: - _id: SSU alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Viktor full_name: Toman, Viktor id: 3AF3DA7C-F248-11E8-B48F-1D18A9856A87 last_name: Toman orcid: 0000-0001-9036-063X citation: ama: Toman V. Improved verification techniques for concurrent systems. 2021. doi:10.15479/at:ista:10199 apa: Toman, V. (2021). Improved verification techniques for concurrent systems. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:10199 chicago: Toman, Viktor. “Improved Verification Techniques for Concurrent Systems.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:10199. ieee: V. Toman, “Improved verification techniques for concurrent systems,” Institute of Science and Technology Austria, 2021. ista: Toman V. 2021. Improved verification techniques for concurrent systems. Institute of Science and Technology Austria. mla: Toman, Viktor. Improved Verification Techniques for Concurrent Systems. Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:10199. short: V. Toman, Improved Verification Techniques for Concurrent Systems, Institute of Science and Technology Austria, 2021. date_created: 2021-10-29T20:09:01Z date_published: 2021-10-31T00:00:00Z date_updated: 2023-09-19T09:59:54Z day: '31' ddc: - '000' degree_awarded: PhD department: - _id: GradSch - _id: KrCh doi: 10.15479/at:ista:10199 ec_funded: 1 file: - access_level: open_access checksum: 4f412a1ee60952221b499a4b1268df35 content_type: application/pdf creator: vtoman date_created: 2021-11-08T14:12:22Z date_updated: 2021-11-08T14:12:22Z file_id: '10225' file_name: toman_th_final.pdf file_size: 2915234 relation: main_file - access_level: closed checksum: 9584943f99127be2dd2963f6784c37d4 content_type: application/zip creator: vtoman date_created: 2021-11-08T14:12:46Z date_updated: 2021-11-09T09:00:50Z file_id: '10226' file_name: toman_thesis.zip file_size: 8616056 relation: source_file file_date_updated: 2021-11-09T09:00:50Z has_accepted_license: '1' keyword: - concurrency - verification - model checking language: - iso: eng month: '10' oa: 1 oa_version: Published Version page: '166' project: - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: 25F2ACDE-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: S11402-N23 name: Rigorous Systems Engineering - _id: 25892FC0-B435-11E9-9278-68D0E5697425 grant_number: ICT15-003 name: Efficient Algorithms for Computer Aided Verification - _id: 0599E47C-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '863818' name: 'Formal Methods for Stochastic Models: Algorithms and Applications' publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '10190' relation: part_of_dissertation status: public - id: '10191' relation: part_of_dissertation status: public - id: '9987' relation: part_of_dissertation status: public - id: '141' relation: part_of_dissertation status: public status: public supervisor: - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X title: Improved verification techniques for concurrent systems type: dissertation user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 year: '2021' ... --- _id: '8429' abstract: - lang: eng text: We develop a Bayesian model (BayesRR-RC) that provides robust SNP-heritability estimation, an alternative to marker discovery, and accurate genomic prediction, taking 22 seconds per iteration to estimate 8.4 million SNP-effects and 78 SNP-heritability parameters in the UK Biobank. We find that only ≤10% of the genetic variation captured for height, body mass index, cardiovascular disease, and type 2 diabetes is attributable to proximal regulatory regions within 10kb upstream of genes, while 12-25% is attributed to coding regions, 32–44% to introns, and 22-28% to distal 10-500kb upstream regions. Up to 24% of all cis and coding regions of each chromosome are associated with each trait, with over 3,100 independent exonic and intronic regions and over 5,400 independent regulatory regions having ≥95% probability of contributing ≥0.001% to the genetic variance of these four traits. Our open-source software (GMRM) provides a scalable alternative to current approaches for biobank data. acknowledgement: This project was funded by an SNSF Eccellenza Grant to MRR (PCEGP3-181181), and by core funding from the Institute of Science and Technology Austria. We would like to thank the participants of the cohort studies, and the Ecole Polytechnique Federal Lausanne (EPFL) SCITAS for their excellent compute resources, their generosity with their time and the kindness of their support. P.M.V. acknowledges funding from the Australian National Health and Medical Research Council (1113400) and the Australian Research Council (FL180100072). L.R. acknowledges funding from the Kjell & Märta Beijer Foundation (Stockholm, Sweden). We also would like to acknowledge Simone Rubinacci, Oliver Delanau, Alexander Terenin, Eleonora Porcu, and Mike Goddard for their useful comments and suggestions. article_number: '6972' article_processing_charge: No article_type: original author: - first_name: Marion full_name: Patxot, Marion last_name: Patxot - first_name: Daniel full_name: Trejo Banos, Daniel last_name: Trejo Banos - first_name: Athanasios full_name: Kousathanas, Athanasios last_name: Kousathanas - first_name: Etienne J full_name: Orliac, Etienne J last_name: Orliac - first_name: Sven E full_name: Ojavee, Sven E last_name: Ojavee - first_name: Gerhard full_name: Moser, Gerhard last_name: Moser - first_name: Julia full_name: Sidorenko, Julia last_name: Sidorenko - first_name: Zoltan full_name: Kutalik, Zoltan last_name: Kutalik - first_name: Reedik full_name: Magi, Reedik last_name: Magi - first_name: Peter M full_name: Visscher, Peter M last_name: Visscher - first_name: Lars full_name: Ronnegard, Lars last_name: Ronnegard - first_name: Matthew Richard full_name: Robinson, Matthew Richard id: E5D42276-F5DA-11E9-8E24-6303E6697425 last_name: Robinson orcid: 0000-0001-8982-8813 citation: ama: Patxot M, Trejo Banos D, Kousathanas A, et al. Probabilistic inference of the genetic architecture underlying functional enrichment of complex traits. Nature Communications. 2021;12(1). doi:10.1038/s41467-021-27258-9 apa: Patxot, M., Trejo Banos, D., Kousathanas, A., Orliac, E. J., Ojavee, S. E., Moser, G., … Robinson, M. R. (2021). Probabilistic inference of the genetic architecture underlying functional enrichment of complex traits. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-021-27258-9 chicago: Patxot, Marion, Daniel Trejo Banos, Athanasios Kousathanas, Etienne J Orliac, Sven E Ojavee, Gerhard Moser, Julia Sidorenko, et al. “Probabilistic Inference of the Genetic Architecture Underlying Functional Enrichment of Complex Traits.” Nature Communications. Springer Nature, 2021. https://doi.org/10.1038/s41467-021-27258-9. ieee: M. Patxot et al., “Probabilistic inference of the genetic architecture underlying functional enrichment of complex traits,” Nature Communications, vol. 12, no. 1. Springer Nature, 2021. ista: Patxot M, Trejo Banos D, Kousathanas A, Orliac EJ, Ojavee SE, Moser G, Sidorenko J, Kutalik Z, Magi R, Visscher PM, Ronnegard L, Robinson MR. 2021. Probabilistic inference of the genetic architecture underlying functional enrichment of complex traits. Nature Communications. 12(1), 6972. mla: Patxot, Marion, et al. “Probabilistic Inference of the Genetic Architecture Underlying Functional Enrichment of Complex Traits.” Nature Communications, vol. 12, no. 1, 6972, Springer Nature, 2021, doi:10.1038/s41467-021-27258-9. short: M. Patxot, D. Trejo Banos, A. Kousathanas, E.J. Orliac, S.E. Ojavee, G. Moser, J. Sidorenko, Z. Kutalik, R. Magi, P.M. Visscher, L. Ronnegard, M.R. Robinson, Nature Communications 12 (2021). date_created: 2020-09-17T10:52:38Z date_published: 2021-11-30T00:00:00Z date_updated: 2023-09-26T10:36:14Z day: '30' ddc: - '610' department: - _id: MaRo doi: 10.1038/s41467-021-27258-9 external_id: isi: - '000724450600023' file: - access_level: open_access checksum: 384681be17aff902c149a48f52d13d4f content_type: application/pdf creator: cchlebak date_created: 2021-12-06T07:47:11Z date_updated: 2021-12-06T07:47:11Z file_id: '10419' file_name: 2021_NatComm_Paxtot.pdf file_size: 6519771 relation: main_file success: 1 file_date_updated: 2021-12-06T07:47:11Z has_accepted_license: '1' intvolume: ' 12' isi: 1 issue: '1' language: - iso: eng month: '11' oa: 1 oa_version: Published Version publication: Nature Communications publication_identifier: eissn: - 2041-1723 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '13063' relation: research_data status: public scopus_import: '1' status: public title: Probabilistic inference of the genetic architecture underlying functional enrichment of complex traits tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 12 year: '2021' ... --- _id: '10854' abstract: - lang: eng text: "Consider a distributed task where the communication network is fixed but the local inputs given to the nodes of the distributed system may change over time. In this work, we explore the following question: if some of the local inputs change, can an existing solution be updated efficiently, in a dynamic and distributed manner?\r\nTo address this question, we define the batch dynamic CONGEST model in which we are given a bandwidth-limited communication network and a dynamic edge labelling defines the problem input. The task is to maintain a solution to a graph problem on the labelled graph under batch changes. We investigate, when a batch of alpha edge label changes arrive, - how much time as a function of alpha we need to update an existing solution, and - how much information the nodes have to keep in local memory between batches in order to update the solution quickly.\r\nOur work lays the foundations for the theory of input-dynamic distributed network algorithms. We give a general picture of the complexity landscape in this model, design both universal algorithms and algorithms for concrete problems, and present a general framework for lower bounds. The diverse time complexity of our model spans from constant time, through time polynomial in alpha, and to alpha time, which we show to be enough for any task." acknowledgement: We thank Jukka Suomela for discussions. We also thank our shepherd Mohammad Hajiesmaili and the reviewers for their time and suggestions on how to improve the paper. This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 805223 ScaleML), from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska–Curie grant agreement No. 840605, from the Vienna Science and Technology Fund (WWTF) project WHATIF, ICT19-045, 2020-2024, and from the Austrian Science Fund (FWF) and netIDEE SCIENCE project P 33775-N. article_processing_charge: No author: - first_name: Klaus-Tycho full_name: Foerster, Klaus-Tycho last_name: Foerster - first_name: Janne full_name: Korhonen, Janne id: C5402D42-15BC-11E9-A202-CA2BE6697425 last_name: Korhonen - first_name: Ami full_name: Paz, Ami last_name: Paz - first_name: Joel full_name: Rybicki, Joel id: 334EFD2E-F248-11E8-B48F-1D18A9856A87 last_name: Rybicki orcid: 0000-0002-6432-6646 - first_name: Stefan full_name: Schmid, Stefan last_name: Schmid citation: ama: 'Foerster K-T, Korhonen J, Paz A, Rybicki J, Schmid S. Input-dynamic distributed algorithms for communication networks. In: Abstract Proceedings of the 2021 ACM SIGMETRICS / International Conference on Measurement and Modeling of Computer Systems. Association for Computing Machinery; 2021:71-72. doi:10.1145/3410220.3453923' apa: 'Foerster, K.-T., Korhonen, J., Paz, A., Rybicki, J., & Schmid, S. (2021). Input-dynamic distributed algorithms for communication networks. In Abstract Proceedings of the 2021 ACM SIGMETRICS / International Conference on Measurement and Modeling of Computer Systems (pp. 71–72). Virtual, Online: Association for Computing Machinery. https://doi.org/10.1145/3410220.3453923' chicago: Foerster, Klaus-Tycho, Janne Korhonen, Ami Paz, Joel Rybicki, and Stefan Schmid. “Input-Dynamic Distributed Algorithms for Communication Networks.” In Abstract Proceedings of the 2021 ACM SIGMETRICS / International Conference on Measurement and Modeling of Computer Systems, 71–72. Association for Computing Machinery, 2021. https://doi.org/10.1145/3410220.3453923. ieee: K.