--- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '19735' abstract: - lang: eng text: The males and females of the brine shrimp Artemia franciscana are highly dimorphic, and this dimorphism is associated with substantial sex-biased gene expression in heads and gonads. How these sex-specific patterns of expression are regulated at the molecular level is unknown. A. franciscana also has differentiated ZW sex chromosomes, with complete dosage compensation, but the molecular mechanism through which compensation is achieved is unknown. Here, we conducted CUT&TAG assays targeting 7 post-translational histone modifications (H3K27me3, H3K9me2, H3K9me3, H3K36me3, H3K27ac, H3K4me3, and H4K16ac) in heads and gonads of A. franciscana, allowing us to divide the genome into 12 chromatin states. We further defined functional chromatin signatures for all genes, which were correlated with transcript level abundances. Differences in the occupancy of the profiled epigenetic marks between sexes were associated with differential gene expression between males and females. Finally, we found a significant enrichment of the permissive H4K16ac histone mark in the Z-specific region in both tissues of females but not males, supporting the role of this histone mark in mediating dosage compensation of the Z chromosome. acknowledged_ssus: - _id: ScienComp acknowledgement: We thank the Vicoso lab for their help in maintaining Artemia and for their valuable feedback and suggestions. We thank Marwan Elkrewi for his useful technical advice and discussions. We are also grateful to the Scientific Unit at ISTA Austria for computational resources and assistance. This work was supported by Austrian science fund (FWF) grants PAT8748323 and SFB F88-10 (as part of the SFB Meiosis consortium https://sfbmeiosis.org) to BV and Swedish Research Council (Vetenskapsrådet, grant number 2020-06424) to MSTA. article_number: msaf085 article_processing_charge: Yes article_type: original author: - first_name: Vincent K full_name: Bett, Vincent K id: 57854184-AAE0-11E9-8D04-98D6E5697425 last_name: Bett - first_name: Minerva S full_name: Trejo Arellano, Minerva S id: 2b681148-eed5-11eb-b81b-ae229e8620f8 last_name: Trejo Arellano orcid: 0000-0002-1982-3475 - first_name: Beatriz full_name: Vicoso, Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 citation: ama: Bett VK, Trejo Arellano MS, Vicoso B. Chromatin landscape is associated with sex-biased expression and Drosophila-like dosage compensation of the Z chromosome in Artemia franciscana. Molecular Biology and Evolution. 2025;42(5). doi:10.1093/molbev/msaf085 apa: Bett, V. K., Trejo Arellano, M. S., & Vicoso, B. (2025). Chromatin landscape is associated with sex-biased expression and Drosophila-like dosage compensation of the Z chromosome in Artemia franciscana. Molecular Biology and Evolution. Oxford University Press. https://doi.org/10.1093/molbev/msaf085 chicago: Bett, Vincent K, Minerva S Trejo Arellano, and Beatriz Vicoso. “Chromatin Landscape Is Associated with Sex-Biased Expression and Drosophila-like Dosage Compensation of the Z Chromosome in Artemia Franciscana.” Molecular Biology and Evolution. Oxford University Press, 2025. https://doi.org/10.1093/molbev/msaf085. ieee: V. K. Bett, M. S. Trejo Arellano, and B. Vicoso, “Chromatin landscape is associated with sex-biased expression and Drosophila-like dosage compensation of the Z chromosome in Artemia franciscana,” Molecular Biology and Evolution, vol. 42, no. 5. Oxford University Press, 2025. ista: Bett VK, Trejo Arellano MS, Vicoso B. 2025. Chromatin landscape is associated with sex-biased expression and Drosophila-like dosage compensation of the Z chromosome in Artemia franciscana. Molecular Biology and Evolution. 42(5), msaf085. mla: Bett, Vincent K., et al. “Chromatin Landscape Is Associated with Sex-Biased Expression and Drosophila-like Dosage Compensation of the Z Chromosome in Artemia Franciscana.” Molecular Biology and Evolution, vol. 42, no. 5, msaf085, Oxford University Press, 2025, doi:10.1093/molbev/msaf085. short: V.K. Bett, M.S. Trejo Arellano, B. Vicoso, Molecular Biology and Evolution 42 (2025). corr_author: '1' date_created: 2025-05-25T22:16:56Z date_published: 2025-05-01T00:00:00Z date_updated: 2026-10-07T22:31:24Z day: '01' ddc: - '570' department: - _id: BeVi - _id: DaZi doi: 10.1093/molbev/msaf085 external_id: isi: - '001483460200001' pmid: - '40202086' file: - access_level: open_access checksum: 6c14b03f94b4aadf8869be2c4366d077 content_type: application/pdf creator: dernst date_created: 2025-05-28T09:34:36Z date_updated: 2025-05-28T09:34:36Z file_id: '19756' file_name: 2025_MBE_Bett.pdf file_size: 1282772 relation: main_file success: 1 file_date_updated: 2025-05-28T09:34:36Z fulldoi: https://doi.org/10.1093/molbev/msaf085 has_accepted_license: '1' intvolume: ' 42' isi: 1 issue: '5' language: - iso: eng license: https://creativecommons.org/licenses/by/4.0/ month: '05' oa: 1 oa_version: Published Version pmid: 1 project: - _id: 8ed82125-16d5-11f0-9cad-fbcae312235b grant_number: PAT 8748323 name: Sex chromosomes in evolution and development - _id: 34ae1506-11ca-11ed-8bc3-c14f4c474396 grant_number: F8810 name: The highjacking of meiosis for asexual reproduction publication: Molecular Biology and Evolution publication_identifier: eissn: - 1537-1719 issn: - 0737-4038 publication_status: published publisher: Oxford University Press quality_controlled: '1' related_material: link: - relation: software url: https://github.com/vkb25/Chromatin-landscape-in-Artemia-franciscana.git record: - id: '20449' relation: dissertation_contains status: public - id: '20444' relation: dissertation_contains status: deleted scopus_import: '1' status: public title: Chromatin landscape is associated with sex-biased expression and Drosophila-like dosage compensation of the Z chromosome in Artemia franciscana 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: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 42 year: '2025' ... --- OA_place: publisher _id: '20357' acknowledged_ssus: - _id: ScienComp - _id: E-Lib acknowledgement: "I would also like to acknowledge the Austrian Academy of Sciences for funding through the\r\nDOC Fellowship program (fellowship number 26917), the Grants Office at ISTA for their\r\nassistance with the application, and the Scientific Computing Unit for their support regarding\r\nhigh-performance computation.\r\n" alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Natalia full_name: Ruzickova, Natalia id: D2761128-D73D-11E9-A1BF-BA0DE6697425 last_name: Ruzickova citation: ama: Ruzickova N. Effect propagation in biological networks. 2025. doi:10.15479/AT-ISTA-20357 apa: Ruzickova, N. (2025). Effect propagation in biological networks. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20357 chicago: Ruzickova, Natalia. “Effect Propagation in Biological Networks.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20357. ieee: N. Ruzickova, “Effect propagation in biological networks,” Institute of Science and Technology Austria, 2025. ista: Ruzickova N. 2025. Effect propagation in biological networks. Institute of Science and Technology Austria. mla: Ruzickova, Natalia. Effect Propagation in Biological Networks. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20357. short: N. Ruzickova, Effect Propagation in Biological Networks, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-09-15T17:04:48Z date_published: 2025-09-15T00:00:00Z date_updated: 2026-10-02T10:15:31Z day: '15' ddc: - '570' - '530' degree_awarded: PhD department: - _id: GradSch - _id: GaTk doi: 10.15479/AT-ISTA-20357 doi_confirm: '1' file: - access_level: closed checksum: 0582508d439b233497384f83a8307398 content_type: application/x-zip-compressed creator: cchlebak date_created: 2026-08-07T10:57:05Z date_updated: 2026-09-15T22:30:02Z embargo_to: open_access file_id: '22661' file_name: 2025_Ruzickova_Natalia_Thesis.zip file_size: 56464803 relation: source_file - access_level: open_access checksum: b722289fd550abede63adc27b9c61784 content_type: application/pdf creator: cchlebak date_created: 2026-08-07T10:57:34Z date_updated: 2026-09-15T22:30:02Z embargo: 2026-09-15 file_id: '22662' file_name: 2025_Ruzickova_Natalia_Thesis.pdf file_size: 30634378 relation: main_file file_date_updated: 2026-09-15T22:30:02Z fulldoi: https://doi.org/10.15479/AT-ISTA-20357 has_accepted_license: '1' keyword: - gene regulation - networks - omnigenic model - pancreas - collective behaviour language: - iso: eng month: '09' oa: 1 oa_version: Published Version page: '156' project: - _id: 7bec9174-9f16-11ee-852c-ded9fe5f810e name: Collective behaviour of cells in pancreatic Islets of Langerhans publication_identifier: isbn: - 978-3-99078-066-4 issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '18525' relation: part_of_dissertation status: public status: public supervisor: - first_name: Gašper full_name: Tkačik, Gašper id: 3D494DCA-F248-11E8-B48F-1D18A9856A87 last_name: Tkačik orcid: 0000-0002-6699-1455 title: Effect propagation in biological networks type: dissertation user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2025' ... --- OA_place: publisher _id: '20563' abstract: - lang: eng text: "The theory of optimal transport provides an elegant and powerful description of many evolution\r\nequations as gradient flows. The primary objective of this thesis is to adapt and extend the\r\ntheory to deal with important equations that are not covered by the classical framework,\r\nspecifically boundary value problems and kinetic equations. Additionally, we establish new\r\nresults in periodic homogenization for discrete dynamical optimal transport and in quantization\r\nof measures.\r\nSection 1.1 serves as an invitation to the classical theory of optimal transport, including the\r\nmain definitions and a selection of well-established theorems. Sections 1.2-1.5 introduce the\r\nmain results of this thesis, outline the motivations, and review the current state of the art.\r\nIn Chapter 2, we consider the Fokker–Planck equation on a bounded set with positive Dirichlet\r\nboundary conditions. We construct a time-discrete scheme involving a modification of the\r\nWasserstein distance and, under weak assumptions, prove its convergence to a solution of this\r\nboundary value problem. In dimension 1, we show that this solution is a gradient flow in a\r\nsuitable space of measures.\r\nChapter 3 presents joint work with Giovanni Brigati and Jan Maas. We introduce a new theory\r\nof optimal transport to describe and study particle systems at the mesoscopic scale. We prove\r\nadapted versions of some fundamental theorems, including the Benamou–Brenier formula and\r\nthe identification of absolutely continuous curves of measures.\r\nChapter 4 presents joint work with Lorenzo Portinale. We prove convergence of dynamical\r\ntransportation functionals on periodic graphs in the large-scale limit when the cost functional\r\nis asymptotically linear. Additionally, we show that discrete 1-Wasserstein distances converge\r\nto 1-Wasserstein distances constructed from crystalline norms on R\r\nd\r\n.\r\nChapter 5 concerns optimal empirical quantization: the problem of approximating a measure\r\nby the sum of n equally weighted Dirac deltas, so as to minimize the error in the p-Wasserstein\r\ndistance. Our main result is an analog of Zador’s theorem, providing asymptotic bounds for\r\nthe minimal error as n tends to infinity.\r\n" acknowledgement: "The research contained in this thesis has received funding from the Austrian Science\r\nFund (FWF) project 10.55776/F65." alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Filippo full_name: Quattrocchi, Filippo id: 3ebd6ba8-edfb-11eb-afb5-91a9745ba308 last_name: Quattrocchi orcid: 0009-0000-9773-1931 citation: ama: Quattrocchi F. Optimal transport methods for kinetic equations, boundary value problems, and discretization of measures. 2025. doi:10.15479/AT-ISTA-20563 apa: Quattrocchi, F. (2025). Optimal transport methods for kinetic equations, boundary value problems, and discretization of measures. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20563 chicago: Quattrocchi, Filippo. “Optimal Transport Methods for Kinetic Equations, Boundary Value Problems, and Discretization of Measures.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20563. ieee: F. Quattrocchi, “Optimal transport methods for kinetic equations, boundary value problems, and discretization of measures,” Institute of Science and Technology Austria, 2025. ista: Quattrocchi F. 2025. Optimal transport methods for kinetic equations, boundary value problems, and discretization of measures. Institute of Science and Technology Austria. mla: Quattrocchi, Filippo. Optimal Transport Methods for Kinetic Equations, Boundary Value Problems, and Discretization of Measures. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20563. short: F. Quattrocchi, Optimal Transport Methods for Kinetic Equations, Boundary Value Problems, and Discretization of Measures, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-10-28T13:10:49Z date_published: 2025-11-03T00:00:00Z date_updated: 2026-10-02T11:24:55Z day: '03' ddc: - '515' - '519' degree_awarded: PhD department: - _id: GradSch - _id: JaMa doi: 10.15479/AT-ISTA-20563 file: - access_level: open_access checksum: 6f55275bdf99992be3a6457d949dd664 content_type: application/pdf creator: fquattro date_created: 2025-11-17T21:04:15Z date_updated: 2026-01-01T23:30:03Z embargo: 2026-01-01 file_id: '20653' file_name: 2025_quattrocchi_filippo_thesis.pdf file_size: 4326411 relation: main_file - access_level: closed checksum: 707e580f5d993a214c0dba456b75837b content_type: application/zip creator: fquattro date_created: 2025-11-17T21:05:43Z date_updated: 2026-01-01T23:30:03Z embargo_to: open_access file_id: '20654' file_name: 2025_quattrocchi_thesis.zip file_size: 11726509 relation: source_file file_date_updated: 2026-01-01T23:30:03Z fulldoi: https://doi.org/10.15479/AT-ISTA-20563 has_accepted_license: '1' keyword: - optimal transport - kinetic equations - boundary value problems - quantization - gradient flows - homogenization language: - iso: eng month: '11' oa: 1 oa_version: Published Version page: '240' project: - _id: 260482E2-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: F06504 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: '20569' relation: part_of_dissertation status: public - id: '20571' relation: part_of_dissertation status: public - id: '20570' relation: part_of_dissertation status: public - id: '18706' 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: Optimal transport methods for kinetic equations, boundary value problems, and discretization 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: ba8df636-2132-11f1-aed0-ed93e2281fdd year: '2025' ... --- OA_place: repository OA_type: green _id: '20569' abstract: - lang: eng text: 'This is the first part of a general description in terms of mass transport for time-evolving interacting particles systems, at a mesoscopic level. Beyond kinetic theory, our framework naturally applies in biology, computer vision, and engineering. The central object of our study is a new discrepancy d between two probability distributions in position and velocity states, which is reminiscent of the 2-Wasserstein distance, but of second-order nature. We construct d in two steps. First, we optimise over transport plans. The cost function is given by the minimal acceleration between two coupled states on a fixed time horizon T. Second, we further optimise over the time horizon T > 0. We prove the existence of optimal transport plans and maps, and study two time-continuous characterisations of d. One is given in terms of dynamical transport plans. The other one -- in the spirit of the Benamou--Brenier formula -- is formulated as the minimisation of an action of the acceleration field, constrained by Vlasov''s equations. Equivalence of static and dynamical formulations of d holds true. While part of this result can be derived from recent, parallel developments in optimal control between measures, we give an original proof relying on two new ingredients: Galilean regularisation of Vlasov''s equations and a kinetic Monge--Mather shortening principle. Finally, we establish a first-order differential calculus in the geometry induced by d, and identify solutions to Vlasov''s equations with curves of measures satisfying a certain d-absolute continuity condition. One consequence is an explicit formula for the d-derivative of such curves.' acknowledgement: "This work was partially inspired by an unpublished note from 2014 by Guillaume Carlier,\r\nJean Dolbeault, and Bruno Nazaret. GB deeply thanks Jean Dolbeault for proposing\r\nthis problem to him, guiding him into the subject, and sharing the aforementioned note.\r\nWe are grateful to Karthik Elamvazhuthi for making us aware of the work [20].\r\nThe work of GB has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement\r\nNo 101034413.\r\nJM and FQ gratefully acknowledge support from the Austrian Science Fund (FWF)\r\nproject 10.55776/F65." article_number: '2502.15665' article_processing_charge: No arxiv: 1 author: - first_name: Giovanni full_name: Brigati, Giovanni id: 63ff57e8-1fbb-11ee-88f2-f558ffc59cf1 last_name: Brigati - first_name: Jan full_name: Maas, Jan id: 4C5696CE-F248-11E8-B48F-1D18A9856A87 last_name: Maas orcid: 0000-0002-0845-1338 - first_name: Filippo full_name: Quattrocchi, Filippo id: 3ebd6ba8-edfb-11eb-afb5-91a9745ba308 last_name: Quattrocchi orcid: 0009-0000-9773-1931 citation: ama: 'Brigati G, Maas J, Quattrocchi F. Kinetic Optimal Transport (OTIKIN) -- Part 1: Second-order discrepancies between probability measures. arXiv. doi:10.48550/arXiv.2502.15665' apa: 'Brigati, G., Maas, J., & Quattrocchi, F. (n.d.). Kinetic Optimal Transport (OTIKIN) -- Part 1: Second-order discrepancies between probability measures. arXiv. https://doi.org/10.48550/arXiv.2502.15665' chicago: 'Brigati, Giovanni, Jan Maas, and Filippo Quattrocchi. “Kinetic Optimal Transport (OTIKIN) -- Part 1: Second-Order Discrepancies between Probability Measures.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2502.15665.' ieee: 'G. Brigati, J. Maas, and F. Quattrocchi, “Kinetic Optimal Transport (OTIKIN) -- Part 1: Second-order discrepancies between probability measures,” arXiv. .' ista: 'Brigati G, Maas J, Quattrocchi F. Kinetic Optimal Transport (OTIKIN) -- Part 1: Second-order discrepancies between probability measures. arXiv, 2502.15665.' mla: 'Brigati, Giovanni, et al. “Kinetic Optimal Transport (OTIKIN) -- Part 1: Second-Order Discrepancies between Probability Measures.” ArXiv, 2502.15665, doi:10.48550/arXiv.2502.15665.' short: G. Brigati, J. Maas, F. Quattrocchi, ArXiv (n.d.). corr_author: '1' date_created: 2025-10-28T13:12:08Z date_published: 2025-08-10T00:00:00Z date_updated: 2026-10-07T22:31:31Z day: '10' department: - _id: GradSch - _id: JaMa doi: 10.48550/arXiv.2502.15665 ec_funded: 1 external_id: arxiv: - '2502.15665' fulldoi: https://doi.org/10.48550/arXiv.2502.15665 keyword: - optimal transport - kinetic theory - second-order discrepancy - Vlasov equation - Wasserstein splines. language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2502.15665 month: '08' oa: 1 oa_version: Preprint project: - _id: fc31cba2-9c52-11eb-aca3-ff467d239cd2 grant_number: F6504 name: Taming Complexity in Partial Differential Systems - _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c call_identifier: H2020 grant_number: '101034413' name: 'IST-BRIDGE: International postdoctoral program' publication: arXiv publication_status: draft related_material: record: - id: '20563' relation: dissertation_contains status: public status: public title: 'Kinetic Optimal Transport (OTIKIN) -- Part 1: Second-order discrepancies between probability measures' type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2025' ... --- OA_place: publisher _id: '20212' abstract: - lang: eng text: "Cortical development has been studied for many decades and with each passing year, we learn \r\nmore about the processes that govern the tightly regulated developmental program. Up until \r\nrecently, the field has struggled to gain reliable access to progenitors at the single-cell level, \r\nlimiting the resolution at which we can study cortical development in vivo. Therefore, much of \r\nthe data we have on mammalian cortical development is at the cell population level. The \r\nsubsequent pages of this thesis describe novel elements of cortical development in mice; \r\nacquired using a candidate gene approach in conjunction with Mosaic Analysis with Double \r\nMarkers (MADM) to achieve single cell resolution. In this thesis, I briefly provide an overview \r\nof the state of the field, describe the methodology used to quantify morphological \r\ncharacteristics of neurons and glia, and delve into the role of Phosphatase and tensin \r\nhomologue on chromosome ten (Pten) in neurogenesis and gliogenesis in the developing mouse \r\ncortex. By using MADM to generate genetic mosaics, in which only a small fraction of cells \r\nare mutated, to study population-level changes, we can bypass the early postnatal lethality \r\nreported in Pten conditional knockouts (cKOs) using Emx1-Cre. We used Emx1-CreERT2 to \r\ninduce clonal deletion of Pten, and quantify RGP neurogenic output at the single progenitor \r\nlevel. Pten-mutant neuron populations within the mosaics were significantly expanded. In the \r\nlatter parts of this thesis, we describe how Pten deletion leads to an increase in the abundance \r\nof astrocytes. We availed ourselves of the flexibility offered by the MADM system to generate \r\nPten mosaics within a series of distinct knockout tissues to test for the interactions between \r\nPten and a battery of genes involved in distinct pro-gliogenic signaling pathways. Our survey \r\nof Pten’s interactions with genes in key signaling pathways reveals that ERK1/2 are the critical \r\neffectors downstream of EGFR signaling essential for gliogenesis. Altogether, our results \r\ndemonstrate that Pten plays critical and distinct roles throughout cortical RGP lineage \r\nprogression. " acknowledged_ssus: - _id: Bio - _id: PreCl acknowledgement: "I would also like to\r\nthank the Austrian Academy of Sciences for awarding me a 2-year DOC fellowship\r\n(DOC26253)." alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Osvaldo full_name: Miranda, Osvaldo id: 862A3C56-A8BF-11E9-B4FA-D9E3E5697425 last_name: Miranda orcid: 0000-0001-6618-6889 citation: ama: Miranda O. Unraveling the role of Pten in cortical stem cell lineage progression using MADM. 2025. doi:10.15479/AT-ISTA-20212 apa: Miranda, O. (2025). Unraveling the role of Pten in cortical stem cell lineage progression using MADM. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20212 chicago: Miranda, Osvaldo. “Unraveling the Role of Pten in Cortical Stem Cell Lineage Progression Using MADM.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20212. ieee: O. Miranda, “Unraveling the role of Pten in cortical stem cell lineage progression using MADM,” Institute of Science and Technology Austria, 2025. ista: Miranda O. 2025. Unraveling the role of Pten in cortical stem cell lineage progression using MADM. Institute of Science and Technology Austria. mla: Miranda, Osvaldo. Unraveling the Role of Pten in Cortical Stem Cell Lineage Progression Using MADM. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20212. short: O. Miranda, Unraveling the Role of Pten in Cortical Stem Cell Lineage Progression Using MADM, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-08-22T14:07:00Z date_published: 2025-08-22T00:00:00Z date_updated: 2026-10-02T12:16:56Z day: '22' ddc: - '570' degree_awarded: PhD department: - _id: GradSch - _id: SiHi doi: 10.15479/AT-ISTA-20212 doi_confirm: '1' file: - access_level: closed checksum: 3331f76bbef74ff4908e2d2c9262045c content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document creator: omiranda date_created: 2025-08-26T09:03:50Z date_updated: 2026-08-26T22:30:02Z embargo_to: open_access file_id: '20230' file_name: 2025_MirandaRomero_OsvaldoAntonio_Thesis.docx file_size: 32887334 relation: source_file - access_level: open_access checksum: 02509d50cff8e35c5bcbf71e8d658176 content_type: application/pdf creator: omiranda date_created: 2025-08-26T09:05:55Z date_updated: 2026-08-26T22:30:02Z embargo: 2026-08-26 file_id: '20231' file_name: 2025_MirandaRomero_OsvaldoAntonio_Thesis.pdf file_size: 28636240 relation: main_file file_date_updated: 2026-08-26T22:30:02Z fulldoi: https://doi.org/10.15479/AT-ISTA-20212 has_accepted_license: '1' keyword: - Pten - mtor - cortical development - MADM - Mapk language: - iso: eng month: '08' oa: 1 oa_version: Published Version page: '119' project: - _id: 34c9fbcb-11ca-11ed-8bc3-98fa5658610d grant_number: '26253' name: Molecular Mechanisms Regulating Cortical Neural Stem Cell Lineage Progression and Astrocyte Development publication_identifier: isbn: - 978-3-99078-063-3 issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '17425' relation: part_of_dissertation status: public status: public supervisor: - first_name: Simon full_name: Hippenmeyer, Simon id: 37B36620-F248-11E8-B48F-1D18A9856A87 last_name: Hippenmeyer orcid: 0000-0003-2279-1061 title: Unraveling the role of Pten in cortical stem cell lineage progression using MADM type: dissertation user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2025' ... --- OA_place: publisher _id: '20117' abstract: - lang: eng text: "Auxin is essential for many aspects of plant growth and development, from \r\nembryogenesis to organ senescence. Polar auxin transport leads to local auxin maxima and \r\ngradients, which are important for regulating various plant development process, including \r\nembryogenesis, organogenesis and vascular tissue formation. The polar auxin transport is \r\nmediated by auxin influx carrier AUX1/LAX proteins and efflux carrier PIN proteins. The \r\nregulation of PIN proteins is a key convergence of crosstalk between auxin and other \r\nhormones, such as cytokinin. Cytokinin promotes the degradation of PIN1 in Arabidopsis \r\nroots, preferentially the dephosphorylated PIN1, and the process is independent of \r\ntranscription and translation (Marhavý et al., 2011; Marhavý et al., 2014). The internalization \r\nof PIN proteins from plasma membrane is controlled by clathrin-mediated endocytosis \r\n(Dhonukshe et al., 2007; Kitakura et al., 2011). However, whether cytokinin affects the PIN1 \r\ndegradation through regulating the phosphorylation of PIN1 or trafficking components is \r\nunknown. Here, we demonstrate that dynamin related protein DRP2s are required for the \r\ncytokinin regulated trafficking of PIN1 and PIN2 in Arabidopsis root epidermal cells. Despite \r\nthe reported redundancy of DRP2A and DRP2B in gametophyte development, we found that \r\nCK-mediated PIN1 degradation and –induced PIN2 membrane localization is affected in drp2a \r\nor drp2b single mutants. Interestingly, we found that cytokinin regulates the recruitment of \r\nDRP2A—but not DRP2B—to clathrin-coated pits, and affects the stability and plasma \r\nmembrane localization of DRP2A. Furthermore, we studied the involvement of cytokinin \r\nreceptors in the regulation of cytokinin on DRP2A. Additionally, the assembly and disassembly \r\ncycle of dynamin is mediated by its dephosphorylation and phosphotylation cycle; thus, we \r\ninvestigated the role of DRP2A phosphorylation in its cytokinin-regulated assembly and in \r\ncytokinin-regulated PIN trafficking. Altogether, we found that cytokinin regulated PIN \r\ntrafficking in Arabidopsis root epidermal cells involves modulation of the phosphorylation of \r\nendocytosis accessory protein DRP2A. " acknowledged_ssus: - _id: Bio - _id: LifeSc - _id: PreCl acknowledgement: "I would also like to acknowledge the invaluable assistance provided by the Plant\r\nFacility, Imaging & Optics Facility, and the Lab Support Facility. The technical support and\r\nresources offered by these facilities were indispensable to the successful completion of my\r\nexperiments." alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Yiqun full_name: Wang, Yiqun id: 82F537F2-B517-11E9-84D7-6433E6697425 last_name: Wang citation: ama: Wang Y. The role of dynamin related protein 2A in cytokinin regulated plant growth and development. 2025. doi:10.15479/AT-ISTA-20117 apa: Wang, Y. (2025). The role of dynamin related protein 2A in cytokinin regulated plant growth and development. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20117 chicago: Wang, Yiqun. “The Role of Dynamin Related Protein 2A in Cytokinin Regulated Plant Growth and Development.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20117. ieee: Y. Wang, “The role of dynamin related protein 2A in cytokinin regulated plant growth and development,” Institute of Science and Technology Austria, 2025. ista: Wang Y. 2025. The role of dynamin related protein 2A in cytokinin regulated plant growth and development. Institute of Science and Technology Austria. mla: Wang, Yiqun. The Role of Dynamin Related Protein 2A in Cytokinin Regulated Plant Growth and Development. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20117. short: Y. Wang, The Role of Dynamin Related Protein 2A in Cytokinin Regulated Plant Growth and Development, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-08-04T15:24:21Z date_published: 2025-08-04T00:00:00Z date_updated: 2026-10-02T12:33:36Z day: '04' ddc: - '580' degree_awarded: PhD department: - _id: GradSch - _id: EvBe doi: 10.15479/AT-ISTA-20117 doi_confirm: '1' file: - access_level: closed checksum: 36b87c17d12c7bf5955d6d812acb8d77 content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document creator: yiqwang date_created: 2025-08-22T08:22:10Z date_updated: 2026-09-03T22:30:03Z embargo_to: open_access file_id: '20209' file_name: 2025_Wang_Yiqun_Thesis.docx file_size: 25798848 relation: source_file - access_level: open_access checksum: 8d7a2383f66377da675d379ec30ea0fe content_type: application/pdf creator: yiqwang date_created: 2025-08-22T10:32:30Z date_updated: 2026-09-03T22:30:03Z embargo: 2026-09-03 file_id: '20211' file_name: 2025_Wang_Yiqun_Thesis.pdf file_size: 12628313 relation: main_file file_date_updated: 2026-09-03T22:30:03Z fulldoi: https://doi.org/10.15479/AT-ISTA-20117 has_accepted_license: '1' language: - iso: eng month: '08' oa: 1 oa_version: Published Version page: '108' publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '18063' relation: part_of_dissertation status: public status: public supervisor: - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 title: The role of dynamin related protein 2A in cytokinin regulated plant growth and development type: dissertation user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2025' ... --- OA_place: repository OA_type: green _id: '22026' abstract: - lang: eng text: We address two pressing questions in the theory of the Korteweg–de Vries (KdV) equation. First, we show the uniqueness of solutions to KdV that are merely bounded, without any further decay, regularity, periodicity, or almost periodicity assumptions. The second question, emphasized by Deift, regards whether almost periodic initial data leads to almost periodic solutions to KdV. Building on the new observation that this is false for the Airy equation, we construct an example of almost periodic initial data whose KdV evolution remains bounded, but fails to be almost periodic at a later time. Our uniqueness result ensures that the solution constructed is the unique development of this initial data. article_processing_charge: No article_type: original arxiv: 1 author: - first_name: Andreia full_name: Chapouto, Andreia last_name: Chapouto - first_name: Rowan full_name: Killip, Rowan last_name: Killip - first_name: Monica full_name: Visan, Monica id: 056daca0-b8d1-11f0-964f-f91054abf8ca last_name: Visan citation: ama: 'Chapouto A, Killip R, Vişan M. Bounded solutions of KdV: Uniqueness and the loss of almost periodicity. Duke Mathematical Journal. 2024;173(7):1227-1267. doi:10.1215/00127094-2023-0035' apa: 'Chapouto, A., Killip, R., & Vişan, M. (2024). Bounded solutions of KdV: Uniqueness and the loss of almost periodicity. Duke Mathematical Journal. Duke University Press. https://doi.org/10.1215/00127094-2023-0035' chicago: 'Chapouto, Andreia, Rowan Killip, and Monica Vişan. “Bounded Solutions of KdV: Uniqueness and the Loss of Almost Periodicity.” Duke Mathematical Journal. Duke University Press, 2024. https://doi.org/10.1215/00127094-2023-0035.' ieee: 'A. Chapouto, R. Killip, and M. Vişan, “Bounded solutions of KdV: Uniqueness and the loss of almost periodicity,” Duke Mathematical Journal, vol. 173, no. 7. Duke University Press, pp. 1227–1267, 2024.' ista: 'Chapouto A, Killip R, Vişan M. 2024. Bounded solutions of KdV: Uniqueness and the loss of almost periodicity. Duke Mathematical Journal. 173(7), 1227–1267.' mla: 'Chapouto, Andreia, et al. “Bounded Solutions of KdV: Uniqueness and the Loss of Almost Periodicity.” Duke Mathematical Journal, vol. 173, no. 7, Duke University Press, 2024, pp. 1227–67, doi:10.1215/00127094-2023-0035.' short: A. Chapouto, R. Killip, M. Vişan, Duke Mathematical Journal 173 (2024) 1227–1267. das_tickbox: '1' date_created: 2026-06-19T07:34:05Z date_published: 2024-05-15T00:00:00Z date_updated: 2026-06-22T10:32:25Z day: '15' doi: 10.1215/00127094-2023-0035 extern: '1' external_id: arxiv: - '2209.07501' fulldoi: https://doi.org/10.1215/00127094-2023-0035 intvolume: ' 173' issue: '7' keyword: - Almost-periodic solutions - Korteweg–de Vries - unconditional uniqueness language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2209.07501 month: '05' oa: 1 oa_version: Preprint page: 1227-1267 publication: Duke Mathematical Journal publication_identifier: issn: - 0012-7094 publication_status: published publisher: Duke University Press quality_controlled: '1' scopus_import: '1' status: public title: 'Bounded solutions of KdV: Uniqueness and the loss of almost periodicity' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 173 year: '2024' ... --- _id: '12178' abstract: - lang: eng text: In this paper we consider the stochastic primitive equation for geophysical flows subject to transport noise and turbulent pressure. Admitting very rough noise terms, the global existence and uniqueness of solutions to this stochastic partial differential equation are proven using stochastic maximal L² regularity, the theory of critical spaces for stochastic evolution equations, and global a priori bounds. Compared to other results in this direction, we do not need any smallness assumption on the transport noise which acts directly on the velocity field and we also allow rougher noise terms. The adaptation to Stratonovich type noise and, more generally, to variable viscosity and/or conductivity are discussed as well. acknowledgement: The authors thank the anonymous referees for their helpful comments and suggestions. Open Access funding enabled and organized by Projekt DEAL. article_processing_charge: Yes (via OA deal) article_type: original arxiv: 1 author: - first_name: Antonio full_name: Agresti, Antonio id: 673cd0cc-9b9a-11eb-b144-88f30e1fbb72 last_name: Agresti orcid: 0000-0002-9573-2962 - first_name: Matthias full_name: Hieber, Matthias last_name: Hieber - first_name: Amru full_name: Hussein, Amru last_name: Hussein - first_name: Martin full_name: Saal, Martin last_name: Saal citation: ama: 'Agresti A, Hieber M, Hussein A, Saal M. The stochastic primitive equations with transport noise and turbulent pressure. Stochastics and Partial Differential Equations: Analysis and Computations. 2024;12:53-133. doi:10.1007/s40072-022-00277-3' apa: 'Agresti, A., Hieber, M., Hussein, A., & Saal, M. (2024). The stochastic primitive equations with transport noise and turbulent pressure. Stochastics and Partial Differential Equations: Analysis and Computations. Springer Nature. https://doi.org/10.1007/s40072-022-00277-3' chicago: 'Agresti, Antonio, Matthias Hieber, Amru Hussein, and Martin Saal. “The Stochastic Primitive Equations with Transport Noise and Turbulent Pressure.” Stochastics and Partial Differential Equations: Analysis and Computations. Springer Nature, 2024. https://doi.org/10.1007/s40072-022-00277-3.' ieee: 'A. Agresti, M. Hieber, A. Hussein, and M. Saal, “The stochastic primitive equations with transport noise and turbulent pressure,” Stochastics and Partial Differential Equations: Analysis and Computations, vol. 12. Springer Nature, pp. 53–133, 2024.' ista: 'Agresti A, Hieber M, Hussein A, Saal M. 2024. The stochastic primitive equations with transport noise and turbulent pressure. Stochastics and Partial Differential Equations: Analysis and Computations. 