-T. Foerster, J. Korhonen, A. Paz, J. Rybicki, and S. Schmid, “Input-dynamic distributed algorithms for communication networks,” in Abstract Proceedings of the 2021 ACM SIGMETRICS / International Conference on Measurement and Modeling of Computer Systems, Virtual, Online, 2021, pp. 71–72. ista: 'Foerster K-T, Korhonen J, Paz A, Rybicki J, Schmid S. 2021. Input-dynamic distributed algorithms for communication networks. Abstract Proceedings of the 2021 ACM SIGMETRICS / International Conference on Measurement and Modeling of Computer Systems. SIGMETRICS: International Conference on Measurement and Modeling of Computer Systems, 71–72.' mla: Foerster, Klaus-Tycho, et al. “Input-Dynamic Distributed Algorithms for Communication Networks.” Abstract Proceedings of the 2021 ACM SIGMETRICS / International Conference on Measurement and Modeling of Computer Systems, Association for Computing Machinery, 2021, pp. 71–72, doi:10.1145/3410220.3453923. short: K.-T. Foerster, J. Korhonen, A. Paz, J. Rybicki, S. Schmid, in:, Abstract Proceedings of the 2021 ACM SIGMETRICS / International Conference on Measurement and Modeling of Computer Systems, Association for Computing Machinery, 2021, pp. 71–72. conference: end_date: 2021-06-18 location: Virtual, Online name: 'SIGMETRICS: International Conference on Measurement and Modeling of Computer Systems' start_date: 2021-06-14 date_created: 2022-03-18T08:48:41Z date_published: 2021-05-01T00:00:00Z date_updated: 2023-09-26T10:40:55Z day: '01' department: - _id: DaAl doi: 10.1145/3410220.3453923 ec_funded: 1 external_id: arxiv: - '2005.07637' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2005.07637 month: '05' oa: 1 oa_version: Preprint page: 71-72 project: - _id: 268A44D6-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '805223' name: Elastic Coordination for Scalable Machine Learning - _id: 26A5D39A-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '840605' name: Coordination in constrained and natural distributed systems publication: Abstract Proceedings of the 2021 ACM SIGMETRICS / International Conference on Measurement and Modeling of Computer Systems publication_identifier: isbn: - '9781450380720' publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' related_material: record: - id: '10855' relation: extended_version status: public scopus_import: '1' status: public title: Input-dynamic distributed algorithms for communication networks type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '10855' abstract: - lang: eng text: 'Consider a distributed task where the communication network is fixed but the local inputs given to the nodes of the distributed system may change over time. In this work, we explore the following question: if some of the local inputs change, can an existing solution be updated efficiently, in a dynamic and distributed manner? To address this question, we define the batch dynamic \congest model in which we are given a bandwidth-limited communication network and a dynamic edge labelling defines the problem input. The task is to maintain a solution to a graph problem on the labeled graph under batch changes. We investigate, when a batch of α edge label changes arrive, \beginitemize \item how much time as a function of α we need to update an existing solution, and \item how much information the nodes have to keep in local memory between batches in order to update the solution quickly. \enditemize Our work lays the foundations for the theory of input-dynamic distributed network algorithms. We give a general picture of the complexity landscape in this model, design both universal algorithms and algorithms for concrete problems, and present a general framework for lower bounds. In particular, we derive non-trivial upper bounds for two selected, contrasting problems: maintaining a minimum spanning tree and detecting cliques.' acknowledgement: "We thank Jukka Suomela for discussions. We also thank our shepherd Mohammad Hajiesmaili\r\nand the reviewers for their time and suggestions on how to improve the paper. This project\r\nhas received funding from the European Research Council (ERC) under the European Union’s\r\nHorizon 2020 research and innovation programme (grant agreement No 805223 ScaleML), from the European Union’s Horizon 2020 research and innovation programme under the Marie\r\nSk lodowska–Curie grant agreement No. 840605, from the Vienna Science and Technology Fund (WWTF) project WHATIF, ICT19-045, 2020-2024, and from the Austrian Science Fund (FWF) and netIDEE SCIENCE project P 33775-N." article_processing_charge: No article_type: original author: - first_name: Klaus-Tycho full_name: Foerster, Klaus-Tycho last_name: Foerster - first_name: Janne full_name: Korhonen, Janne id: C5402D42-15BC-11E9-A202-CA2BE6697425 last_name: Korhonen - first_name: Ami full_name: Paz, Ami last_name: Paz - first_name: Joel full_name: Rybicki, Joel id: 334EFD2E-F248-11E8-B48F-1D18A9856A87 last_name: Rybicki orcid: 0000-0002-6432-6646 - first_name: Stefan full_name: Schmid, Stefan last_name: Schmid citation: ama: Foerster K-T, Korhonen J, Paz A, Rybicki J, Schmid S. Input-dynamic distributed algorithms for communication networks. Proceedings of the ACM on Measurement and Analysis of Computing Systems. 2021;5(1):1-33. doi:10.1145/3447384 apa: Foerster, K.-T., Korhonen, J., Paz, A., Rybicki, J., & Schmid, S. (2021). Input-dynamic distributed algorithms for communication networks. Proceedings of the ACM on Measurement and Analysis of Computing Systems. Association for Computing Machinery. https://doi.org/10.1145/3447384 chicago: Foerster, Klaus-Tycho, Janne Korhonen, Ami Paz, Joel Rybicki, and Stefan Schmid. “Input-Dynamic Distributed Algorithms for Communication Networks.” Proceedings of the ACM on Measurement and Analysis of Computing Systems. Association for Computing Machinery, 2021. https://doi.org/10.1145/3447384. ieee: K.-T. Foerster, J. Korhonen, A. Paz, J. Rybicki, and S. Schmid, “Input-dynamic distributed algorithms for communication networks,” Proceedings of the ACM on Measurement and Analysis of Computing Systems, vol. 5, no. 1. Association for Computing Machinery, pp. 1–33, 2021. ista: Foerster K-T, Korhonen J, Paz A, Rybicki J, Schmid S. 2021. Input-dynamic distributed algorithms for communication networks. Proceedings of the ACM on Measurement and Analysis of Computing Systems. 5(1), 1–33. mla: Foerster, Klaus-Tycho, et al. “Input-Dynamic Distributed Algorithms for Communication Networks.” Proceedings of the ACM on Measurement and Analysis of Computing Systems, vol. 5, no. 1, Association for Computing Machinery, 2021, pp. 1–33, doi:10.1145/3447384. short: K.-T. Foerster, J. Korhonen, A. Paz, J. Rybicki, S. Schmid, Proceedings of the ACM on Measurement and Analysis of Computing Systems 5 (2021) 1–33. date_created: 2022-03-18T09:10:27Z date_published: 2021-03-01T00:00:00Z date_updated: 2023-09-26T10:40:55Z day: '01' department: - _id: DaAl doi: 10.1145/3447384 ec_funded: 1 external_id: arxiv: - '2005.07637' intvolume: ' 5' issue: '1' keyword: - Computer Networks and Communications - Hardware and Architecture - Safety - Risk - Reliability and Quality - Computer Science (miscellaneous) language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2005.07637 month: '03' oa: 1 oa_version: Preprint page: 1-33 project: - _id: 26A5D39A-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '840605' name: Coordination in constrained and natural distributed systems - _id: 268A44D6-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '805223' name: Elastic Coordination for Scalable Machine Learning publication: Proceedings of the ACM on Measurement and Analysis of Computing Systems publication_identifier: issn: - 2476-1249 publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' related_material: record: - id: '10854' relation: shorter_version status: public scopus_import: '1' status: public title: Input-dynamic distributed algorithms for communication networks type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 5 year: '2021' ... --- _id: '9293' abstract: - lang: eng text: 'We consider planning problems for graphs, Markov Decision Processes (MDPs), and games on graphs in an explicit state space. While graphs represent the most basic planning model, MDPs represent interaction with nature and games on graphs represent interaction with an adversarial environment. We consider two planning problems with k different target sets: (a) the coverage problem asks whether there is a plan for each individual target set; and (b) the sequential target reachability problem asks whether the targets can be reached in a given sequence. For the coverage problem, we present a linear-time algorithm for graphs, and quadratic conditional lower bound for MDPs and games on graphs. For the sequential target problem, we present a linear-time algorithm for graphs, a sub-quadratic algorithm for MDPs, and a quadratic conditional lower bound for games on graphs. Our results with conditional lower bounds, based on the boolean matrix multiplication (BMM) conjecture and strong exponential time hypothesis (SETH), establish (i) model-separation results showing that for the coverage problem MDPs and games on graphs are harder than graphs, and for the sequential reachability problem games on graphs are harder than MDPs and graphs; and (ii) problem-separation results showing that for MDPs the coverage problem is harder than the sequential target problem.' article_number: '103499' article_processing_charge: No article_type: original author: - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Wolfgang full_name: Dvořák, Wolfgang last_name: Dvořák - first_name: Monika H full_name: Henzinger, Monika H id: 540c9bbd-f2de-11ec-812d-d04a5be85630 last_name: Henzinger orcid: 0000-0002-5008-6530 - first_name: Alexander full_name: Svozil, Alexander last_name: Svozil citation: ama: Chatterjee K, Dvořák W, Henzinger MH, Svozil A. Algorithms and conditional lower bounds for planning problems. Artificial Intelligence. 2021;297(8). doi:10.1016/j.artint.2021.103499 apa: Chatterjee, K., Dvořák, W., Henzinger, M. H., & Svozil, A. (2021). Algorithms and conditional lower bounds for planning problems. Artificial Intelligence. Elsevier. https://doi.org/10.1016/j.artint.2021.103499 chicago: Chatterjee, Krishnendu, Wolfgang Dvořák, Monika H Henzinger, and Alexander Svozil. “Algorithms and Conditional Lower Bounds for Planning Problems.” Artificial Intelligence. Elsevier, 2021. https://doi.org/10.1016/j.artint.2021.103499. ieee: K. Chatterjee, W. Dvořák, M. H. Henzinger, and A. Svozil, “Algorithms and conditional lower bounds for planning problems,” Artificial Intelligence, vol. 297, no. 8. Elsevier, 2021. ista: Chatterjee K, Dvořák W, Henzinger MH, Svozil A. 2021. Algorithms and conditional lower bounds for planning problems. Artificial Intelligence. 297(8), 103499. mla: Chatterjee, Krishnendu, et al. “Algorithms and Conditional Lower Bounds for Planning Problems.” Artificial Intelligence, vol. 297, no. 8, 103499, Elsevier, 2021, doi:10.1016/j.artint.2021.103499. short: K. Chatterjee, W. Dvořák, M.H. Henzinger, A. Svozil, Artificial Intelligence 297 (2021). date_created: 2021-03-28T22:01:40Z date_published: 2021-03-16T00:00:00Z date_updated: 2023-09-26T10:41:42Z day: '16' department: - _id: KrCh doi: 10.1016/j.artint.2021.103499 external_id: arxiv: - '1804.07031' isi: - '000657537500003' intvolume: ' 297' isi: 1 issue: '8' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1804.07031 month: '03' oa: 1 oa_version: Preprint publication: Artificial Intelligence publication_identifier: issn: - 0004-3702 publication_status: published publisher: Elsevier quality_controlled: '1' related_material: record: - id: '35' relation: earlier_version status: public scopus_import: '1' status: public title: Algorithms and conditional lower bounds for planning problems type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 297 year: '2021' ... --- _id: '13063' abstract: - lang: eng text: We develop a Bayesian model (BayesRR-RC) that provides robust SNP-heritability estimation, an alternative to marker discovery, and accurate genomic prediction, taking 22 seconds per iteration to estimate 8.4 million SNP-effects and 78 SNP-heritability parameters in the UK Biobank. We find that only $\leq$ 10\% of the genetic variation captured for height, body mass index, cardiovascular disease, and type 2 diabetes is attributable to proximal regulatory regions within 10kb upstream of genes, while 12-25% is attributed to coding regions, 32-44% to introns, and 22-28% to distal 10-500kb upstream regions. Up to 24% of all cis and coding regions of each chromosome are associated with each trait, with over 3,100 independent exonic and intronic regions and over 5,400 independent regulatory regions having >95% probability of contributing >0.001% to the genetic variance of these four traits. Our open-source software (GMRM) provides a scalable alternative to current approaches for biobank data. article_processing_charge: No author: - first_name: Matthew Richard full_name: Robinson, Matthew Richard id: E5D42276-F5DA-11E9-8E24-6303E6697425 last_name: Robinson orcid: 0000-0001-8982-8813 citation: ama: Robinson MR. Probabilistic inference of the genetic architecture of functional enrichment of complex traits. 2021. doi:10.5061/dryad.sqv9s4n51 apa: Robinson, M. R. (2021). Probabilistic inference of the genetic architecture of functional enrichment of complex traits. Dryad. https://doi.org/10.5061/dryad.sqv9s4n51 chicago: Robinson, Matthew Richard. “Probabilistic Inference of the Genetic Architecture of Functional Enrichment of Complex Traits.” Dryad, 2021. https://doi.org/10.5061/dryad.sqv9s4n51. ieee: M. R. Robinson, “Probabilistic inference of the genetic architecture of functional enrichment of complex traits.” Dryad, 2021. ista: Robinson MR. 2021. Probabilistic inference of the genetic architecture of functional enrichment of complex traits, Dryad, 10.5061/dryad.sqv9s4n51. mla: Robinson, Matthew Richard. Probabilistic Inference of the Genetic Architecture of Functional Enrichment of Complex Traits. Dryad, 2021, doi:10.5061/dryad.sqv9s4n51. short: M.R. Robinson, (2021). date_created: 2023-05-23T16:20:16Z date_published: 2021-11-04T00:00:00Z date_updated: 2023-09-26T10:36:15Z day: '04' ddc: - '570' department: - _id: MaRo doi: 10.5061/dryad.sqv9s4n51 main_file_link: - open_access: '1' url: https://doi.org/10.5061/dryad.sqv9s4n51 month: '11' oa: 1 oa_version: Published Version publisher: Dryad related_material: link: - relation: software url: https://github.com/medical-genomics-group/gmrm record: - id: '8429' relation: used_in_publication status: public status: public title: Probabilistic inference of the genetic architecture of functional enrichment of complex traits tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data_reference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '9304' abstract: - lang: eng text: The high processing cost, poor mechanical properties and moderate performance of Bi2Te3–based alloys used in thermoelectric devices limit the cost-effectiveness of this energy conversion technology. Towards solving these current challenges, in the present work, we detail a low temperature solution-based approach to produce Bi2Te3-Cu2-xTe nanocomposites with improved thermoelectric performance. Our approach consists in combining proper ratios of colloidal nanoparticles and to consolidate the resulting mixture into nanocomposites using a hot press. The transport properties of the nanocomposites are characterized and compared with those of pure Bi2Te3 nanomaterials obtained following the same procedure. In contrast with most previous works, the presence of Cu2-xTe nanodomains does not result in a significant reduction of the lattice thermal conductivity of the reference Bi2Te3 nanomaterial, which is already very low. However, the introduction of Cu2-xTe yields a nearly threefold increase of the power factor associated to a simultaneous increase of the Seebeck coefficient and electrical conductivity at temperatures above 400 K. Taking into account the band alignment of the two materials, we rationalize this increase by considering that Cu2-xTe nanostructures, with a relatively low electron affinity, are able to inject electrons into Bi2Te3, enhancing in this way its electrical conductivity. The simultaneous increase of the Seebeck coefficient is related to the energy filtering of charge carriers at energy barriers within Bi2Te3 domains associated with the accumulation of electrons in regions nearby a Cu2-xTe/Bi2Te3 heterojunction. Overall, with the incorporation of a proper amount of Cu2-xTe nanoparticles, we demonstrate a 250% improvement of the thermoelectric figure of merit of Bi2Te3. acknowledgement: "This work was supported by the European Regional Development Funds and by the Generalitat de Catalunya through the project 2017SGR1246. Y.Z, C.X, M.L, K.X and X.H thank the China Scholarship Council for the scholarship support. MI acknowledges financial support from IST Austria. YL acknowledges funding from the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No. 754411. ICN2\r\nacknowledges funding from Generalitat de Catalunya 2017 SGR 327 and the Spanish MINECO project ENE2017-85087-C3. ICN2 is supported by the Severo Ochoa program from the Spanish MINECO (grant no. SEV-2017-0706) and is funded by the CERCA Program/Generalitat de Catalunya. Part of the present work has been performed in the framework of Universitat Autònoma de Barcelona Materials Science PhD program." article_number: '129374' article_processing_charge: No article_type: original author: - first_name: Yu full_name: Zhang, Yu last_name: Zhang - first_name: Congcong full_name: Xing, Congcong last_name: Xing - first_name: Yu full_name: Liu, Yu id: 2A70014E-F248-11E8-B48F-1D18A9856A87 last_name: Liu orcid: 0000-0001-7313-6740 - first_name: Mengyao full_name: Li, Mengyao last_name: Li - first_name: Ke full_name: Xiao, Ke last_name: Xiao - first_name: Pablo full_name: Guardia, Pablo last_name: Guardia - first_name: Seungho full_name: Lee, Seungho id: BB243B88-D767-11E9-B658-BC13E6697425 last_name: Lee orcid: 0000-0002-6962-8598 - first_name: Xu full_name: Han, Xu last_name: Han - first_name: Ahmad full_name: Moghaddam, Ahmad last_name: Moghaddam - first_name: Joan J full_name: Roa, Joan J last_name: Roa - first_name: Jordi full_name: Arbiol, Jordi last_name: Arbiol - first_name: Maria full_name: Ibáñez, Maria id: 43C61214-F248-11E8-B48F-1D18A9856A87 last_name: Ibáñez orcid: 0000-0001-5013-2843 - first_name: Kai full_name: Pan, Kai last_name: Pan - first_name: Mirko full_name: Prato, Mirko last_name: Prato - first_name: Ying full_name: Xie, Ying last_name: Xie - first_name: Andreu full_name: Cabot, Andreu last_name: Cabot citation: ama: Zhang Y, Xing C, Liu Y, et al. Influence of copper telluride nanodomains on the transport properties of n-type bismuth telluride. Chemical Engineering Journal. 2021;418(8). doi:10.1016/j.cej.2021.129374 apa: Zhang, Y., Xing, C., Liu, Y., Li, M., Xiao, K., Guardia, P., … Cabot, A. (2021). Influence of copper telluride nanodomains on the transport properties of n-type bismuth telluride. Chemical Engineering Journal. Elsevier. https://doi.org/10.1016/j.cej.2021.129374 chicago: Zhang, Yu, Congcong Xing, Yu Liu, Mengyao Li, Ke Xiao, Pablo Guardia, Seungho Lee, et al. “Influence of Copper Telluride Nanodomains on the Transport Properties of N-Type Bismuth Telluride.” Chemical Engineering Journal. Elsevier, 2021. https://doi.org/10.1016/j.cej.2021.129374. ieee: Y. Zhang et al., “Influence of copper telluride nanodomains on the transport properties of n-type bismuth telluride,” Chemical Engineering Journal, vol. 418, no. 8. Elsevier, 2021. ista: Zhang Y, Xing C, Liu Y, Li M, Xiao K, Guardia P, Lee S, Han X, Moghaddam A, Roa JJ, Arbiol J, Ibáñez M, Pan K, Prato M, Xie Y, Cabot A. 2021. Influence of copper telluride nanodomains on the transport properties of n-type bismuth telluride. Chemical Engineering Journal. 418(8), 129374. mla: Zhang, Yu, et al. “Influence of Copper Telluride Nanodomains on the Transport Properties of N-Type Bismuth Telluride.” Chemical Engineering Journal, vol. 418, no. 8, 129374, Elsevier, 2021, doi:10.1016/j.cej.2021.129374. short: Y. Zhang, C. Xing, Y. Liu, M. Li, K. Xiao, P. Guardia, S. Lee, X. Han, A. Moghaddam, J.J. Roa, J. Arbiol, M. Ibáñez, K. Pan, M. Prato, Y. Xie, A. Cabot, Chemical Engineering Journal 418 (2021). date_created: 2021-04-04T22:01:20Z date_published: 2021-08-15T00:00:00Z date_updated: 2023-09-27T07:36:29Z day: '15' department: - _id: MaIb doi: 10.1016/j.cej.2021.129374 ec_funded: 1 external_id: isi: - '000655672000005' intvolume: ' 418' isi: 1 issue: '8' language: - iso: eng main_file_link: - open_access: '1' url: https://ddd.uab.cat/record/271949 month: '08' oa: 1 oa_version: Submitted Version project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: Chemical Engineering Journal publication_identifier: issn: - 1385-8947 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Influence of copper telluride nanodomains on the transport properties of n-type bismuth telluride type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 418 year: '2021' ... --- _id: '9793' abstract: - lang: eng text: Astrocytes extensively infiltrate the neuropil to regulate critical aspects of synaptic development and function. This process is regulated by transcellular interactions between astrocytes and neurons via cell adhesion molecules. How astrocytes coordinate developmental processes among one another to parse out the synaptic neuropil and form non-overlapping territories is unknown. Here we identify a molecular mechanism regulating astrocyte-astrocyte interactions during development to coordinate astrocyte morphogenesis and gap junction coupling. We show that hepaCAM, a disease-linked, astrocyte-enriched cell adhesion molecule, regulates astrocyte competition for territory and morphological complexity in the developing mouse cortex. Furthermore, conditional deletion of Hepacam from developing astrocytes significantly impairs gap junction coupling between astrocytes and disrupts the balance between synaptic excitation and inhibition. Mutations in HEPACAM cause megalencephalic leukoencephalopathy with subcortical cysts in humans. Therefore, our findings suggest that disruption of astrocyte self-organization mechanisms could be an underlying cause of neural pathology. acknowledgement: This work was supported by the National Institutes of Health (R01 DA047258 and R01 NS102237 to C.E., F32 NS100392 to K.T.B.) and the Holland-Trice Brain Research Award (to C.E.). K.T.B. was supported by postdoctoral fellowships from the Foerster-Bernstein Family and The Hartwell Foundation. The Hippenmeyer lab was supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovations program (725780 LinPro) to S.H. R.E. was supported by Ministerio de Ciencia y Tecnología (RTI2018-093493-B-I00). We thank the Duke Light Microscopy Core Facility, the Duke Transgenic Mouse Facility, Dr. U. Schulte for assistance with proteomic experiments, and Dr. D. Silver for critical review of the manuscript. Cartoon elements of figure panels were created using BioRender.com. article_processing_charge: No article_type: original author: - first_name: Katherine T. full_name: Baldwin, Katherine T. last_name: Baldwin - first_name: Christabel X. full_name: Tan, Christabel X. last_name: Tan - first_name: Samuel T. full_name: Strader, Samuel T. last_name: Strader - first_name: Changyu full_name: Jiang, Changyu last_name: Jiang - first_name: Justin T. full_name: Savage, Justin T. last_name: Savage - first_name: Xabier full_name: Elorza-Vidal, Xabier last_name: Elorza-Vidal - first_name: Ximena full_name: Contreras, Ximena id: 475990FE-F248-11E8-B48F-1D18A9856A87 last_name: Contreras - first_name: Thomas full_name: Rülicke, Thomas last_name: Rülicke - first_name: Simon full_name: Hippenmeyer, Simon id: 37B36620-F248-11E8-B48F-1D18A9856A87 last_name: Hippenmeyer orcid: 0000-0003-2279-1061 - first_name: Raúl full_name: Estévez, Raúl last_name: Estévez - first_name: Ru-Rong full_name: Ji, Ru-Rong last_name: Ji - first_name: Cagla full_name: Eroglu, Cagla last_name: Eroglu citation: ama: Baldwin KT, Tan CX, Strader ST, et al. HepaCAM controls astrocyte self-organization and coupling. Neuron. 