12, 53–133.' mla: 'Agresti, Antonio, et al. “The Stochastic Primitive Equations with Transport Noise and Turbulent Pressure.” Stochastics and Partial Differential Equations: Analysis and Computations, vol. 12, Springer Nature, 2024, pp. 53–133, doi:10.1007/s40072-022-00277-3.' short: 'A. Agresti, M. Hieber, A. Hussein, M. Saal, Stochastics and Partial Differential Equations: Analysis and Computations 12 (2024) 53–133.' date_created: 2023-01-12T12:12:29Z date_published: 2024-03-01T00:00:00Z date_updated: 2024-07-22T09:30:40Z day: '01' ddc: - '510' department: - _id: JuFi doi: 10.1007/s40072-022-00277-3 external_id: arxiv: - '2109.09561' isi: - '000874389000001' file: - access_level: open_access checksum: 59c9000761134d681bdf9d482664044c content_type: application/pdf creator: dernst date_created: 2024-07-22T09:29:48Z date_updated: 2024-07-22T09:29:48Z file_id: '17297' file_name: 2024_StochasticsEquations_Agresti.pdf file_size: 1206413 relation: main_file success: 1 file_date_updated: 2024-07-22T09:29:48Z fulldoi: https://doi.org/10.1007/s40072-022-00277-3 has_accepted_license: '1' intvolume: ' 12' isi: 1 keyword: - Applied Mathematics - Modeling and Simulation - Statistics and Probability language: - iso: eng month: '03' oa: 1 oa_version: Published Version page: 53-133 publication: 'Stochastics and Partial Differential Equations: Analysis and Computations' publication_identifier: eissn: - 2194-041X issn: - 2194-0401 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: The stochastic primitive equations with transport noise and turbulent pressure 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 12 year: '2024' ... --- _id: '12485' abstract: - lang: eng text: In this paper we introduce the critical variational setting for parabolic stochastic evolution equations of quasi- or semi-linear type. Our results improve many of the abstract results in the classical variational setting. In particular, we are able to replace the usual weak or local monotonicity condition by a more flexible local Lipschitz condition. Moreover, the usual growth conditions on the multiplicative noise are weakened considerably. Our new setting provides general conditions under which local and global existence and uniqueness hold. Moreover, we prove continuous dependence on the initial data. We show that many classical SPDEs, which could not be covered by the classical variational setting, do fit in the critical variational setting. In particular, this is the case for the Cahn-Hilliard equations, tamed Navier-Stokes equations, and Allen-Cahn equation. acknowledgement: The first author has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 948819) . The second author is supported by the VICI subsidy VI.C.212.027 of the Netherlands Organisation for Scientific Research (NWO). article_processing_charge: Yes (in subscription journal) article_type: original arxiv: 1 author: - first_name: Antonio full_name: Agresti, Antonio id: 673cd0cc-9b9a-11eb-b144-88f30e1fbb72 last_name: Agresti orcid: 0000-0002-9573-2962 - first_name: Mark full_name: Veraar, Mark last_name: Veraar citation: ama: Agresti A, Veraar M. The critical variational setting for stochastic evolution equations. Probability Theory and Related Fields. 2024;188:957-1015. doi:10.1007/s00440-023-01249-x apa: Agresti, A., & Veraar, M. (2024). The critical variational setting for stochastic evolution equations. Probability Theory and Related Fields. Springer Nature. https://doi.org/10.1007/s00440-023-01249-x chicago: Agresti, Antonio, and Mark Veraar. “The Critical Variational Setting for Stochastic Evolution Equations.” Probability Theory and Related Fields. Springer Nature, 2024. https://doi.org/10.1007/s00440-023-01249-x. ieee: A. Agresti and M. Veraar, “The critical variational setting for stochastic evolution equations,” Probability Theory and Related Fields, vol. 188. Springer Nature, pp. 957–1015, 2024. ista: Agresti A, Veraar M. 2024. The critical variational setting for stochastic evolution equations. Probability Theory and Related Fields. 188, 957–1015. mla: Agresti, Antonio, and Mark Veraar. “The Critical Variational Setting for Stochastic Evolution Equations.” Probability Theory and Related Fields, vol. 188, Springer Nature, 2024, pp. 957–1015, doi:10.1007/s00440-023-01249-x. short: A. Agresti, M. Veraar, Probability Theory and Related Fields 188 (2024) 957–1015. date_created: 2023-02-02T10:45:15Z date_published: 2024-04-01T00:00:00Z date_updated: 2025-09-04T11:27:46Z day: '01' ddc: - '510' department: - _id: JuFi doi: 10.1007/s00440-023-01249-x ec_funded: 1 external_id: arxiv: - '2206.00230' isi: - '001154226500001' file: - access_level: open_access checksum: b8572339dbc5b8de4934dc5fd34afc7d content_type: application/pdf creator: dernst date_created: 2024-07-22T09:21:09Z date_updated: 2024-07-22T09:21:09Z file_id: '17296' file_name: 2024_ProbTheory_Agresti.pdf file_size: 942801 relation: main_file success: 1 file_date_updated: 2024-07-22T09:21:09Z fulldoi: https://doi.org/10.1007/s00440-023-01249-x has_accepted_license: '1' intvolume: ' 188' isi: 1 language: - iso: eng month: '04' oa: 1 oa_version: Published Version page: 957-1015 project: - _id: 0aa76401-070f-11eb-9043-b5bb049fa26d call_identifier: H2020 grant_number: '948819' name: Bridging Scales in Random Materials publication: Probability Theory and Related Fields publication_identifier: eissn: - 1432-2064 issn: - 0178-8051 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: The critical variational setting for stochastic evolution 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: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 188 year: '2024' ... --- OA_place: publisher OA_type: hybrid _id: '12486' abstract: - lang: eng text: This paper is concerned with the problem of regularization by noise of systems of reaction–diffusion equations with mass control. It is known that strong solutions to such systems of PDEs may blow-up in finite time. Moreover, for many systems of practical interest, establishing whether the blow-up occurs or not is an open question. Here we prove that a suitable multiplicative noise of transport type has a regularizing effect. More precisely, for both a sufficiently noise intensity and a high spectrum, the blow-up of strong solutions is delayed up to an arbitrary large time. Global existence is shown for the case of exponentially decreasing mass. The proofs combine and extend recent developments in regularization by noise and in the Lp(Lq)-approach to stochastic PDEs, highlighting new connections between the two areas. acknowledgement: "The author has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 948819).\r\nThe author thanks Lorenzo Dello Schiavo, Lucio Galeati and Mark Veraar for helpful comments. The author acknowledges Caterina Balzotti for her support in creating the picture. The author\r\nthanks the anonymous referee for helpful comments. " article_processing_charge: No article_type: original arxiv: 1 author: - first_name: Antonio full_name: Agresti, Antonio id: 673cd0cc-9b9a-11eb-b144-88f30e1fbb72 last_name: Agresti orcid: 0000-0002-9573-2962 citation: ama: 'Agresti A. Delayed blow-up and enhanced diffusion by transport noise for systems of reaction-diffusion equations. Stochastics and Partial Differential Equations: Analysis and Computations. 2024;12:1907-1981. doi:10.1007/s40072-023-00319-4' apa: 'Agresti, A. (2024). Delayed blow-up and enhanced diffusion by transport noise for systems of reaction-diffusion equations. Stochastics and Partial Differential Equations: Analysis and Computations. Springer Nature. https://doi.org/10.1007/s40072-023-00319-4' chicago: 'Agresti, Antonio. “Delayed Blow-up and Enhanced Diffusion by Transport Noise for Systems of Reaction-Diffusion Equations.” Stochastics and Partial Differential Equations: Analysis and Computations. Springer Nature, 2024. https://doi.org/10.1007/s40072-023-00319-4.' ieee: 'A. Agresti, “Delayed blow-up and enhanced diffusion by transport noise for systems of reaction-diffusion equations,” Stochastics and Partial Differential Equations: Analysis and Computations, vol. 12. Springer Nature, pp. 1907–1981, 2024.' ista: 'Agresti A. 2024. Delayed blow-up and enhanced diffusion by transport noise for systems of reaction-diffusion equations. Stochastics and Partial Differential Equations: Analysis and Computations. 12, 1907–1981.' mla: 'Agresti, Antonio. “Delayed Blow-up and Enhanced Diffusion by Transport Noise for Systems of Reaction-Diffusion Equations.” Stochastics and Partial Differential Equations: Analysis and Computations, vol. 12, Springer Nature, 2024, pp. 1907–81, doi:10.1007/s40072-023-00319-4.' short: 'A. Agresti, Stochastics and Partial Differential Equations: Analysis and Computations 12 (2024) 1907–1981.' corr_author: '1' date_created: 2023-02-02T10:45:47Z date_published: 2024-09-01T00:00:00Z date_updated: 2025-08-05T13:23:09Z day: '01' ddc: - '510' department: - _id: JuFi doi: 10.1007/s40072-023-00319-4 ec_funded: 1 external_id: arxiv: - '2207.08293' isi: - '001108594600001' pmid: - '39104877' file: - access_level: open_access checksum: 3c93d07a5f7e0b0caa8062eadcfa69c2 content_type: application/pdf creator: dernst date_created: 2025-01-09T08:01:02Z date_updated: 2025-01-09T08:01:02Z file_id: '18787' file_name: 2024_StochPartDiffEquations_Agresti.pdf file_size: 1320682 relation: main_file success: 1 file_date_updated: 2025-01-09T08:01:02Z fulldoi: https://doi.org/10.1007/s40072-023-00319-4 has_accepted_license: '1' intvolume: ' 12' isi: 1 language: - iso: eng month: '09' oa: 1 oa_version: Published Version page: 1907-1981 pmid: 1 project: - _id: 0aa76401-070f-11eb-9043-b5bb049fa26d call_identifier: H2020 grant_number: '948819' name: Bridging Scales in Random Materials publication: 'Stochastics and Partial Differential Equations: Analysis and Computations' publication_identifier: eissn: - 2194-041X issn: - 2194-0401 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Delayed blow-up and enhanced diffusion by transport noise for systems of reaction-diffusion 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 12 year: '2024' ... --- OA_place: publisher OA_type: hybrid _id: '12738' abstract: - lang: eng text: We study turn-based stochastic zero-sum games with lexicographic preferences over objectives. Stochastic games are standard models in control, verification, and synthesis of stochastic reactive systems that exhibit both randomness as well as controllable and adversarial non-determinism. Lexicographic order allows one to consider multiple objectives with a strict preference order. To the best of our knowledge, stochastic games with lexicographic objectives have not been studied before. For a mixture of reachability and safety objectives, we show that deterministic lexicographically optimal strategies exist and memory is only required to remember the already satisfied and violated objectives. For a constant number of objectives, we show that the relevant decision problem is in NP∩coNP, matching the current known bound for single objectives; and in general the decision problem is PSPACE-hard and can be solved in NEXPTIME∩coNEXPTIME. We present an algorithm that computes the lexicographically optimal strategies via a reduction to the computation of optimal strategies in a sequence of single-objectives games. For omega-regular objectives, we restrict our analysis to one-player games, also known as Markov decision processes. We show that lexicographically optimal strategies exist and need either randomization or finite memory. We present an algorithm that solves the relevant decision problem in polynomial time. We have implemented our algorithms and report experimental results on various case studies. acknowledgement: Tobias Winkler and Joost-Pieter Katoen are supported by the DFG RTG 2236 UnRAVeL and the innovation programme under the Marie Skłodowska-Curie grant agreement No. 101008233 (Mission). Krishnendu Chatterjee is supported by the ERC CoG 863818 (ForM-SMArt) and the Vienna Science and Technology Fund (WWTF) Project ICT15-003. Maximilian Weininger is supported by the DFG projects 383882557 Statistical Unbounded Verification (SUV) and 427755713 Group-By Objectives in Probabilistic Verification (GOPro). Stefanie Mohr is supported by the DFG RTG 2428 CONVEY. Open Access funding enabled and organized by Projekt DEAL. article_processing_charge: Yes (via OA deal) 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: Joost P full_name: Katoen, Joost P id: 4524F760-F248-11E8-B48F-1D18A9856A87 last_name: Katoen orcid: 0000-0002-6143-1926 - first_name: Stefanie full_name: Mohr, Stefanie last_name: Mohr - first_name: Maximilian full_name: Weininger, Maximilian last_name: Weininger - first_name: Tobias full_name: Winkler, Tobias last_name: Winkler citation: ama: Chatterjee K, Katoen JP, Mohr S, Weininger M, Winkler T. Stochastic games with lexicographic objectives. Formal Methods in System Design. 