2021;109(15):2427-2442.e10. doi:10.1016/j.neuron.2021.05.025 apa: Baldwin, K. T., Tan, C. X., Strader, S. T., Jiang, C., Savage, J. T., Elorza-Vidal, X., … Eroglu, C. (2021). HepaCAM controls astrocyte self-organization and coupling. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2021.05.025 chicago: Baldwin, Katherine T., Christabel X. Tan, Samuel T. Strader, Changyu Jiang, Justin T. Savage, Xabier Elorza-Vidal, Ximena Contreras, et al. “HepaCAM Controls Astrocyte Self-Organization and Coupling.” Neuron. Elsevier, 2021. https://doi.org/10.1016/j.neuron.2021.05.025. ieee: K. T. Baldwin et al., “HepaCAM controls astrocyte self-organization and coupling,” Neuron, vol. 109, no. 15. Elsevier, p. 2427–2442.e10, 2021. ista: Baldwin KT, Tan CX, Strader ST, Jiang C, Savage JT, Elorza-Vidal X, Contreras X, Rülicke T, Hippenmeyer S, Estévez R, Ji R-R, Eroglu C. 2021. HepaCAM controls astrocyte self-organization and coupling. Neuron. 109(15), 2427–2442.e10. mla: Baldwin, Katherine T., et al. “HepaCAM Controls Astrocyte Self-Organization and Coupling.” Neuron, vol. 109, no. 15, Elsevier, 2021, p. 2427–2442.e10, doi:10.1016/j.neuron.2021.05.025. short: K.T. Baldwin, C.X. Tan, S.T. Strader, C. Jiang, J.T. Savage, X. Elorza-Vidal, X. Contreras, T. Rülicke, S. Hippenmeyer, R. Estévez, R.-R. Ji, C. Eroglu, Neuron 109 (2021) 2427–2442.e10. date_created: 2021-08-06T09:08:25Z date_published: 2021-08-04T00:00:00Z date_updated: 2023-09-27T07:46:09Z day: '04' department: - _id: SiHi doi: 10.1016/j.neuron.2021.05.025 ec_funded: 1 external_id: isi: - '000692851900010' pmid: - '34171291' intvolume: ' 109' isi: 1 issue: '15' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1016/j.neuron.2021.05.025 month: '08' oa: 1 oa_version: Published Version page: 2427-2442.e10 pmid: 1 project: - _id: 260018B0-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '725780' name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development publication: Neuron publication_identifier: eissn: - 1097-4199 issn: - 0896-6273 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: HepaCAM controls astrocyte self-organization and coupling type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 109 year: '2021' ... --- _id: '9305' abstract: - lang: eng text: Copper chalcogenides are outstanding thermoelectric materials for applications in the medium-high temperature range. Among different chalcogenides, while Cu2−xSe is characterized by higher thermoelectric figures of merit, Cu2−xS provides advantages in terms of low cost and element abundance. In the present work, we investigate the effect of different dopants to enhance the Cu2−xS performance and also its thermal stability. Among the tested options, Pb-doped Cu2−xS shows the highest improvement in stability against sulfur volatilization. Additionally, Pb incorporation allows tuning charge carrier concentration, which enables a significant improvement of the power factor. We demonstrate here that the introduction of an optimal additive amount of just 0.3% results in a threefold increase of the power factor in the middle-temperature range (500–800 K) and a record dimensionless thermoelectric figure of merit above 2 at 880 K. acknowledgement: This work was supported by the European Regional Development Fund and by the Spanish Ministerio de Economía y Competitividad through the project SEHTOP (ENE2016-77798-C4-3-R). MI acknowledges financial support from IST Austria. YL acknowledges funding from the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No. 754411. YZ, CX, XW, KX and TZ thank the China Scholarship Council for the scholarship support. ICN2 acknowledges funding from Generalitat de Catalunya 2017 SGR 327 and the Spanish MINECO project ENE2017-85087-C3. ICN2 is supported by the Severo Ochoa program from the Spanish MINECO (grant no. SEV-2017-0706) and is funded by the CERCA program/Generalitat de Catalunya. Part of the present work has been performed in the framework of Universitat Autònoma de Barcelona Materials Science Ph.D. program. M.C.S. has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 754510 (PROBIST) and the Severo Ochoa programme. P.G. acknowledges financial support from the Spanish government (MICIU) through the RTI2018-102006-J-I00 project and the Catalan Agency of Competitiveness (ACCIO) through the TecnioSpring+ Marie Sklodowska-Curie action TECSPR16-1-0082. YZ and CX contributed equally to this work. article_number: '105991' article_processing_charge: No article_type: original author: - first_name: Yu full_name: Zhang, Yu last_name: Zhang - first_name: Congcong full_name: Xing, Congcong last_name: Xing - first_name: Yu full_name: Liu, Yu id: 2A70014E-F248-11E8-B48F-1D18A9856A87 last_name: Liu orcid: 0000-0001-7313-6740 - first_name: Maria Chiara full_name: Spadaro, Maria Chiara last_name: Spadaro - first_name: Xiang full_name: Wang, Xiang last_name: Wang - first_name: Mengyao full_name: Li, Mengyao last_name: Li - first_name: Ke full_name: Xiao, Ke last_name: Xiao - first_name: Ting full_name: Zhang, Ting last_name: Zhang - first_name: Pablo full_name: Guardia, Pablo last_name: Guardia - first_name: Khak Ho full_name: Lim, Khak Ho last_name: Lim - first_name: Ahmad Ostovari full_name: Moghaddam, Ahmad Ostovari last_name: Moghaddam - first_name: Jordi full_name: Llorca, Jordi last_name: Llorca - first_name: Jordi full_name: Arbiol, Jordi last_name: Arbiol - first_name: Maria full_name: Ibáñez, Maria id: 43C61214-F248-11E8-B48F-1D18A9856A87 last_name: Ibáñez orcid: 0000-0001-5013-2843 - first_name: Andreu full_name: Cabot, Andreu last_name: Cabot citation: ama: Zhang Y, Xing C, Liu Y, et al. Doping-mediated stabilization of copper vacancies to promote thermoelectric properties of Cu2-xS. Nano Energy. 2021;85(7). doi:10.1016/j.nanoen.2021.105991 apa: Zhang, Y., Xing, C., Liu, Y., Spadaro, M. C., Wang, X., Li, M., … Cabot, A. (2021). Doping-mediated stabilization of copper vacancies to promote thermoelectric properties of Cu2-xS. Nano Energy. Elsevier. https://doi.org/10.1016/j.nanoen.2021.105991 chicago: Zhang, Yu, Congcong Xing, Yu Liu, Maria Chiara Spadaro, Xiang Wang, Mengyao Li, Ke Xiao, et al. “Doping-Mediated Stabilization of Copper Vacancies to Promote Thermoelectric Properties of Cu2-XS.” Nano Energy. Elsevier, 2021. https://doi.org/10.1016/j.nanoen.2021.105991. ieee: Y. Zhang et al., “Doping-mediated stabilization of copper vacancies to promote thermoelectric properties of Cu2-xS,” Nano Energy, vol. 85, no. 7. Elsevier, 2021. ista: Zhang Y, Xing C, Liu Y, Spadaro MC, Wang X, Li M, Xiao K, Zhang T, Guardia P, Lim KH, Moghaddam AO, Llorca J, Arbiol J, Ibáñez M, Cabot A. 2021. Doping-mediated stabilization of copper vacancies to promote thermoelectric properties of Cu2-xS. Nano Energy. 85(7), 105991. mla: Zhang, Yu, et al. “Doping-Mediated Stabilization of Copper Vacancies to Promote Thermoelectric Properties of Cu2-XS.” Nano Energy, vol. 85, no. 7, 105991, Elsevier, 2021, doi:10.1016/j.nanoen.2021.105991. short: Y. Zhang, C. Xing, Y. Liu, M.C. Spadaro, X. Wang, M. Li, K. Xiao, T. Zhang, P. Guardia, K.H. Lim, A.O. Moghaddam, J. Llorca, J. Arbiol, M. Ibáñez, A. Cabot, Nano Energy 85 (2021). date_created: 2021-04-04T22:01:21Z date_published: 2021-07-01T00:00:00Z date_updated: 2023-09-27T07:41:00Z day: '01' department: - _id: MaIb doi: 10.1016/j.nanoen.2021.105991 ec_funded: 1 external_id: isi: - '000663442200004' intvolume: ' 85' isi: 1 issue: '7' language: - iso: eng main_file_link: - open_access: '1' url: https://ddd.uab.cat/record/271947 month: '07' oa: 1 oa_version: Submitted Version project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: Nano Energy publication_identifier: issn: - 2211-2855 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Doping-mediated stabilization of copper vacancies to promote thermoelectric properties of Cu2-xS type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 85 year: '2021' ... --- _id: '9212' abstract: - lang: eng text: Plant fitness is largely dependent on the root, the underground organ, which, besides its anchoring function, supplies the plant body with water and all nutrients necessary for growth and development. To exploit the soil effectively, roots must constantly integrate environmental signals and react through adjustment of growth and development. Important components of the root management strategy involve a rapid modulation of the root growth kinetics and growth direction, as well as an increase of the root system radius through formation of lateral roots (LRs). At the molecular level, such a fascinating growth and developmental flexibility of root organ requires regulatory networks that guarantee stability of the developmental program but also allows integration of various environmental inputs. The plant hormone auxin is one of the principal endogenous regulators of root system architecture by controlling primary root growth and formation of LR. In this review, we discuss recent progress in understanding molecular networks where auxin is one of the main players shaping the root system and acting as mediator between endogenous cues and environmental factors. acknowledgement: We apologize to all the authors whose scientific work could not be cited and discussed because of space restrictions. We thank Dr. Inge Verstraeten (ISTAustria) and Dr. Juan Carlos Montesinos-Lopez (ETH Zürich) for helpful suggestions. This work was supported by the DOC Fellowship Programme of the Austrian Academy of Sciences (25008) to C.A. article_number: a039941 article_processing_charge: No article_type: original author: - first_name: Nicola full_name: Cavallari, Nicola id: 457160E6-F248-11E8-B48F-1D18A9856A87 last_name: Cavallari - first_name: Christina full_name: Artner, Christina id: 45DF286A-F248-11E8-B48F-1D18A9856A87 last_name: Artner - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 citation: ama: Cavallari N, Artner C, Benková E. Auxin-regulated lateral root organogenesis. Cold Spring Harbor Perspectives in Biology. 2021;13(7). doi:10.1101/cshperspect.a039941 apa: Cavallari, N., Artner, C., & Benková, E. (2021). Auxin-regulated lateral root organogenesis. Cold Spring Harbor Perspectives in Biology. Cold Spring Harbor Laboratory Press. https://doi.org/10.1101/cshperspect.a039941 chicago: Cavallari, Nicola, Christina Artner, and Eva Benková. “Auxin-Regulated Lateral Root Organogenesis.” Cold Spring Harbor Perspectives in Biology. Cold Spring Harbor Laboratory Press, 2021. https://doi.org/10.1101/cshperspect.a039941. ieee: N. Cavallari, C. Artner, and E. Benková, “Auxin-regulated lateral root organogenesis,” Cold Spring Harbor Perspectives in Biology, vol. 13, no. 7. Cold Spring Harbor Laboratory Press, 2021. ista: Cavallari N, Artner C, Benková E. 2021. Auxin-regulated lateral root organogenesis. Cold Spring Harbor Perspectives in Biology. 13(7), a039941. mla: Cavallari, Nicola, et al. “Auxin-Regulated Lateral Root Organogenesis.” Cold Spring Harbor Perspectives in Biology, vol. 13, no. 7, a039941, Cold Spring Harbor Laboratory Press, 2021, doi:10.1101/cshperspect.a039941. short: N. Cavallari, C. Artner, E. Benková, Cold Spring Harbor Perspectives in Biology 13 (2021). date_created: 2021-03-01T10:08:32Z date_published: 2021-07-01T00:00:00Z date_updated: 2023-09-27T06:44:06Z day: '01' department: - _id: EvBe doi: 10.1101/cshperspect.a039941 external_id: isi: - '000692069100001' pmid: - '33558367' intvolume: ' 13' isi: 1 issue: '7' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1101/cshperspect.a039941 month: '07' oa: 1 oa_version: Published Version pmid: 1 project: - _id: 2685A872-B435-11E9-9278-68D0E5697425 name: Hormonal regulation of plant adaptive responses to environmental signals publication: Cold Spring Harbor Perspectives in Biology publication_identifier: issn: - 1943-0264 publication_status: published publisher: Cold Spring Harbor Laboratory Press quality_controlled: '1' scopus_import: '1' status: public title: Auxin-regulated lateral root organogenesis type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 13 year: '2021' ... --- _id: '9953' abstract: - lang: eng text: Chronic psychological stress is one of the most important triggers and environmental risk factors for neuropsychiatric disorders. Chronic stress can influence all organs via the secretion of stress hormones, including glucocorticoids by the adrenal glands, which coordinate the stress response across the body. In the brain, glucocorticoid receptors (GR) are expressed by various cell types including microglia, which are its resident immune cells regulating stress-induced inflammatory processes. To study the roles of microglial GR under normal homeostatic conditions and following chronic stress, we generated a mouse model in which the GR gene is depleted in microglia specifically at adulthood to prevent developmental confounds. We first confirmed that microglia were depleted in GR in our model in males and females among the cingulate cortex and the hippocampus, both stress-sensitive brain regions. Then, cohorts of microglial-GR depleted and wild-type (WT) adult female mice were housed for 3 weeks in a standard or stressful condition, using a chronic unpredictable mild stress (CUMS) paradigm. CUMS induced stress-related behavior in both microglial-GR depleted and WT animals as demonstrated by a decrease of both saccharine preference and progressive ratio breakpoint. Nevertheless, the hippocampal microglial and neural mechanisms underlying the adaptation to stress occurred differently between the two genotypes. Upon CUMS exposure, microglial morphology was altered in the WT controls, without any apparent effect in microglial-GR depleted mice. Furthermore, in the standard environment condition, GR depleted-microglia showed increased expression of pro-inflammatory genes, and genes involved in microglial homeostatic functions (such as Trem2, Cx3cr1 and Mertk). On the contrary, in CUMS condition, GR depleted-microglia showed reduced expression levels of pro-inflammatory genes and increased neuroprotective as well as anti-inflammatory genes compared to WT-microglia. Moreover, in microglial-GR depleted mice, but not in WT mice, CUMS led to a significant reduction of CA1 long-term potentiation and paired-pulse ratio. Lastly, differences in adult hippocampal neurogenesis were observed between the genotypes during normal homeostatic conditions, with microglial-GR deficiency increasing the formation of newborn neurons in the dentate gyrus subgranular zone independently from stress exposure. Together, these findings indicate that, although the deletion of microglial GR did not prevent the animal’s ability to respond to stress, it contributed to modulating hippocampal functions in both standard and stressful conditions, notably by shaping the microglial response to chronic stress. acknowledgement: We acknowledge that Université Laval stands on the traditional and unceded land of the Huron-Wendat peoples; and that the University of Victoria exists on the territory of the Lekwungen peoples and that the Songhees, Esquimalt and WSÁNEÆ peoples have relationships to this land. We thank Emmanuel Planel for the access to the epifluorescence microscope and Julie-Christine Lévesque at the Bioimaging Platform of CRCHU de Québec-Université Laval for technical assistance. We also thank the Centre for Advanced Materials and Related Technology for the access to the confocal microscope with Airyscan. K.P. was supported by a doctoral scholarship from Fonds de Recherche du Québec – Santé (FRQS), an excellence award from Fondation du CHU de Québec, as well as from Centre Thématique de Recherche en Neurosciences and from Fondation Famille-Choquette. K.B. was supported by excellence scholarships from Université Laval and Fondation du CHU de Québec. S.G. is supported by FIRC-AIRC fellowship for Italy 22329/2018 and by Pilot ARISLA NKINALS 2019. C.W.H. and J.C.S. were supported by postdoctoral fellowships from FRQS. This study was funded by a Natural Sciences and Engineering Research Council of Canada (NSERC) Discovery grant (RGPIN-2014-05308) awarded to M.E.T., by ERANET neuron 2017 MicroSynDep to M.E.T. and I.B., and by the Italian Ministry of Health, grant RF-2018-12367249 to I.B, by PRIN 2017, AIRC 2019 and Ministero della Salute RF2018 to C.L. M.E.T. is a Tier II Canada Research Chair in Neurobiology of Aging and Cognition. article_processing_charge: No article_type: original author: - first_name: Katherine full_name: Picard, Katherine last_name: Picard - first_name: Kanchan full_name: Bisht, Kanchan last_name: Bisht - first_name: Silvia full_name: Poggini, Silvia last_name: Poggini - first_name: Stefano full_name: Garofalo, Stefano last_name: Garofalo - first_name: Maria Teresa full_name: Golia, Maria Teresa last_name: Golia - first_name: Bernadette full_name: Basilico, Bernadette id: 36035796-5ACA-11E9-A75E-7AF2E5697425 last_name: Basilico orcid: 0000-0003-1843-3173 - first_name: Fatima full_name: Abdallah, Fatima last_name: Abdallah - first_name: Naomi full_name: Ciano Albanese, Naomi last_name: Ciano Albanese - first_name: Irmgard full_name: Amrein, Irmgard last_name: Amrein - first_name: Nathalie full_name: Vernoux, Nathalie last_name: Vernoux - first_name: Kaushik full_name: Sharma, Kaushik last_name: Sharma - first_name: Chin Wai full_name: Hui, Chin Wai last_name: Hui - first_name: Julie full_name: C. Savage, Julie last_name: C. Savage - first_name: Cristina full_name: Limatola, Cristina last_name: Limatola - first_name: Davide full_name: Ragozzino, Davide last_name: Ragozzino - first_name: Laura full_name: Maggi, Laura last_name: Maggi - first_name: Igor full_name: Branchi, Igor last_name: Branchi - first_name: Marie Ève full_name: Tremblay, Marie Ève last_name: Tremblay citation: ama: Picard K, Bisht K, Poggini S, et al. Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice. Brain, Behavior, and Immunity. 2021;97:423-439. doi:10.1016/j.bbi.2021.07.022 apa: Picard, K., Bisht, K., Poggini, S., Garofalo, S., Golia, M. T., Basilico, B., … Tremblay, M. È. (2021). Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice. Brain, Behavior, and Immunity. Elsevier. https://doi.org/10.1016/j.bbi.2021.07.022 chicago: Picard, Katherine, Kanchan Bisht, Silvia Poggini, Stefano Garofalo, Maria Teresa Golia, Bernadette Basilico, Fatima Abdallah, et al. “Microglial-Glucocorticoid Receptor Depletion Alters the Response of Hippocampal Microglia and Neurons in a Chronic Unpredictable Mild Stress Paradigm in Female Mice.” Brain, Behavior, and Immunity. Elsevier, 2021. https://doi.org/10.1016/j.bbi.2021.07.022. ieee: K. Picard et al., “Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice,” Brain, Behavior, and Immunity, vol. 97. Elsevier, pp. 423–439, 2021. ista: Picard K, Bisht K, Poggini S, Garofalo S, Golia MT, Basilico B, Abdallah F, Ciano Albanese N, Amrein I, Vernoux N, Sharma K, Hui CW, C. Savage J, Limatola C, Ragozzino D, Maggi L, Branchi I, Tremblay MÈ. 2021. Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice. Brain, Behavior, and Immunity. 97, 423–439. mla: Picard, Katherine, et al. “Microglial-Glucocorticoid Receptor Depletion Alters the Response of Hippocampal Microglia and Neurons in a Chronic Unpredictable Mild Stress Paradigm in Female Mice.” Brain, Behavior, and Immunity, vol. 97, Elsevier, 2021, pp. 423–39, doi:10.1016/j.bbi.2021.07.022. short: K. Picard, K. Bisht, S. Poggini, S. Garofalo, M.T. Golia, B. Basilico, F. Abdallah, N. Ciano Albanese, I. Amrein, N. Vernoux, K. Sharma, C.W. Hui, J. C. Savage, C. Limatola, D. Ragozzino, L. Maggi, I. Branchi, M.È. Tremblay, Brain, Behavior, and Immunity 97 (2021) 423–439. date_created: 2021-08-22T22:01:21Z date_published: 2021-10-01T00:00:00Z date_updated: 2023-10-03T09:49:18Z day: '01' department: - _id: GaNo doi: 10.1016/j.bbi.2021.07.022 external_id: isi: - '000702878400007' pmid: - '34343616' intvolume: ' 97' isi: 1 language: - iso: eng main_file_link: - open_access: '1' url: https://www.zora.uzh.ch/id/eprint/208855/1/ZORA208855.pdf month: '10' oa: 1 oa_version: Submitted Version page: 423-439 pmid: 1 publication: Brain, Behavior, and Immunity publication_identifier: issn: - 0889-1591 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 97 year: '2021' ... --- _id: '10327' abstract: - lang: eng text: Composite materials offer numerous advantages in a wide range of applications, including thermoelectrics. Here, semiconductor–metal composites are produced by just blending nanoparticles of a sulfide semiconductor obtained in aqueous solution and at room temperature with a metallic Cu powder. The obtained blend is annealed in a reducing atmosphere and afterward consolidated into dense polycrystalline pellets through spark plasma sintering (SPS). We observe that, during the annealing process, the presence of metallic copper activates a partial reduction of the PbS, resulting in the formation of PbS–Pb–CuxS composites. The presence of metallic lead during the SPS process habilitates the liquid-phase sintering of the composite. Besides, by comparing the transport properties of PbS, the PbS–Pb–CuxS composites, and PbS–CuxS composites obtained by blending PbS and CuxS nanoparticles, we demonstrate that the presence of metallic lead decisively contributes to a strong increase of the charge carrier concentration through spillover of charge carriers enabled by the low work function of lead. The increase in charge carrier concentration translates into much higher electrical conductivities and moderately lower Seebeck coefficients. These properties translate into power factors up to 2.1 mW m–1 K–2 at ambient temperature, well above those of PbS and PbS + CuxS. Additionally, the presence of multiple phases in the final composite results in a notable decrease in the lattice thermal conductivity. Overall, the introduction of metallic copper in the initial blend results in a significant improvement of the thermoelectric performance of PbS, reaching a dimensionless thermoelectric figure of merit ZT = 1.1 at 750 K, which represents about a 400% increase over bare PbS. Besides, an average ZTave = 0.72 in the temperature range 320–773 K is demonstrated. acknowledgement: This work was supported by the European Regional Development Funds. M.L., Y.Z., X.H., and K.X. thank the China Scholarship Council for scholarship support. M. I. has been financially supported by IST Austria and the Werner Siemens Foundation. Y.L. acknowledges funding from the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No. 754411. J.L. is a Serra Húnter fellow and is grateful to ICREA Academia program and projects MICINN/FEDER RTI2018-093996-B-C31 and GC 2017 SGR 128. ICN2 acknowledges funding from Generalitat de Catalunya 2017 SGR 327 and the Spanish MINECO project NANOGEN (PID2020-116093RB-C43). ICN2 was supported by the Severo Ochoa program from Spanish MINECO (grant no. SEV-2017-0706) and was funded by the CERCA Programme/Generalitat de Catalunya. X.H. thanks China Scholarship Council for scholarship support (201804910551). Part of the present work was performed in the framework of Universitat Autònoma de Barcelona Materials Science Ph.D. program. article_processing_charge: No article_type: original author: - first_name: Mengyao full_name: Li, Mengyao last_name: Li - first_name: Yu full_name: Liu, Yu id: 2A70014E-F248-11E8-B48F-1D18A9856A87 last_name: Liu orcid: 0000-0001-7313-6740 - first_name: Yu full_name: Zhang, Yu last_name: Zhang - first_name: Xu full_name: Han, Xu last_name: Han - first_name: Ke full_name: Xiao, Ke last_name: Xiao - first_name: Mehran full_name: Nabahat, Mehran last_name: Nabahat - first_name: Jordi full_name: Arbiol, Jordi last_name: Arbiol - first_name: Jordi full_name: Llorca, Jordi last_name: Llorca - first_name: Maria full_name: Ibáñez, Maria id: 43C61214-F248-11E8-B48F-1D18A9856A87 last_name: Ibáñez orcid: 0000-0001-5013-2843 - first_name: Andreu full_name: Cabot, Andreu last_name: Cabot citation: ama: Li M, Liu Y, Zhang Y, et al. PbS–Pb–CuxS composites for thermoelectric application. ACS Applied Materials and Interfaces. 