2024;63:40-80. doi:10.1007/s10703-023-00411-4 apa: Chatterjee, K., Katoen, J. P., Mohr, S., Weininger, M., & Winkler, T. (2024). Stochastic games with lexicographic objectives. Formal Methods in System Design. Springer Nature. https://doi.org/10.1007/s10703-023-00411-4 chicago: Chatterjee, Krishnendu, Joost P Katoen, Stefanie Mohr, Maximilian Weininger, and Tobias Winkler. “Stochastic Games with Lexicographic Objectives.” Formal Methods in System Design. Springer Nature, 2024. https://doi.org/10.1007/s10703-023-00411-4. ieee: K. Chatterjee, J. P. Katoen, S. Mohr, M. Weininger, and T. Winkler, “Stochastic games with lexicographic objectives,” Formal Methods in System Design, vol. 63. Springer Nature, pp. 40–80, 2024. ista: Chatterjee K, Katoen JP, Mohr S, Weininger M, Winkler T. 2024. Stochastic games with lexicographic objectives. Formal Methods in System Design. 63, 40–80. mla: Chatterjee, Krishnendu, et al. “Stochastic Games with Lexicographic Objectives.” Formal Methods in System Design, vol. 63, Springer Nature, 2024, pp. 40–80, doi:10.1007/s10703-023-00411-4. short: K. Chatterjee, J.P. Katoen, S. Mohr, M. Weininger, T. Winkler, Formal Methods in System Design 63 (2024) 40–80. date_created: 2023-03-19T23:00:59Z date_published: 2024-10-01T00:00:00Z date_updated: 2026-04-16T09:31:13Z day: '01' ddc: - '000' department: - _id: KrCh doi: 10.1007/s10703-023-00411-4 ec_funded: 1 external_id: isi: - '000946174300001' file: - access_level: open_access checksum: 111e76b76163640a2c89237642af586f content_type: application/pdf creator: dernst date_created: 2025-01-09T07:31:31Z date_updated: 2025-01-09T07:31:31Z file_id: '18781' file_name: 2024_FromMethodsSys_Chatterjee.pdf file_size: 2614190 relation: main_file success: 1 file_date_updated: 2025-01-09T07:31:31Z fulldoi: https://doi.org/10.1007/s10703-023-00411-4 has_accepted_license: '1' intvolume: ' 63' isi: 1 language: - iso: eng month: '10' oa: 1 oa_version: Published Version page: 40-80 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: Formal Methods in System Design publication_identifier: eissn: - 1572-8102 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '8272' relation: earlier_version status: public scopus_import: '1' status: public title: Stochastic games with lexicographic objectives 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 63 year: '2024' ... --- _id: '12875' abstract: - lang: eng text: The superior colliculus (SC) in the mammalian midbrain is essential for multisensory integration and is composed of a rich diversity of excitatory and inhibitory neurons and glia. However, the developmental principles directing the generation of SC cell-type diversity are not understood. Here, we pursued systematic cell lineage tracing in silico and in vivo, preserving full spatial information, using genetic mosaic analysis with double markers (MADM)-based clonal analysis with single-cell sequencing (MADM-CloneSeq). The analysis of clonally related cell lineages revealed that radial glial progenitors (RGPs) in SC are exceptionally multipotent. Individual resident RGPs have the capacity to produce all excitatory and inhibitory SC neuron types, even at the stage of terminal division. While individual clonal units show no pre-defined cellular composition, the establishment of appropriate relative proportions of distinct neuronal types occurs in a PTEN-dependent manner. Collectively, our findings provide an inaugural framework at the single-RGP/-cell level of the mammalian SC ontogeny. acknowledged_ssus: - _id: Bio - _id: M-Shop - _id: LifeSc - _id: PreCl acknowledgement: "We thank Liqun Luo for his continued support, for providing essential resources for generating Fzd10-CreER mice which were generated in his laboratory, and for comments on the manuscript; W. Zhong for providing Nestin-Cre transgenic mouse line for this study; A. Heger for mouse colony management; R. Beattie and T. Asenov for designing and producing components of acute slice recovery chamber for MADM-CloneSeq experiments; and K. Leopold, J. Rodarte and N. Amberg for initial experiments, technical support and/or assistance. This study was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by the Imaging & Optics Facility (IOF), Laboratory Support Facility (LSF), Miba Machine Shop, and Pre-clinical Facility (PCF). G.C. received funding from European Commission (IST plus postdoctoral fellowship). This work was supported by ISTA institutional\r\nfunds; the Austrian Science Fund Special Research Programmes (FWF SFB F78 Neuro Stem Modulation) to S.H. " article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Giselle T full_name: Cheung, Giselle T id: 471195F6-F248-11E8-B48F-1D18A9856A87 last_name: Cheung orcid: 0000-0001-8457-2572 - first_name: Florian full_name: Pauler, Florian id: 48EA0138-F248-11E8-B48F-1D18A9856A87 last_name: Pauler orcid: 0000-0002-7462-0048 - first_name: Peter full_name: Koppensteiner, Peter id: 3B8B25A8-F248-11E8-B48F-1D18A9856A87 last_name: Koppensteiner orcid: 0000-0002-3509-1948 - first_name: Thomas full_name: Krausgruber, Thomas last_name: Krausgruber - first_name: Carmen full_name: Streicher, Carmen id: 36BCB99C-F248-11E8-B48F-1D18A9856A87 last_name: Streicher - first_name: Martin full_name: Schrammel, Martin id: f13e7cae-e8bd-11ed-841a-96dedf69f46d last_name: Schrammel - first_name: Natalie Y full_name: Özgen, Natalie Y id: e68ece33-f6e0-11ea-865d-ae1031dcc090 last_name: Özgen - first_name: Alexis full_name: Ivec, Alexis id: 1d144691-e8be-11ed-9b33-bdd3077fad4c last_name: Ivec - first_name: Christoph full_name: Bock, Christoph last_name: Bock - first_name: Ryuichi full_name: Shigemoto, Ryuichi id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 - first_name: Simon full_name: Hippenmeyer, Simon id: 37B36620-F248-11E8-B48F-1D18A9856A87 last_name: Hippenmeyer orcid: 0000-0003-2279-1061 citation: ama: Cheung GT, Pauler F, Koppensteiner P, et al. Multipotent progenitors instruct ontogeny of the superior colliculus. Neuron. 2024;112(2):230-246.e11. doi:10.1016/j.neuron.2023.11.009 apa: Cheung, G. T., Pauler, F., Koppensteiner, P., Krausgruber, T., Streicher, C., Schrammel, M., … Hippenmeyer, S. (2024). Multipotent progenitors instruct ontogeny of the superior colliculus. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2023.11.009 chicago: Cheung, Giselle T, Florian Pauler, Peter Koppensteiner, Thomas Krausgruber, Carmen Streicher, Martin Schrammel, Natalie Y Özgen, et al. “Multipotent Progenitors Instruct Ontogeny of the Superior Colliculus.” Neuron. Elsevier, 2024. https://doi.org/10.1016/j.neuron.2023.11.009. ieee: G. T. Cheung et al., “Multipotent progenitors instruct ontogeny of the superior colliculus,” Neuron, vol. 112, no. 2. Elsevier, p. 230–246.e11, 2024. ista: Cheung GT, Pauler F, Koppensteiner P, Krausgruber T, Streicher C, Schrammel M, Özgen NY, Ivec A, Bock C, Shigemoto R, Hippenmeyer S. 2024. Multipotent progenitors instruct ontogeny of the superior colliculus. Neuron. 112(2), 230–246.e11. mla: Cheung, Giselle T., et al. “Multipotent Progenitors Instruct Ontogeny of the Superior Colliculus.” Neuron, vol. 112, no. 2, Elsevier, 2024, p. 230–246.e11, doi:10.1016/j.neuron.2023.11.009. short: G.T. Cheung, F. Pauler, P. Koppensteiner, T. Krausgruber, C. Streicher, M. Schrammel, N.Y. Özgen, A. Ivec, C. Bock, R. Shigemoto, S. Hippenmeyer, Neuron 112 (2024) 230–246.e11. corr_author: '1' date_created: 2023-04-27T09:41:48Z date_published: 2024-01-17T00:00:00Z date_updated: 2025-12-30T10:54:12Z day: '17' ddc: - '570' department: - _id: SiHi - _id: RySh doi: 10.1016/j.neuron.2023.11.009 external_id: isi: - '001163937900001' pmid: - '38096816' file: - access_level: open_access checksum: 32b3788f7085cf44a84108d8faaff3ce content_type: application/pdf creator: dernst date_created: 2024-02-06T13:56:15Z date_updated: 2024-02-06T13:56:15Z file_id: '14944' file_name: 2024_Neuron_Cheung.pdf file_size: 5942467 relation: main_file success: 1 file_date_updated: 2024-02-06T13:56:15Z fulldoi: https://doi.org/10.1016/j.neuron.2023.11.009 has_accepted_license: '1' intvolume: ' 112' isi: 1 issue: '2' language: - iso: eng month: '01' oa: 1 oa_version: Published Version page: 230-246.e11 pmid: 1 project: - _id: 059F6AB4-7A3F-11EA-A408-12923DDC885E grant_number: F7805 name: Stem Cell Modulation in Neural Development and Regeneration/ P05-Molecular Mechanisms of Neural Stem Cell Lineage Progression publication: Neuron publication_identifier: issn: - 0896-6273 publication_status: published publisher: Elsevier quality_controlled: '1' related_material: link: - description: News on ISTA Website relation: press_release url: https://ista.ac.at/en/news/the-pedigree-of-brain-cells/ scopus_import: '1' status: public title: Multipotent progenitors instruct ontogeny of the superior colliculus 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 112 year: '2024' ... --- _id: '13093' abstract: - lang: eng text: The direct, solid state, and reversible conversion between heat and electricity using thermoelectric devices finds numerous potential uses, especially around room temperature. However, the relatively high material processing cost limits their real applications. Silver selenide (Ag2Se) is one of the very few n-type thermoelectric (TE) materials for room-temperature applications. Herein, we report a room temperature, fast, and aqueous-phase synthesis approach to produce Ag2Se, which can be extended to other metal chalcogenides. These materials reach TE figures of merit (zT) of up to 0.76 at 380 K. To improve these values, bismuth sulfide (Bi2S3) particles also prepared in an aqueous solution are incorporated into the Ag2Se matrix. In this way, a series of Ag2Se/Bi2S3 composites with Bi2S3 wt % of 0.5, 1.0, and 1.5 are prepared by solution blending and hot-press sintering. The presence of Bi2S3 significantly improves the Seebeck coefficient and power factor while at the same time decreasing the thermal conductivity with no apparent drop in electrical conductivity. Thus, a maximum zT value of 0.96 is achieved in the composites with 1.0 wt % Bi2S3 at 370 K. Furthermore, a high average zT value (zTave) of 0.93 in the 300–390 K range is demonstrated. acknowledgement: 'Open Access is funded by the Austrian Science Fund (FWF). B.N., M.L., Y.Z., K.X., and X.H. thank the China Scholarship Council (CSC) for the scholarship support. C.C. received funding from the FWF “Lise Meitner Fellowship” grant agreement M 2889-N. M.I. acknowledges the financial support from ISTA and the Werner Siemens Foundation. ICN2 acknowledges funding from Generalitat de Catalunya 2021SGR00457 and project NANOGEN (PID2020-116093RB-C43) funded by MCIN/AEI/10.13039/501100011033/. ICN2 was supported by the Severo Ochoa program from Spanish MCIN/AEI (Grant No.: CEX2021-001214-S) and was funded by the CERCA Programme/Generalitat de Catalunya. J.L. is a Serra Húnter Fellow and is grateful to the ICREA Academia program and projects MICINN/FEDER PID2021-124572OB-C31 and 2021 SGR 01061. K.H.L. acknowledges support from the National Natural Science Foundation of China (22208293). This study is part of the Advanced Materials programme and was supported by MCIN with funding from European Union NextGenerationEU (PRTR-C17.I1) and by Generalitat de Catalunya.' article_processing_charge: Yes (in subscription journal) article_type: review author: - first_name: Bingfei full_name: Nan, Bingfei last_name: 'Nan' - first_name: Mengyao full_name: Li, Mengyao last_name: Li - first_name: Yu full_name: Zhang, Yu last_name: Zhang - first_name: Ke full_name: Xiao, Ke last_name: Xiao - first_name: Khak Ho full_name: Lim, Khak Ho last_name: Lim - first_name: Cheng full_name: Chang, Cheng id: 9E331C2E-9F27-11E9-AE48-5033E6697425 last_name: Chang orcid: 0000-0002-9515-4277 - first_name: Xu full_name: Han, Xu last_name: Han - first_name: Yong full_name: Zuo, Yong last_name: Zuo - first_name: Junshan full_name: Li, Junshan last_name: Li - 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: Nan B, Li M, Zhang Y, et al. Engineering of thermoelectric composites based on silver selenide in aqueous solution and ambient temperature. ACS Applied Electronic Materials. 2024;6(5):2807-215. doi:10.1021/acsaelm.3c00055 apa: Nan, B., Li, M., Zhang, Y., Xiao, K., Lim, K. H., Chang, C., … Cabot, A. (2024). Engineering of thermoelectric composites based on silver selenide in aqueous solution and ambient temperature. ACS Applied Electronic Materials. American Chemical Society. https://doi.org/10.1021/acsaelm.3c00055 chicago: Nan, Bingfei, Mengyao Li, Yu Zhang, Ke Xiao, Khak Ho Lim, Cheng Chang, Xu Han, et al. “Engineering of Thermoelectric Composites Based on Silver Selenide in Aqueous Solution and Ambient Temperature.” ACS Applied Electronic Materials. American Chemical Society, 2024. https://doi.org/10.1021/acsaelm.3c00055. ieee: B. Nan et al., “Engineering of thermoelectric composites based on silver selenide in aqueous solution and ambient temperature,” ACS Applied Electronic Materials, vol. 6, no. 5. American Chemical Society, pp. 2807–215, 2024. ista: Nan B, Li M, Zhang Y, Xiao K, Lim KH, Chang C, Han X, Zuo Y, Li J, Arbiol J, Llorca J, Ibáñez M, Cabot A. 2024. Engineering of thermoelectric composites based on silver selenide in aqueous solution and ambient temperature. ACS Applied Electronic Materials. 6(5), 2807–215. mla: Nan, Bingfei, et al. “Engineering of Thermoelectric Composites Based on Silver Selenide in Aqueous Solution and Ambient Temperature.” ACS Applied Electronic Materials, vol. 6, no. 5, American Chemical Society, 2024, pp. 2807–215, doi:10.1021/acsaelm.3c00055. short: B. Nan, M. Li, Y. Zhang, K. Xiao, K.H. Lim, C. Chang, X. Han, Y. Zuo, J. Li, J. Arbiol, J. Llorca, M. Ibáñez, A. Cabot, ACS Applied Electronic Materials 6 (2024) 2807–215. date_created: 2023-05-28T22:01:03Z date_published: 2024-05-28T00:00:00Z date_updated: 2025-04-14T09:29:33Z day: '28' ddc: - '540' department: - _id: MaIb doi: 10.1021/acsaelm.3c00055 external_id: isi: - '000986859000001' pmid: - '38828037' file: - access_level: open_access checksum: 1f743eaf4fc988cd30102b7c2f12c15d content_type: application/pdf creator: dernst date_created: 2024-07-16T07:54:21Z date_updated: 2024-07-16T07:54:21Z file_id: '17250' file_name: 2024_ACSAppElecMaterials_Nan.pdf file_size: 5851865 relation: main_file success: 1 file_date_updated: 2024-07-16T07:54:21Z fulldoi: https://doi.org/10.1021/acsaelm.3c00055 has_accepted_license: '1' intvolume: ' 6' isi: 1 issue: '5' language: - iso: eng month: '05' oa: 1 oa_version: Published Version page: 2807-215 pmid: 1 project: - _id: 9B8804FC-BA93-11EA-9121-9846C619BF3A grant_number: M02889 name: Bottom-up Engineering for Thermoelectric Applications - _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 Electronic Materials publication_identifier: eissn: - 2637-6113 publication_status: published publisher: American Chemical Society quality_controlled: '1' scopus_import: '1' status: public title: Engineering of thermoelectric composites based on silver selenide in aqueous solution and ambient temperature 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 6 year: '2024' ... --- OA_place: publisher OA_type: hybrid _id: '13129' abstract: - lang: eng text: "We study the representative volume element (RVE) method, which is a method to approximately infer the effective behavior ahom of a stationary random medium. The latter is described by a coefficient field a(x) generated from a given ensemble ⟨⋅⟩ and the corresponding linear elliptic operator −∇⋅a∇. In line with the theory of homogenization, the method proceeds by computing d=3 correctors (d denoting the space dimension). To be numerically tractable, this computation has to be done on a finite domain: the so-called representative volume element, i.e., a large box with, say, periodic boundary conditions. The main message of this article is: Periodize the ensemble instead of its realizations. By this, we mean that it is better to sample from a suitably periodized ensemble than to periodically extend the restriction of a realization a(x) from the whole-space ensemble ⟨⋅⟩. We make this point by investigating the bias (or systematic error), i.e., the difference between ahom and the expected value of the RVE method, in terms of its scaling w.r.t. the lateral size L of the box. In case of periodizing a(x), we heuristically argue that this error is generically O(L−1). In case of a suitable periodization of ⟨⋅⟩\r\n, we rigorously show that it is O(L−d). In fact, we give a characterization of the leading-order error term for both strategies and argue that even in the isotropic case it is generically non-degenerate. We carry out the rigorous analysis in the convenient setting of ensembles ⟨⋅⟩\r\n of Gaussian type, which allow for a straightforward periodization, passing via the (integrable) covariance function. This setting has also the advantage of making the Price theorem and the Malliavin calculus available for optimal stochastic estimates of correctors. We actually need control of second-order correctors to capture the leading-order error term. This is due to inversion symmetry when applying the two-scale expansion to the Green function. As a bonus, we present a stream-lined strategy to estimate the error in a higher-order two-scale expansion of the Green function." acknowledgement: 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: Nicolas full_name: Clozeau, Nicolas id: fea1b376-906f-11eb-847d-b2c0cf46455b last_name: Clozeau - first_name: Marc full_name: Josien, Marc last_name: Josien - first_name: Felix full_name: Otto, Felix last_name: Otto - first_name: Qiang full_name: Xu, Qiang last_name: Xu citation: ama: 'Clozeau N, Josien M, Otto F, Xu Q. Bias in the representative volume element method: Periodize the ensemble instead of its realizations. Foundations of Computational Mathematics. 2024;24:1305-1387. doi:10.1007/s10208-023-09613-y' apa: 'Clozeau, N., Josien, M., Otto, F., & Xu, Q. (2024). Bias in the representative volume element method: Periodize the ensemble instead of its realizations. Foundations of Computational Mathematics. Springer Nature. https://doi.org/10.1007/s10208-023-09613-y' chicago: 'Clozeau, Nicolas, Marc Josien, Felix Otto, and Qiang Xu. “Bias in the Representative Volume Element Method: Periodize the Ensemble Instead of Its Realizations.” Foundations of Computational Mathematics. Springer Nature, 2024. https://doi.org/10.1007/s10208-023-09613-y.' ieee: 'N. Clozeau, M. Josien, F. Otto, and Q. Xu, “Bias in the representative volume element method: Periodize the ensemble instead of its realizations,” Foundations of Computational Mathematics, vol. 24. Springer Nature, pp. 1305–1387, 2024.' ista: 'Clozeau N, Josien M, Otto F, Xu Q. 2024. Bias in the representative volume element method: Periodize the ensemble instead of its realizations. Foundations of Computational Mathematics. 24, 1305–1387.' mla: 'Clozeau, Nicolas, et al. “Bias in the Representative Volume Element Method: Periodize the Ensemble Instead of Its Realizations.” Foundations of Computational Mathematics, vol. 24, Springer Nature, 2024, pp. 1305–87, doi:10.1007/s10208-023-09613-y.' short: N. Clozeau, M. Josien, F. Otto, Q. Xu, Foundations of Computational Mathematics 24 (2024) 1305–1387. corr_author: '1' date_created: 2023-06-11T22:00:40Z date_published: 2024-08-01T00:00:00Z date_updated: 2025-01-09T07:37:50Z day: '01' ddc: - '510' department: - _id: JuFi doi: 10.1007/s10208-023-09613-y external_id: isi: - '000999623100001' file: - access_level: open_access checksum: ec0582e2b55e2703a7da2686ae0d682e content_type: application/pdf creator: dernst date_created: 2025-01-09T07:36:57Z date_updated: 2025-01-09T07:36:57Z file_id: '18782' file_name: 2024_FoundCompMath_Clozeau.pdf file_size: 1454406 relation: main_file success: 1 file_date_updated: 2025-01-09T07:36:57Z fulldoi: https://doi.org/10.1007/s10208-023-09613-y has_accepted_license: '1' intvolume: ' 24' isi: 1 language: - iso: eng month: '08' oa: 1 oa_version: Published Version page: 1305-1387 publication: Foundations of Computational Mathematics publication_identifier: eissn: - 1615-3383 issn: - 1615-3375 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: 'Bias in the representative volume element method: Periodize the ensemble instead of its realizations' 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 24 year: '2024' ... --- OA_place: repository OA_type: green _id: '20838' abstract: - lang: eng text: "For any 1 ≤ r ≤ ∞, we show that every diffeomorphism of a manifold of the form\r\nR/Z × M is a total renormalization of a Cr-close to identity map. In other words, for\r\nevery diffeomorphism f of R/Z×M, there exists a map g arbitrarily close to identity\r\nsuch that the first return map of g to a domain is conjugate to f and moreover the\r\norbit of this domain is equal to R/Z×M. This enables us to localize near the identity\r\nthe existence of many properties in dynamical systems, such as being Bernoulli for a\r\nsmooth volume form." article_processing_charge: No article_type: original arxiv: 1 author: - first_name: Pierre full_name: Berger, Pierre last_name: Berger - first_name: Nicolaz full_name: Gourmelon, Nicolaz last_name: Gourmelon - first_name: Mathieu full_name: Helfter, Mathieu id: 7d296fbe-e2c6-11ee-84d3-d5c2945f9a57 last_name: Helfter citation: ama: Berger P, Gourmelon N, Helfter M. Every diffeomorphism is a total renormalization of a close to identity map. Inventiones mathematicae. 2024;239(2):431-468. doi:10.1007/s00222-024-01305-w apa: Berger, P., Gourmelon, N., & Helfter, M. (2024). Every diffeomorphism is a total renormalization of a close to identity map. Inventiones Mathematicae. Springer Nature. https://doi.org/10.1007/s00222-024-01305-w chicago: Berger, Pierre, Nicolaz Gourmelon, and Mathieu Helfter. “Every Diffeomorphism Is a Total Renormalization of a Close to Identity Map.” Inventiones Mathematicae. Springer Nature, 2024. https://doi.org/10.1007/s00222-024-01305-w. ieee: P. Berger, N. Gourmelon, and M. Helfter, “Every diffeomorphism is a total renormalization of a close to identity map,” Inventiones mathematicae, vol. 239, no. 2. Springer Nature, pp. 431–468, 2024. ista: Berger P, Gourmelon N, Helfter M. 2024. Every diffeomorphism is a total renormalization of a close to identity map. Inventiones mathematicae. 