2021;13(43):51373–51382. doi:10.1021/acsami.1c15609 apa: Li, M., Liu, Y., Zhang, Y., Han, X., Xiao, K., Nabahat, M., … Cabot, A. (2021). PbS–Pb–CuxS composites for thermoelectric application. ACS Applied Materials and Interfaces. American Chemical Society . https://doi.org/10.1021/acsami.1c15609 chicago: Li, Mengyao, Yu Liu, Yu Zhang, Xu Han, Ke Xiao, Mehran Nabahat, Jordi Arbiol, Jordi Llorca, Maria Ibáñez, and Andreu Cabot. “PbS–Pb–CuxS Composites for Thermoelectric Application.” ACS Applied Materials and Interfaces. American Chemical Society , 2021. https://doi.org/10.1021/acsami.1c15609. ieee: M. Li et al., “PbS–Pb–CuxS composites for thermoelectric application,” ACS Applied Materials and Interfaces, vol. 13, no. 43. American Chemical Society , pp. 51373–51382, 2021. ista: Li M, Liu Y, Zhang Y, Han X, Xiao K, Nabahat M, Arbiol J, Llorca J, Ibáñez M, Cabot A. 2021. PbS–Pb–CuxS composites for thermoelectric application. ACS Applied Materials and Interfaces. 13(43), 51373–51382. mla: Li, Mengyao, et al. “PbS–Pb–CuxS Composites for Thermoelectric Application.” ACS Applied Materials and Interfaces, vol. 13, no. 43, American Chemical Society , 2021, pp. 51373–51382, doi:10.1021/acsami.1c15609. short: M. Li, Y. Liu, Y. Zhang, X. Han, K. Xiao, M. Nabahat, J. Arbiol, J. Llorca, M. Ibáñez, A. Cabot, ACS Applied Materials and Interfaces 13 (2021) 51373–51382. date_created: 2021-11-21T23:01:30Z date_published: 2021-10-19T00:00:00Z date_updated: 2023-10-03T09:55:33Z day: '19' department: - _id: MaIb doi: 10.1021/acsami.1c15609 ec_funded: 1 external_id: isi: - '000715852100070' pmid: - '34665616' intvolume: ' 13' isi: 1 issue: '43' keyword: - CuxS - PbS - energy conversion - nanocomposite - nanoparticle - solution synthesis - thermoelectric language: - iso: eng main_file_link: - open_access: '1' url: https://upcommons.upc.edu/bitstream/2117/363528/1/Pb%20mengyao.pdf month: '10' oa: 1 oa_version: Submitted Version page: 51373–51382 pmid: 1 project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships - _id: 9B8F7476-BA93-11EA-9121-9846C619BF3A name: 'HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery' publication: ACS Applied Materials and Interfaces publication_identifier: eissn: - 1944-8252 issn: - 1944-8244 publication_status: published publisher: 'American Chemical Society ' quality_controlled: '1' scopus_import: '1' status: public title: PbS–Pb–CuxS composites for thermoelectric application type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 13 year: '2021' ... --- _id: '9235' abstract: - lang: eng text: Cu2–xS has become one of the most promising thermoelectric materials for application in the middle-high temperature range. Its advantages include the abundance, low cost, and safety of its elements and a high performance at relatively elevated temperatures. However, stability issues limit its operation current and temperature, thus calling for the optimization of the material performance in the middle temperature range. Here, we present a synthetic protocol for large scale production of covellite CuS nanoparticles at ambient temperature and atmosphere, and using water as a solvent. The crystal phase and stoichiometry of the particles are afterward tuned through an annealing process at a moderate temperature under inert or reducing atmosphere. While annealing under argon results in Cu1.8S nanopowder with a rhombohedral crystal phase, annealing in an atmosphere containing hydrogen leads to tetragonal Cu1.96S. High temperature X-ray diffraction analysis shows the material annealed in argon to transform to the cubic phase at ca. 400 K, while the material annealed in the presence of hydrogen undergoes two phase transitions, first to hexagonal and then to the cubic structure. The annealing atmosphere, temperature, and time allow adjustment of the density of copper vacancies and thus tuning of the charge carrier concentration and material transport properties. In this direction, the material annealed under Ar is characterized by higher electrical conductivities but lower Seebeck coefficients than the material annealed in the presence of hydrogen. By optimizing the charge carrier concentration through the annealing time, Cu2–xS with record figures of merit in the middle temperature range, up to 1.41 at 710 K, is obtained. We finally demonstrate that this strategy, based on a low-cost and scalable solution synthesis process, is also suitable for the production of high performance Cu2–xS layers using high throughput and cost-effective printing technologies. acknowledgement: This work was supported by the European Regional Development Funds. M.Y.L., X.H., T.Z., and K.X. thank the China Scholarship Council for scholarship support. M.I. acknowledges financial support from IST Austria. J.L. acknowledges support from the National Natural Science Foundation of China (No. 22008091), the funding for scientific research startup of Jiangsu University (No. 19JDG044), and Jiangsu Provincial Program for High-Level Innovative and Entrepreneurial Talents Introduction. J.L. is a Serra Húnter fellow and is grateful to the ICREA Academia program and projects MICINN/FEDER RTI2018-093996-B-C31 and GC 2017 SGR 128. ICN2 acknowledges funding from Generalitat de Catalunya 2017 SGR 327 and the Spanish MINECO ENE2017-85087-C3. ICN2 is supported by the Severo Ochoa program from Spanish MINECO (Grant No. SEV-2017-0706) and is funded by the CERCA Programme/Generalitat de Catalunya. Part of the present work has been performed in the framework of Universitat Autònoma de Barcelona Materials Science PhD program. T.Z. has received funding from the CSC-UAB PhD scholarship program. article_processing_charge: No article_type: original author: - first_name: Mengyao full_name: Li, Mengyao last_name: Li - first_name: Yu full_name: Liu, Yu id: 2A70014E-F248-11E8-B48F-1D18A9856A87 last_name: Liu orcid: 0000-0001-7313-6740 - first_name: Yu full_name: Zhang, Yu last_name: Zhang - first_name: Xu full_name: Han, Xu last_name: Han - first_name: Ting full_name: Zhang, Ting last_name: Zhang - first_name: Yong full_name: Zuo, Yong last_name: Zuo - first_name: Chenyang full_name: Xie, Chenyang last_name: Xie - first_name: Ke full_name: Xiao, Ke last_name: Xiao - first_name: Jordi full_name: Arbiol, Jordi last_name: Arbiol - first_name: Jordi full_name: Llorca, Jordi last_name: Llorca - first_name: Maria full_name: Ibáñez, Maria id: 43C61214-F248-11E8-B48F-1D18A9856A87 last_name: Ibáñez orcid: 0000-0001-5013-2843 - first_name: Junfeng full_name: Liu, Junfeng last_name: Liu - first_name: Andreu full_name: Cabot, Andreu last_name: Cabot citation: ama: Li M, Liu Y, Zhang Y, et al. Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide. ACS Nano. 2021;15(3):4967–4978. doi:10.1021/acsnano.0c09866 apa: Li, M., Liu, Y., Zhang, Y., Han, X., Zhang, T., Zuo, Y., … Cabot, A. (2021). Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide. ACS Nano. American Chemical Society . https://doi.org/10.1021/acsnano.0c09866 chicago: Li, Mengyao, Yu Liu, Yu Zhang, Xu Han, Ting Zhang, Yong Zuo, Chenyang Xie, et al. “Effect of the Annealing Atmosphere on Crystal Phase and Thermoelectric Properties of Copper Sulfide.” ACS Nano. American Chemical Society , 2021. https://doi.org/10.1021/acsnano.0c09866. ieee: M. Li et al., “Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide,” ACS Nano, vol. 15, no. 3. American Chemical Society , pp. 4967–4978, 2021. ista: Li M, Liu Y, Zhang Y, Han X, Zhang T, Zuo Y, Xie C, Xiao K, Arbiol J, Llorca J, Ibáñez M, Liu J, Cabot A. 2021. Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide. ACS Nano. 15(3), 4967–4978. mla: Li, Mengyao, et al. “Effect of the Annealing Atmosphere on Crystal Phase and Thermoelectric Properties of Copper Sulfide.” ACS Nano, vol. 15, no. 3, American Chemical Society , 2021, pp. 4967–4978, doi:10.1021/acsnano.0c09866. short: M. Li, Y. Liu, Y. Zhang, X. Han, T. Zhang, Y. Zuo, C. Xie, K. Xiao, J. Arbiol, J. Llorca, M. Ibáñez, J. Liu, A. Cabot, ACS Nano 15 (2021) 4967–4978. date_created: 2021-03-10T20:12:45Z date_published: 2021-03-01T00:00:00Z date_updated: 2023-10-03T09:59:55Z day: '01' department: - _id: MaIb doi: 10.1021/acsnano.0c09866 external_id: isi: - '000634569100106' pmid: - '33645986' intvolume: ' 15' isi: 1 issue: '3' keyword: - General Engineering - General Physics and Astronomy - General Materials Science language: - iso: eng main_file_link: - open_access: '1' url: https://upcommons.upc.edu/bitstream/handle/2117/363528/Pb%20mengyao.pdf?sequence=1&isAllowed=y month: '03' oa: 1 oa_version: Submitted Version page: 4967–4978 pmid: 1 publication: ACS Nano publication_identifier: eissn: - 1936-086X issn: - 1936-0851 publication_status: published publisher: 'American Chemical Society ' quality_controlled: '1' scopus_import: '1' status: public title: Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 15 year: '2021' ... --- _id: '10204' abstract: - lang: eng text: Two common representations of close packings of identical spheres consisting of hexagonal layers, called Barlow stackings, appear abundantly in minerals and metals. These motifs, however, occupy an identical portion of space and bear identical first-order topological signatures as measured by persistent homology. Here we present a novel method based on k-fold covers that unambiguously distinguishes between these patterns. Moreover, our approach provides topological evidence that the FCC motif is the more stable of the two in the context of evolving experimental sphere packings during the transition from disordered to an ordered state. We conclude that our approach can be generalised to distinguish between various Barlow stackings manifested in minerals and metals. acknowledgement: MS acknowledges the support by Australian Research Council funding through the ARC Training Centre for M3D Innovation (IC180100008). MS thanks M. Hanifpour and N. Francois for their input and valuable discussions. This project has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme, grant no. 788183 and from the Wittgenstein Prize, Austrian Science Fund (FWF), grant no. Z 342-N31. article_processing_charge: No article_type: original author: - first_name: Georg F full_name: Osang, Georg F id: 464B40D6-F248-11E8-B48F-1D18A9856A87 last_name: Osang orcid: 0000-0002-8882-5116 - first_name: Herbert full_name: Edelsbrunner, Herbert id: 3FB178DA-F248-11E8-B48F-1D18A9856A87 last_name: Edelsbrunner orcid: 0000-0002-9823-6833 - first_name: Mohammad full_name: Saadatfar, Mohammad last_name: Saadatfar citation: ama: Osang GF, Edelsbrunner H, Saadatfar M. Topological signatures and stability of hexagonal close packing and Barlow stackings. Soft Matter. 2021;17(40):9107-9115. doi:10.1039/d1sm00774b apa: Osang, G. F., Edelsbrunner, H., & Saadatfar, M. (2021). Topological signatures and stability of hexagonal close packing and Barlow stackings. Soft Matter. Royal Society of Chemistry . https://doi.org/10.1039/d1sm00774b chicago: Osang, Georg F, Herbert Edelsbrunner, and Mohammad Saadatfar. “Topological Signatures and Stability of Hexagonal Close Packing and Barlow Stackings.” Soft Matter. Royal Society of Chemistry , 2021. https://doi.org/10.1039/d1sm00774b. ieee: G. F. Osang, H. Edelsbrunner, and M. Saadatfar, “Topological signatures and stability of hexagonal close packing and Barlow stackings,” Soft Matter, vol. 17, no. 40. Royal Society of Chemistry , pp. 9107–9115, 2021. ista: Osang GF, Edelsbrunner H, Saadatfar M. 2021. Topological signatures and stability of hexagonal close packing and Barlow stackings. Soft Matter. 