239(2), 431–468. mla: Berger, Pierre, et al. “Every Diffeomorphism Is a Total Renormalization of a Close to Identity Map.” Inventiones Mathematicae, vol. 239, no. 2, Springer Nature, 2024, pp. 431–68, doi:10.1007/s00222-024-01305-w. short: P. Berger, N. Gourmelon, M. Helfter, Inventiones Mathematicae 239 (2024) 431–468. date_created: 2025-12-19T10:15:13Z date_published: 2024-12-19T00:00:00Z date_updated: 2025-12-29T12:03:10Z day: '19' doi: 10.1007/s00222-024-01305-w extern: '1' external_id: arxiv: - '2210.09064' fulldoi: https://doi.org/10.1007/s00222-024-01305-w intvolume: ' 239' issue: '2' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2210.09064 month: '12' oa: 1 oa_version: Preprint page: 431-468 publication: Inventiones mathematicae publication_identifier: eissn: - 1432-1297 issn: - 0020-9910 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Every diffeomorphism is a total renormalization of a close to identity map type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 239 year: '2024' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '20961' abstract: - lang: eng text: Self-replicating molecules and well-defined folded macromolecules are of great significance in the emergence and evolution of life. How they may interconnect and affect each other remains largely elusive. Here, we demonstrate an abiotic system where a single building block can oligomerize to yield either a self-replicating molecule or a foldamer. Specifically, agitation of a disulfide-based dynamic combinatorial library at moderately elevated pH channels it selectively into a self-replicating hexamer assembled into fibers, after passing through a period where a 15-subunit macrocyclic foldamer existed transiently. Without mechanoagitation or at lower pH, the formation of hexamer fiber is suppressed, resulting in the accumulation of the 15mer foldamer. Foldamer and self-replicator can be interconverted in response to external stimuli, including agitation and a change in pH. Furthermore, upon the addition of a photoacid, the pH of the medium can be controlled by irradiation, driving the switching between replicator and foldamer and allowing a dissipative out-of-equilibrium state to be accessed, using light as a source of energy. article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Yulong full_name: Jin, Yulong last_name: Jin - first_name: Pradeep K full_name: Mandal, Pradeep K id: 6a3def15-d4b4-11ef-9fa9-a24c1f545ec3 last_name: Mandal orcid: 0000-0001-5996-956X - first_name: Juntian full_name: Wu, Juntian last_name: Wu - first_name: Armin full_name: Kiani, Armin last_name: Kiani - first_name: Rui full_name: Zhao, Rui last_name: Zhao - first_name: Ivan full_name: Huc, Ivan last_name: Huc - first_name: Sijbren full_name: Otto, Sijbren last_name: Otto citation: ama: Jin Y, Mandal PK, Wu J, et al. Light-mediated interconversion between a foldamer and a self-replicator. Journal of the American Chemical Society. 2024;146(49):33395-33402. doi:10.1021/jacs.4c09114 apa: Jin, Y., Mandal, P. K., Wu, J., Kiani, A., Zhao, R., Huc, I., & Otto, S. (2024). Light-mediated interconversion between a foldamer and a self-replicator. Journal of the American Chemical Society. American Chemical Society. https://doi.org/10.1021/jacs.4c09114 chicago: Jin, Yulong, Pradeep K Mandal, Juntian Wu, Armin Kiani, Rui Zhao, Ivan Huc, and Sijbren Otto. “Light-Mediated Interconversion between a Foldamer and a Self-Replicator.” Journal of the American Chemical Society. American Chemical Society, 2024. https://doi.org/10.1021/jacs.4c09114. ieee: Y. Jin et al., “Light-mediated interconversion between a foldamer and a self-replicator,” Journal of the American Chemical Society, vol. 146, no. 49. American Chemical Society, pp. 33395–33402, 2024. ista: Jin Y, Mandal PK, Wu J, Kiani A, Zhao R, Huc I, Otto S. 2024. Light-mediated interconversion between a foldamer and a self-replicator. Journal of the American Chemical Society. 146(49), 33395–33402. mla: Jin, Yulong, et al. “Light-Mediated Interconversion between a Foldamer and a Self-Replicator.” Journal of the American Chemical Society, vol. 146, no. 49, American Chemical Society, 2024, pp. 33395–402, doi:10.1021/jacs.4c09114. short: Y. Jin, P.K. Mandal, J. Wu, A. Kiani, R. Zhao, I. Huc, S. Otto, Journal of the American Chemical Society 146 (2024) 33395–33402. date_created: 2026-01-08T07:05:57Z date_published: 2024-11-26T00:00:00Z date_updated: 2026-01-19T11:03:31Z day: '26' ddc: - '540' doi: 10.1021/jacs.4c09114 extern: '1' external_id: pmid: - '39590511' fulldoi: https://doi.org/10.1021/jacs.4c09114 has_accepted_license: '1' intvolume: ' 146' issue: '49' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1021/jacs.4c09114 month: '11' oa: 1 oa_version: Published Version page: 33395-33402 pmid: 1 publication: Journal of the American Chemical Society publication_identifier: eissn: - 1520-5126 issn: - 0002-7863 publication_status: published publisher: American Chemical Society quality_controlled: '1' scopus_import: '1' status: public title: Light-mediated interconversion between a foldamer and a self-replicator 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 146 year: '2024' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '20962' abstract: - lang: eng text: Systems chemistry has emerged as a useful paradigm to access structures and phenomena typically exhibited by living systems, including complex molecular systems such as self-replicators and foldamers. As we progress further toward the noncovalent synthesis of life-like systems, and eventually life itself, it is necessary to gain control over assembly pathways. Dissipative chemical fueling has enabled access to stable populations of (self-assembled) structures that would normally form only transiently. Here, we report a synthetic dynamic combinatorial library, made from a single structurally simple building block, from which a self-replicator and a foldamer can emerge along two distinct and competing pathways through an inter- or intramolecular assembly process, respectively. A fueled chemical reaction cycle is then set up to generate the foldamer transiently, in the presence of the self-replicator. The partitioning of the building block between the folding and self-replication pathways and the duration of the fueled reaction cycles are controlled by adjusting the amount of the chemical fuel. An out-of-equilibrium steady state involving the two assemblies could also be achieved by using a continuous stirred tank reactor with inflow and outflow of material. This work connects the domains of folding and self-replication in synthetic systems through dissipative out-of-equilibrium chemistry. It demonstrates that foldamers and self-replicators, formed from the same building block, can stably coexist if the system is continuously supplied with energy, while at equilibrium, the Gibbs phase rule prohibits such coexistence. article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Ankush full_name: Sood, Ankush last_name: Sood - first_name: Pradeep K full_name: Mandal, Pradeep K id: 6a3def15-d4b4-11ef-9fa9-a24c1f545ec3 last_name: Mandal orcid: 0000-0001-5996-956X - first_name: Jim full_name: Ottelé, Jim last_name: Ottelé - first_name: Juntian full_name: Wu, Juntian last_name: Wu - first_name: Marcel full_name: Eleveld, Marcel last_name: Eleveld - first_name: Joydev full_name: Hatai, Joydev last_name: Hatai - first_name: Charalampos G. full_name: Pappas, Charalampos G. last_name: Pappas - first_name: Ivan full_name: Huc, Ivan last_name: Huc - first_name: Sijbren full_name: Otto, Sijbren last_name: Otto citation: ama: Sood A, Mandal PK, Ottelé J, et al. Simultaneous formation of a foldamer and a self-replicator by out-of-equilibrium dynamic covalent chemistry. Journal of the American Chemical Society. 2024;146(49):33386-33394. doi:10.1021/jacs.4c09111 apa: Sood, A., Mandal, P. K., Ottelé, J., Wu, J., Eleveld, M., Hatai, J., … Otto, S. (2024). Simultaneous formation of a foldamer and a self-replicator by out-of-equilibrium dynamic covalent chemistry. Journal of the American Chemical Society. American Chemical Society. https://doi.org/10.1021/jacs.4c09111 chicago: Sood, Ankush, Pradeep K Mandal, Jim Ottelé, Juntian Wu, Marcel Eleveld, Joydev Hatai, Charalampos G. Pappas, Ivan Huc, and Sijbren Otto. “Simultaneous Formation of a Foldamer and a Self-Replicator by out-of-Equilibrium Dynamic Covalent Chemistry.” Journal of the American Chemical Society. American Chemical Society, 2024. https://doi.org/10.1021/jacs.4c09111. ieee: A. Sood et al., “Simultaneous formation of a foldamer and a self-replicator by out-of-equilibrium dynamic covalent chemistry,” Journal of the American Chemical Society, vol. 146, no. 49. American Chemical Society, pp. 33386–33394, 2024. ista: Sood A, Mandal PK, Ottelé J, Wu J, Eleveld M, Hatai J, Pappas CG, Huc I, Otto S. 2024. Simultaneous formation of a foldamer and a self-replicator by out-of-equilibrium dynamic covalent chemistry. Journal of the American Chemical Society. 146(49), 33386–33394. mla: Sood, Ankush, et al. “Simultaneous Formation of a Foldamer and a Self-Replicator by out-of-Equilibrium Dynamic Covalent Chemistry.” Journal of the American Chemical Society, vol. 146, no. 49, American Chemical Society, 2024, pp. 33386–94, doi:10.1021/jacs.4c09111. short: A. Sood, P.K. Mandal, J. Ottelé, J. Wu, M. Eleveld, J. Hatai, C.G. Pappas, I. Huc, S. Otto, Journal of the American Chemical Society 146 (2024) 33386–33394. date_created: 2026-01-08T07:06:27Z date_published: 2024-11-26T00:00:00Z date_updated: 2026-01-19T10:57:53Z day: '26' doi: 10.1021/jacs.4c09111 extern: '1' external_id: pmid: - '39590110' fulldoi: https://doi.org/10.1021/jacs.4c09111 has_accepted_license: '1' intvolume: ' 146' issue: '49' keyword: - Fibers - Foldamers - Macrocycles - Monomers - Peptides - Proteins language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1021/jacs.4c09111 month: '11' oa: 1 oa_version: Published Version page: 33386-33394 pmid: 1 publication: Journal of the American Chemical Society publication_identifier: eissn: - 1520-5126 issn: - 0002-7863 publication_status: published publisher: American Chemical Society quality_controlled: '1' scopus_import: '1' status: public title: Simultaneous formation of a foldamer and a self-replicator by out-of-equilibrium dynamic covalent chemistry 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 146 year: '2024' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '20967' abstract: - lang: eng text: A biotinylated helical aromatic oligoamide foldamer equivalent in size to a 24mer peptide was designed without any prejudice other than to display various polar and hydrophobic side chains at its surface. It was synthesized on solid phase, its P- and M-helical conformers were separated by HPLC on a chiral stationary phase, and the solid state structure of a non-biotinylated analogue was elucidated by X-ray crystallography. Pull-down experiments from a yeast cell lysate using the foldamer as a bait followed by proteomic analysis revealed potential protein binding partners. Three of these proteins were recombinantly expressed. Biolayer interferometry showed submicromolar binding demonstrating the potential of a given foldamer to have affinity for certain proteins in the absence of design considerations. Yet, binding selectivity was low in all three cases since both P- and M-conformers bound to the proteins with similar affinities. article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Sunbum full_name: Kwon, Sunbum last_name: Kwon - first_name: Vasily full_name: Morozov, Vasily last_name: Morozov - first_name: Lingfei full_name: Wang, Lingfei last_name: Wang - first_name: Pradeep K full_name: Mandal, Pradeep K id: 6a3def15-d4b4-11ef-9fa9-a24c1f545ec3 last_name: Mandal orcid: 0000-0001-5996-956X - first_name: Stéphane full_name: Chaignepain, Stéphane last_name: Chaignepain - first_name: Céline full_name: Douat, Céline last_name: Douat - first_name: Ivan full_name: Huc, Ivan last_name: Huc citation: ama: Kwon S, Morozov V, Wang L, et al. Interrogating the potential of helical aromatic foldamers for protein recognition. Organic & Biomolecular Chemistry. 2024;22(48):9342-9347. doi:10.1039/d4ob01436g apa: Kwon, S., Morozov, V., Wang, L., Mandal, P. K., Chaignepain, S., Douat, C., & Huc, I. (2024). Interrogating the potential of helical aromatic foldamers for protein recognition. Organic & Biomolecular Chemistry. Royal Society of Chemistry. https://doi.org/10.1039/d4ob01436g chicago: Kwon, Sunbum, Vasily Morozov, Lingfei Wang, Pradeep K Mandal, Stéphane Chaignepain, Céline Douat, and Ivan Huc. “Interrogating the Potential of Helical Aromatic Foldamers for Protein Recognition.” Organic & Biomolecular Chemistry. Royal Society of Chemistry, 2024. https://doi.org/10.1039/d4ob01436g. ieee: S. Kwon et al., “Interrogating the potential of helical aromatic foldamers for protein recognition,” Organic & Biomolecular Chemistry, vol. 22, no. 48. Royal Society of Chemistry, pp. 9342–9347, 2024. ista: Kwon S, Morozov V, Wang L, Mandal PK, Chaignepain S, Douat C, Huc I. 2024. Interrogating the potential of helical aromatic foldamers for protein recognition. Organic & Biomolecular Chemistry. 