17(40), 9107–9115. mla: Osang, Georg F., et al. “Topological Signatures and Stability of Hexagonal Close Packing and Barlow Stackings.” Soft Matter, vol. 17, no. 40, Royal Society of Chemistry , 2021, pp. 9107–15, doi:10.1039/d1sm00774b. short: G.F. Osang, H. Edelsbrunner, M. Saadatfar, Soft Matter 17 (2021) 9107–9115. date_created: 2021-10-31T23:01:30Z date_published: 2021-10-20T00:00:00Z date_updated: 2023-10-03T09:24:27Z day: '20' ddc: - '540' department: - _id: HeEd doi: 10.1039/d1sm00774b ec_funded: 1 external_id: isi: - '000700090000001' pmid: - '34569592' file: - access_level: open_access checksum: b4da0c420530295e61b153960f6cb350 content_type: application/pdf creator: dernst date_created: 2023-10-03T09:21:42Z date_updated: 2023-10-03T09:21:42Z file_id: '14385' file_name: 2021_SoftMatter_acceptedversion_Osang.pdf file_size: 4678788 relation: main_file success: 1 file_date_updated: 2023-10-03T09:21:42Z has_accepted_license: '1' intvolume: ' 17' isi: 1 issue: '40' language: - iso: eng month: '10' oa: 1 oa_version: Submitted Version page: 9107-9115 pmid: 1 project: - _id: 266A2E9E-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '788183' name: Alpha Shape Theory Extended - _id: 268116B8-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: Z00342 name: The Wittgenstein Prize publication: Soft Matter publication_identifier: eissn: - 1744-6848 issn: - 1744-683X publication_status: published publisher: 'Royal Society of Chemistry ' quality_controlled: '1' scopus_import: '1' status: public title: Topological signatures and stability of hexagonal close packing and Barlow stackings type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 17 year: '2021' ... --- _id: '9605' abstract: - lang: eng text: 'Given a finite set A ⊂ ℝ^d, let Cov_{r,k} denote the set of all points within distance r to at least k points of A. Allowing r and k to vary, we obtain a 2-parameter family of spaces that grow larger when r increases or k decreases, called the multicover bifiltration. Motivated by the problem of computing the homology of this bifiltration, we introduce two closely related combinatorial bifiltrations, one polyhedral and the other simplicial, which are both topologically equivalent to the multicover bifiltration and far smaller than a Čech-based model considered in prior work of Sheehy. Our polyhedral construction is a bifiltration of the rhomboid tiling of Edelsbrunner and Osang, and can be efficiently computed using a variant of an algorithm given by these authors as well. Using an implementation for dimension 2 and 3, we provide experimental results. Our simplicial construction is useful for understanding the polyhedral construction and proving its correctness. ' acknowledgement: The authors want to thank the reviewers for many helpful comments and suggestions. alternative_title: - LIPIcs article_number: '27' article_processing_charge: No author: - first_name: René full_name: Corbet, René last_name: Corbet - first_name: Michael full_name: Kerber, Michael last_name: Kerber - first_name: Michael full_name: Lesnick, Michael last_name: Lesnick - first_name: Georg F full_name: Osang, Georg F id: 464B40D6-F248-11E8-B48F-1D18A9856A87 last_name: Osang orcid: 0000-0002-8882-5116 citation: ama: 'Corbet R, Kerber M, Lesnick M, Osang GF. Computing the multicover bifiltration. In: Leibniz International Proceedings in Informatics. Vol 189. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2021. doi:10.4230/LIPIcs.SoCG.2021.27' apa: 'Corbet, R., Kerber, M., Lesnick, M., & Osang, G. F. (2021). Computing the multicover bifiltration. In Leibniz International Proceedings in Informatics (Vol. 189). Online: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.SoCG.2021.27' chicago: Corbet, René, Michael Kerber, Michael Lesnick, and Georg F Osang. “Computing the Multicover Bifiltration.” In Leibniz International Proceedings in Informatics, Vol. 189. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2021. https://doi.org/10.4230/LIPIcs.SoCG.2021.27. ieee: R. Corbet, M. Kerber, M. Lesnick, and G. F. Osang, “Computing the multicover bifiltration,” in Leibniz International Proceedings in Informatics, Online, 2021, vol. 189. ista: 'Corbet R, Kerber M, Lesnick M, Osang GF. 2021. Computing the multicover bifiltration. Leibniz International Proceedings in Informatics. SoCG: International Symposium on Computational Geometry, LIPIcs, vol. 189, 27.' mla: Corbet, René, et al. “Computing the Multicover Bifiltration.” Leibniz International Proceedings in Informatics, vol. 189, 27, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2021, doi:10.4230/LIPIcs.SoCG.2021.27. short: R. Corbet, M. Kerber, M. Lesnick, G.F. Osang, in:, Leibniz International Proceedings in Informatics, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2021. conference: end_date: 2021-06-11 location: Online name: 'SoCG: International Symposium on Computational Geometry' start_date: 2021-06-07 date_created: 2021-06-27T22:01:49Z date_published: 2021-06-02T00:00:00Z date_updated: 2023-10-04T12:03:39Z day: '02' ddc: - '516' department: - _id: HeEd doi: 10.4230/LIPIcs.SoCG.2021.27 external_id: arxiv: - '2103.07823' file: - access_level: open_access checksum: 0de217501e7ba8b267d58deed0d51761 content_type: application/pdf creator: cziletti date_created: 2021-06-28T12:40:47Z date_updated: 2021-06-28T12:40:47Z file_id: '9610' file_name: 2021_LIPIcs_Corbet.pdf file_size: '1367983' relation: main_file success: 1 file_date_updated: 2021-06-28T12:40:47Z has_accepted_license: '1' intvolume: ' 189' language: - iso: eng month: '06' oa: 1 oa_version: Published Version publication: Leibniz International Proceedings in Informatics publication_identifier: isbn: - '9783959771849' issn: - '18688969' publication_status: published publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik quality_controlled: '1' related_material: link: - relation: extended_version url: https://arxiv.org/abs/2103.07823 record: - id: '12709' relation: later_version status: public scopus_import: '1' status: public title: Computing the multicover bifiltration tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: conference user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425 volume: 189 year: '2021' ... --- _id: '9441' abstract: - lang: eng text: "Isomanifolds are the generalization of isosurfaces to arbitrary dimension and codimension, i.e. submanifolds of ℝ^d defined as the zero set of some multivariate multivalued smooth function f: ℝ^d → ℝ^{d-n}, where n is the intrinsic dimension of the manifold. A natural way to approximate a smooth isomanifold M is to consider its Piecewise-Linear (PL) approximation M̂ based on a triangulation \U0001D4AF of the ambient space ℝ^d. In this paper, we describe a simple algorithm to trace isomanifolds from a given starting point. The algorithm works for arbitrary dimensions n and d, and any precision D. Our main result is that, when f (or M) has bounded complexity, the complexity of the algorithm is polynomial in d and δ = 1/D (and unavoidably exponential in n). Since it is known that for δ = Ω (d^{2.5}), M̂ is O(D²)-close and isotopic to M, our algorithm produces a faithful PL-approximation of isomanifolds of bounded complexity in time polynomial in d. Combining this algorithm with dimensionality reduction techniques, the dependency on d in the size of M̂ can be completely removed with high probability. We also show that the algorithm can handle isomanifolds with boundary and, more generally, isostratifolds. The algorithm for isomanifolds with boundary has been implemented and experimental results are reported, showing that it is practical and can handle cases that are far ahead of the state-of-the-art. " acknowledgement: We thank Dominique Attali, Guilherme de Fonseca, Arijit Ghosh, Vincent Pilaud and Aurélien Alvarez for their comments and suggestions. We also acknowledge the reviewers. alternative_title: - LIPIcs article_processing_charge: No author: - first_name: Jean-Daniel full_name: Boissonnat, Jean-Daniel last_name: Boissonnat - first_name: Siargey full_name: Kachanovich, Siargey last_name: Kachanovich - first_name: Mathijs full_name: Wintraecken, Mathijs id: 307CFBC8-F248-11E8-B48F-1D18A9856A87 last_name: Wintraecken orcid: 0000-0002-7472-2220 citation: ama: 'Boissonnat J-D, Kachanovich S, Wintraecken M. Tracing isomanifolds in Rd in time polynomial in d using Coxeter-Freudenthal-Kuhn triangulations. In: 37th International Symposium on Computational Geometry (SoCG 2021). Vol 189. Leibniz International Proceedings in Informatics (LIPIcs). Dagstuhl, Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2021:17:1-17:16. doi:10.4230/LIPIcs.SoCG.2021.17' apa: 'Boissonnat, J.-D., Kachanovich, S., & Wintraecken, M. (2021). Tracing isomanifolds in Rd in time polynomial in d using Coxeter-Freudenthal-Kuhn triangulations. In 37th International Symposium on Computational Geometry (SoCG 2021) (Vol. 189, p. 17:1-17:16). Dagstuhl, Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.SoCG.2021.17' chicago: 'Boissonnat, Jean-Daniel, Siargey Kachanovich, and Mathijs Wintraecken. “Tracing Isomanifolds in Rd in Time Polynomial in d Using Coxeter-Freudenthal-Kuhn Triangulations.” In 37th International Symposium on Computational Geometry (SoCG 2021), 189:17:1-17:16. Leibniz International Proceedings in Informatics (LIPIcs). Dagstuhl, Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2021. https://doi.org/10.4230/LIPIcs.SoCG.2021.17.' ieee: J.-D. Boissonnat, S. Kachanovich, and M. Wintraecken, “Tracing isomanifolds in Rd in time polynomial in d using Coxeter-Freudenthal-Kuhn triangulations,” in 37th International Symposium on Computational Geometry (SoCG 2021), Virtual, 2021, vol. 189, p. 17:1-17:16. ista: 'Boissonnat J-D, Kachanovich S, Wintraecken M. 2021. Tracing isomanifolds in Rd in time polynomial in d using Coxeter-Freudenthal-Kuhn triangulations. 37th International Symposium on Computational Geometry (SoCG 2021). SoCG: Symposium on Computational GeometryLeibniz International Proceedings in Informatics (LIPIcs), LIPIcs, vol. 189, 17:1-17:16.' mla: Boissonnat, Jean-Daniel, et al. “Tracing Isomanifolds in Rd in Time Polynomial in d Using Coxeter-Freudenthal-Kuhn Triangulations.” 37th International Symposium on Computational Geometry (SoCG 2021), vol. 189, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2021, p. 17:1-17:16, doi:10.4230/LIPIcs.SoCG.2021.17. short: J.-D. Boissonnat, S. Kachanovich, M. Wintraecken, in:, 37th International Symposium on Computational Geometry (SoCG 2021), Schloss Dagstuhl - Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2021, p. 17:1-17:16. conference: end_date: 2021-06-11 location: Virtual name: 'SoCG: Symposium on Computational Geometry' start_date: 2021-06-07 date_created: 2021-06-02T10:10:55Z date_published: 2021-06-02T00:00:00Z date_updated: 2023-10-10T07:34:34Z day: '02' ddc: - '005' - '516' - '514' department: - _id: HeEd doi: 10.4230/LIPIcs.SoCG.2021.17 ec_funded: 1 file: - access_level: open_access checksum: c322aa48d5d35a35877896cc565705b6 content_type: application/pdf creator: mwintrae date_created: 2021-06-02T10:22:33Z date_updated: 2021-06-02T10:22:33Z file_id: '9442' file_name: LIPIcs-SoCG-2021-17.pdf file_size: 1972902 relation: main_file success: 1 file_date_updated: 2021-06-02T10:22:33Z has_accepted_license: '1' intvolume: ' 189' language: - iso: eng month: '06' oa: 1 oa_version: Published Version page: 17:1-17:16 place: Dagstuhl, Germany project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: 37th International Symposium on Computational Geometry (SoCG 2021) publication_identifier: isbn: - 978-3-95977-184-9 issn: - 1868-8969 publication_status: published publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik quality_controlled: '1' related_material: record: - id: '12960' relation: later_version status: public series_title: Leibniz International Proceedings in Informatics (LIPIcs) status: public title: Tracing isomanifolds in Rd in time polynomial in d using Coxeter-Freudenthal-Kuhn triangulations tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: conference user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425 volume: 189 year: '2021' ... --- _id: '9393' abstract: - lang: eng text: "We consider the core algorithmic problems related to verification of systems with respect to three classical quantitative properties, namely, the mean-payoff, the ratio, and the minimum initial credit for energy property. The algorithmic problem given a graph and a quantitative property asks to compute the optimal value (the infimum value over all traces) from every node of the graph. We consider graphs with bounded treewidth—a class that contains the control flow graphs of most programs. Let n denote the number of nodes of a graph, m the number of edges (for bounded treewidth \U0001D45A=\U0001D442(\U0001D45B)) and W the largest absolute value of the weights. Our main theoretical results are as follows. First, for the minimum initial credit problem we show that (1) for general graphs the problem can be solved in \U0001D442(\U0001D45B2⋅\U0001D45A) time and the associated decision problem in \U0001D442(\U0001D45B⋅\U0001D45A) time, improving the previous known \U0001D442(\U0001D45B3⋅\U0001D45A⋅log(\U0001D45B⋅\U0001D44A)) and \U0001D442(\U0001D45B2⋅\U0001D45A) bounds, respectively; and (2) for bounded treewidth graphs we present an algorithm that requires \U0001D442(\U0001D45B⋅log\U0001D45B) time. Second, for bounded treewidth graphs we present an algorithm that approximates the mean-payoff value within a factor of 1+\U0001D716 in time \U0001D442(\U0001D45B⋅log(\U0001D45B/\U0001D716)) as compared to the classical exact algorithms on general graphs that require quadratic time. Third, for the ratio property we present an algorithm that for bounded treewidth graphs works in time \U0001D442(\U0001D45B⋅log(|\U0001D44E⋅\U0001D44F|))=\U0001D442(\U0001D45B⋅log(\U0001D45B⋅\U0001D44A)), when the output is \U0001D44E\U0001D44F, as compared to the previously best known algorithm on general graphs with running time \U0001D442(\U0001D45B2⋅log(\U0001D45B⋅\U0001D44A)). We have implemented some of our algorithms and show that they present a significant speedup on standard benchmarks." acknowledgement: 'The research was partly supported by Austrian Science Fund (FWF) Grant No P23499- N23, FWF NFN Grant No S11407-N23 (RiSE/SHiNE), ERC Start Grant (279307: Graph Games), and Microsoft faculty fellows award.' article_processing_charge: No article_type: original author: - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Rasmus full_name: Ibsen-Jensen, Rasmus id: 3B699956-F248-11E8-B48F-1D18A9856A87 last_name: Ibsen-Jensen orcid: 0000-0003-4783-0389 - first_name: Andreas full_name: Pavlogiannis, Andreas id: 49704004-F248-11E8-B48F-1D18A9856A87 last_name: Pavlogiannis orcid: 0000-0002-8943-0722 citation: ama: Chatterjee K, Ibsen-Jensen R, Pavlogiannis A. Faster algorithms for quantitative verification in bounded treewidth graphs. Formal Methods in System Design. 2021;57:401-428. doi:10.1007/s10703-021-00373-5 apa: Chatterjee, K., Ibsen-Jensen, R., & Pavlogiannis, A. (2021). Faster algorithms for quantitative verification in bounded treewidth graphs. Formal Methods in System Design. Springer. https://doi.org/10.1007/s10703-021-00373-5 chicago: Chatterjee, Krishnendu, Rasmus Ibsen-Jensen, and Andreas Pavlogiannis. “Faster Algorithms for Quantitative Verification in Bounded Treewidth Graphs.” Formal Methods in System Design. Springer, 2021. https://doi.org/10.1007/s10703-021-00373-5. ieee: K. Chatterjee, R. Ibsen-Jensen, and A. Pavlogiannis, “Faster algorithms for quantitative verification in bounded treewidth graphs,” Formal Methods in System Design, vol. 57. Springer, pp. 401–428, 2021. ista: Chatterjee K, Ibsen-Jensen R, Pavlogiannis A. 2021. Faster algorithms for quantitative verification in bounded treewidth graphs. Formal Methods in System Design. 57, 401–428. mla: Chatterjee, Krishnendu, et al. “Faster Algorithms for Quantitative Verification in Bounded Treewidth Graphs.” Formal Methods in System Design, vol. 57, Springer, 2021, pp. 401–28, doi:10.1007/s10703-021-00373-5. short: K. Chatterjee, R. Ibsen-Jensen, A. Pavlogiannis, Formal Methods in System Design 57 (2021) 401–428. date_created: 2021-05-16T22:01:47Z date_published: 2021-09-01T00:00:00Z date_updated: 2023-10-10T11:13:20Z day: '01' department: - _id: KrCh doi: 10.1007/s10703-021-00373-5 ec_funded: 1 external_id: arxiv: - '1504.07384' isi: - '000645490300001' intvolume: ' 57' isi: 1 language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1504.07384 month: '09' oa: 1 oa_version: Preprint page: 401-428 project: - _id: 2584A770-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: P 23499-N23 name: Modern Graph Algorithmic Techniques in Formal Verification - _id: 25832EC2-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: S 11407_N23 name: Rigorous Systems Engineering - _id: 2581B60A-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '279307' name: 'Quantitative Graph Games: Theory and Applications' - _id: 2587B514-B435-11E9-9278-68D0E5697425 name: Microsoft Research Faculty Fellowship publication: Formal Methods in System Design publication_identifier: eissn: - 1572-8102 issn: - 0925-9856 publication_status: published publisher: Springer quality_controlled: '1' scopus_import: '1' status: public title: Faster algorithms for quantitative verification in bounded treewidth graphs type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 57 year: '2021' ... --- _id: '10365' abstract: - lang: eng text: The early development of many organisms involves the folding of cell monolayers, but this behaviour is difficult to reproduce in vitro; therefore, both mechanistic causes and effects of local curvature remain unclear. Here we study epithelial cell monolayers on corrugated hydrogels engineered into wavy patterns, examining how concave and convex curvatures affect cellular and nuclear shape. We find that substrate curvature affects monolayer thickness, which is larger in valleys than crests. We show that this feature generically arises in a vertex model, leading to the hypothesis that cells may sense curvature by modifying the thickness of the tissue. We find that local curvature also affects nuclear morphology and positioning, which we explain by extending the vertex model to take into account membrane–nucleus interactions, encoding thickness modulation in changes to nuclear deformation and position. We propose that curvature governs the spatial distribution of yes-associated proteins via nuclear shape and density changes. We show that curvature also induces significant variations in lamins, chromatin condensation and cell proliferation rate in folded epithelial tissues. Together, this work identifies active cell mechanics and nuclear mechanoadaptation as the key players of the mechanistic regulation of epithelia to substrate curvature. acknowledgement: S.G. acknowledges funding from FEDER Prostem Research Project no. 1510614 (Wallonia DG06), F.R.S.-FNRS Epiforce Research Project no. T.0092.21 and Interreg MAT(T)ISSE project, which is financially supported by Interreg France-Wallonie-Vlaanderen (Fonds Européen de Développement Régional, FEDER-ERDF). This project was supported by the European Research Council under the European Union’s Horizon 2020 Research and Innovation Programme grant agreement 851288 (to E.H.), and by the Austrian Science Fund (FWF) (P 31639; to E.H.). L.R.M. acknowledges funding from the Agence National de la Recherche (ANR), as part of the ‘Investments d’Avenir’ Programme (I-SITE ULNE/ANR-16-IDEX-0004 ULNE). This work benefited from ANR-10-EQPX-04-01 and FEDER 12001407 grants to F.L. W.D.V. is supported by the Research Foundation Flanders (FWO 1516619N, FWO GOO5819N, FWO I003420N, FWO IRI I000321N) and is member of the Research Excellence Consortium µNEURO at the University of Antwerp. M.L. is financially supported by FRIA (F.R.S.-FNRS). M.S. is a Senior Research Associate of the Fund for Scientific Research (F.R.S.-FNRS) and acknowledges EOS grant no. 30650939 (PRECISION). Sketches in Figs. 1a and 5e and Extended Data Fig. 9 were drawn by C. Levicek. article_processing_charge: No article_type: original author: - first_name: Marine full_name: Luciano, Marine last_name: Luciano - first_name: Shi-lei full_name: Xue, Shi-lei id: 31D2C804-F248-11E8-B48F-1D18A9856A87 last_name: Xue - first_name: Winnok H. full_name: De Vos, Winnok H. last_name: De Vos - first_name: Lorena full_name: Redondo-Morata, Lorena last_name: Redondo-Morata - first_name: Mathieu full_name: Surin, Mathieu last_name: Surin - first_name: Frank full_name: Lafont, Frank last_name: Lafont - first_name: Edouard B full_name: Hannezo, Edouard B id: 3A9DB764-F248-11E8-B48F-1D18A9856A87 last_name: Hannezo orcid: 0000-0001-6005-1561 - first_name: Sylvain full_name: Gabriele, Sylvain last_name: Gabriele citation: ama: Luciano M, Xue S, De Vos WH, et al. Cell monolayers sense curvature by exploiting active mechanics and nuclear mechanoadaptation. Nature Physics. 2021;17(12):1382–1390. doi:10.1038/s41567-021-01374-1 apa: Luciano, M., Xue, S., De Vos, W. H., Redondo-Morata, L., Surin, M., Lafont, F., … Gabriele, S. (2021). Cell monolayers sense curvature by exploiting active mechanics and nuclear mechanoadaptation. Nature Physics. Springer Nature. https://doi.org/10.1038/s41567-021-01374-1 chicago: Luciano, Marine, Shi-lei Xue, Winnok H. De Vos, Lorena Redondo-Morata, Mathieu Surin, Frank Lafont, Edouard B Hannezo, and Sylvain Gabriele. “Cell Monolayers Sense Curvature by Exploiting Active Mechanics and Nuclear Mechanoadaptation.” Nature Physics. Springer Nature, 2021. https://doi.org/10.1038/s41567-021-01374-1. ieee: M. Luciano et al., “Cell monolayers sense curvature by exploiting active mechanics and nuclear mechanoadaptation,” Nature Physics, vol. 17, no. 12. Springer Nature, pp. 1382–1390, 2021. ista: Luciano M, Xue S, De Vos WH, Redondo-Morata L, Surin M, Lafont F, Hannezo EB, Gabriele S. 2021. Cell monolayers sense curvature by exploiting active mechanics and nuclear mechanoadaptation. Nature Physics. 17(12), 1382–1390. mla: Luciano, Marine, et al. “Cell Monolayers Sense Curvature by Exploiting Active Mechanics and Nuclear Mechanoadaptation.” Nature Physics, vol. 17, no. 12, Springer Nature, 2021, pp. 1382–1390, doi:10.1038/s41567-021-01374-1. short: M. Luciano, S. Xue, W.H. De Vos, L. Redondo-Morata, M. Surin, F. Lafont, E.B. Hannezo, S. Gabriele, Nature Physics 17 (2021) 1382–1390. date_created: 2021-11-28T23:01:29Z date_published: 2021-11-18T00:00:00Z date_updated: 2023-10-16T06:31:54Z day: '18' ddc: - '530' department: - _id: EdHa doi: 10.1038/s41567-021-01374-1 ec_funded: 1 external_id: isi: - '000720204300004' file: - access_level: open_access checksum: 5d6d76750a71d7cb632bb15417c38ef7 content_type: application/pdf creator: channezo date_created: 2023-10-11T09:31:43Z date_updated: 2023-10-11T09:31:43Z file_id: '14420' file_name: 50145_4_merged_1630498627.pdf file_size: 40285498 relation: main_file success: 1 file_date_updated: 2023-10-11T09:31:43Z has_accepted_license: '1' intvolume: ' 17' isi: 1 issue: '12' language: - iso: eng month: '11' oa: 1 oa_version: Submitted Version page: 1382–1390 project: - _id: 05943252-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '851288' name: Design Principles of Branching Morphogenesis - _id: 268294B6-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: P31639 name: Active mechano-chemical description of the cell cytoskeleton publication: Nature Physics publication_identifier: eissn: - 1745-2481 issn: - 1745-2473 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: link: - description: News on IST Webpage relation: press_release url: https://ist.ac.at/en/news/how-cells-feel-curvature/ scopus_import: '1' status: public title: Cell monolayers sense curvature by exploiting active mechanics and nuclear mechanoadaptation type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 17 year: '2021' ...