22(48), 9342–9347. mla: Kwon, Sunbum, et al. “Interrogating the Potential of Helical Aromatic Foldamers for Protein Recognition.” Organic & Biomolecular Chemistry, vol. 22, no. 48, Royal Society of Chemistry, 2024, pp. 9342–47, doi:10.1039/d4ob01436g. short: S. Kwon, V. Morozov, L. Wang, P.K. Mandal, S. Chaignepain, C. Douat, I. Huc, Organic & Biomolecular Chemistry 22 (2024) 9342–9347. date_created: 2026-01-11T14:32:23Z date_published: 2024-10-30T00:00:00Z date_updated: 2026-01-20T06:56:44Z day: '30' doi: 10.1039/d4ob01436g extern: '1' external_id: pmid: - '39501876' fulldoi: https://doi.org/10.1039/d4ob01436g has_accepted_license: '1' intvolume: ' 22' issue: '48' language: - iso: eng license: https://creativecommons.org/licenses/by/3.0/ main_file_link: - open_access: '1' url: https://doi.org/10.1039/D4OB01436G month: '10' oa: 1 oa_version: Published Version page: 9342-9347 pmid: 1 publication: Organic & Biomolecular Chemistry publication_identifier: eissn: - 1477-0539 issn: - 1477-0520 publication_status: published publisher: Royal Society of Chemistry quality_controlled: '1' scopus_import: '1' status: public title: Interrogating the potential of helical aromatic foldamers for protein recognition tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/3.0/legalcode name: Creative Commons Attribution 3.0 Unported (CC BY 3.0) short: CC BY (3.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 22 year: '2024' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold PlanS_conform: '1' _id: '21064' abstract: - lang: eng text: The James Webb Space Telescope (JWST) is revolutionizing our knowledge of z > 5 galaxies and their actively accreting black holes. Using the JWST Cycle 1 Treasury program Ultradeep NIRSpec and NIRCam Observations before the Epoch of Reionization (UNCOVER) in the lensing field A2744, we report the identification of a sample of little red dots at 3 < zphot < 7 that likely contain highly reddened accreting supermassive black holes. Using a NIRCam-only selection to F444W < 27.7 mag, we find 26 sources over the ∼45 arcmin^2 field that are blue in F115W − F200W ∼ 0 (or βUV ∼ –2.0 for fλ ∝ λ^β), red in F200W − F444W = 1−4 (βopt ∼ +2.0), and are dominated by a point-source-like central component. Of the 20 sources with deep Atacama Large Millimeter/submillimeter Array (ALMA) 1.2 mm coverage, none are detected individually or in a stack. For the majority of the sample, spectral energy distribution fits to the JWST+ALMA observations prefer models with hot dust rather than obscured star formation to reproduce the red NIRCam colors and ALMA 1.2 mm nondetections. While compact dusty star formation cannot be ruled out, the combination of extremely small sizes (〈re〉 ≈ 50 pc after correction for magnification), red rest-frame optical slopes, and hot dust can be explained by reddened broad-line active galactic nuclei (AGNs). Our targets have faint M1450 ≈ −14 to −18 mag but inferred bolometric luminosities of Lbol = 10^43–10^46 erg s^−1, reflecting their obscured nature. If the candidates are confirmed as AGNs with upcoming UNCOVER spectroscopy, then we have found an abundant population of reddened luminous AGNs that are at least ten times more numerous than UV-luminous AGNs at the same intrinsic bolometric luminosity. acknowledgement: 'I.L. acknowledges support from Australian Research Council Future Fellowship FT220100798. J.E.G. and A.D.G acknowledge support from NSF/AAG grant #1007094, and J.E.G. also acknowledges support from NSF/AAG grant #1007052. L.J.F. and A.Z. acknowledge support by Grant No. 2020750 from the United States–Israel Binational Science Foundation (BSF) and grant No. 2109066 from the United States National Science Foundation (NSF), and by the Ministry of Science & Technology of Israel. The Cosmic Dawn Center is funded by the Danish National Research Foundation (DNRF) under grant #140. This work has received funding from the Swiss State Secretariat for Education, Research and Innovation (SERI) under contract number MB22.00072, as well as from the Swiss National Science Foundation (SNSF) through project grant 200020_207349. P.D. acknowledges support from the NWO grant 016.VIDI.189.162 (“ODIN”) and from the European Commission’s and University of Groningen’s CO-FUND Rosalind Franklin program. R.P.N. acknowledges funding from JWST programs GO-1933 and GO-2279. Support for this work was provided by NASA through the NASA Hubble Fellowship grant HST-HF2-51515.001-A awarded by the Space Telescope Science Institute, which is operated by the Association of Universities for Research in Astronomy, Incorporated, under NASA contract NAS5-26555. This paper makes use of the ALMA data: ADS/JAO. ALMA #2022.1.00073.S, 2018.1.00035.L, and 2013.1.00999.S. ALMA is a partnership of ESO (representing its member states), NSF (USA) and NINS (Japan), together with NRC (Canada), MOST and ASIAA (Taiwan), and KASI (Republic of Korea), in cooperation with the Republic of Chile. The Joint ALMA Observatory is operated by ESO, AUI/NRAO and NAOJ. The research of C.C.W. is supported by NOIRLab, which is managed by the Association of Universities for Research in Astronomy (AURA) under a cooperative agreement with the National Science Foundation.' article_number: '92' article_processing_charge: Yes article_type: original arxiv: 1 author: - first_name: Ivo full_name: Labbe, Ivo last_name: Labbe - first_name: Jenny E. full_name: Greene, Jenny E. last_name: Greene - first_name: Rachel full_name: Bezanson, Rachel last_name: Bezanson - first_name: Seiji full_name: Fujimoto, Seiji last_name: Fujimoto - first_name: Lukas J. full_name: Furtak, Lukas J. last_name: Furtak - first_name: Andy D. full_name: Goulding, Andy D. last_name: Goulding - first_name: Jorryt J full_name: Matthee, Jorryt J id: 7439a258-f3c0-11ec-9501-9df22fe06720 last_name: Matthee orcid: 0000-0003-2871-127X - first_name: Rohan P. full_name: Naidu, Rohan P. last_name: Naidu - first_name: Pascal A. full_name: Oesch, Pascal A. last_name: Oesch - first_name: Hakim full_name: Atek, Hakim last_name: Atek - first_name: Gabriel full_name: Brammer, Gabriel last_name: Brammer - first_name: Iryna full_name: Chemerynska, Iryna last_name: Chemerynska - first_name: Dan full_name: Coe, Dan last_name: Coe - first_name: Sam E. full_name: Cutler, Sam E. last_name: Cutler - first_name: Pratika full_name: Dayal, Pratika last_name: Dayal - first_name: Robert full_name: Feldmann, Robert last_name: Feldmann - first_name: Marijn full_name: Franx, Marijn last_name: Franx - first_name: Karl full_name: Glazebrook, Karl last_name: Glazebrook - first_name: Joel full_name: Leja, Joel last_name: Leja - first_name: Michael full_name: Maseda, Michael last_name: Maseda - first_name: Danilo full_name: Marchesini, Danilo last_name: Marchesini - first_name: Themiya full_name: Nanayakkara, Themiya last_name: Nanayakkara - first_name: Erica J. full_name: Nelson, Erica J. last_name: Nelson - first_name: Richard full_name: Pan, Richard last_name: Pan - first_name: Casey full_name: Papovich, Casey last_name: Papovich - first_name: Sedona H. full_name: Price, Sedona H. last_name: Price - first_name: Katherine A. full_name: Suess, Katherine A. last_name: Suess - first_name: Bingjie 冰洁 full_name: Wang, Bingjie 冰洁 last_name: Wang - first_name: John R. full_name: Weaver, John R. last_name: Weaver - first_name: Katherine E. full_name: Whitaker, Katherine E. last_name: Whitaker - first_name: Christina C. full_name: Williams, Christina C. last_name: Williams - first_name: Adi full_name: Zitrin, Adi last_name: Zitrin citation: ama: 'Labbe I, Greene JE, Bezanson R, et al. UNCOVER: Candidate red active galactic nuclei at 3 < z < 7 with JWST and ALMA. The Astrophysical Journal. 2024;978. doi:10.3847/1538-4357/ad3551' apa: 'Labbe, I., Greene, J. E., Bezanson, R., Fujimoto, S., Furtak, L. J., Goulding, A. D., … Zitrin, A. (2024). UNCOVER: Candidate red active galactic nuclei at 3 < z < 7 with JWST and ALMA. The Astrophysical Journal. IOP Publishing. https://doi.org/10.3847/1538-4357/ad3551' chicago: 'Labbe, Ivo, Jenny E. Greene, Rachel Bezanson, Seiji Fujimoto, Lukas J. Furtak, Andy D. Goulding, Jorryt J Matthee, et al. “UNCOVER: Candidate Red Active Galactic Nuclei at 3 < z < 7 with JWST and ALMA.” The Astrophysical Journal. IOP Publishing, 2024. https://doi.org/10.3847/1538-4357/ad3551.' ieee: 'I. Labbe et al., “UNCOVER: Candidate red active galactic nuclei at 3 < z < 7 with JWST and ALMA,” The Astrophysical Journal, vol. 978. IOP Publishing, 2024.' ista: 'Labbe I, Greene JE, Bezanson R, Fujimoto S, Furtak LJ, Goulding AD, Matthee JJ, Naidu RP, Oesch PA, Atek H, Brammer G, Chemerynska I, Coe D, Cutler SE, Dayal P, Feldmann R, Franx M, Glazebrook K, Leja J, Maseda M, Marchesini D, Nanayakkara T, Nelson EJ, Pan R, Papovich C, Price SH, Suess KA, Wang B冰洁, Weaver JR, Whitaker KE, Williams CC, Zitrin A. 2024. UNCOVER: Candidate red active galactic nuclei at 3 < z < 7 with JWST and ALMA. The Astrophysical Journal. 978, 92.' mla: 'Labbe, Ivo, et al. “UNCOVER: Candidate Red Active Galactic Nuclei at 3 < z < 7 with JWST and ALMA.” The Astrophysical Journal, vol. 978, 92, IOP Publishing, 2024, doi:10.3847/1538-4357/ad3551.' short: I. Labbe, J.E. Greene, R. Bezanson, S. Fujimoto, L.J. Furtak, A.D. Goulding, J.J. Matthee, R.P. Naidu, P.A. Oesch, H. Atek, G. Brammer, I. Chemerynska, D. Coe, S.E. Cutler, P. Dayal, R. Feldmann, M. Franx, K. Glazebrook, J. Leja, M. Maseda, D. Marchesini, T. Nanayakkara, E.J. Nelson, R. Pan, C. Papovich, S.H. Price, K.A. Suess, B.冰洁 Wang, J.R. Weaver, K.E. Whitaker, C.C. Williams, A. Zitrin, The Astrophysical Journal 978 (2024). date_created: 2026-01-28T15:26:12Z date_published: 2024-12-26T00:00:00Z date_updated: 2026-02-10T06:49:49Z day: '26' ddc: - '520' department: - _id: JoMa doi: 10.3847/1538-4357/ad3551 external_id: arxiv: - '2306.07320' file: - access_level: open_access checksum: 825c35ebd26e292c8a5c2bffac327854 content_type: application/pdf creator: dernst date_created: 2026-02-10T06:44:24Z date_updated: 2026-02-10T06:44:24Z file_id: '21201' file_name: 2024_AstrophysicalJourn_Labbe.pdf file_size: 5041924 relation: main_file success: 1 file_date_updated: 2026-02-10T06:44:24Z fulldoi: https://doi.org/10.3847/1538-4357/ad3551 has_accepted_license: '1' intvolume: ' 978' language: - iso: eng month: '12' oa: 1 oa_version: Published Version publication: The Astrophysical Journal publication_identifier: eissn: - 1538-4357 issn: - 0004-637X publication_status: published publisher: IOP Publishing quality_controlled: '1' scopus_import: '1' status: public title: 'UNCOVER: Candidate red active galactic nuclei at 3 < z < 7 with JWST and ALMA' 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 978 year: '2024' ... --- OA_place: repository OA_type: green _id: '21304' abstract: - lang: eng text: No description provided. article_processing_charge: No author: - first_name: Miguel full_name: Santana de Freitas Amaral, Miguel id: 4f2d02dd-47a9-11ec-ad10-82820ed3f501 last_name: Santana de Freitas Amaral citation: ama: 'Santana de Freitas Amaral M. archaeal_membranes : code and examples. 2024. doi:10.5281/ZENODO.13934991' apa: 'Santana de Freitas Amaral, M. (2024). archaeal_membranes : code and examples. Zenodo. https://doi.org/10.5281/ZENODO.13934991' chicago: 'Santana de Freitas Amaral, Miguel. “Archaeal_membranes : Code and Examples.” Zenodo, 2024. https://doi.org/10.5281/ZENODO.13934991.' ieee: 'M. Santana de Freitas Amaral, “archaeal_membranes : code and examples.” Zenodo, 2024.' ista: 'Santana de Freitas Amaral M. 2024. archaeal_membranes : code and examples, Zenodo, 10.5281/ZENODO.13934991.' mla: 'Santana de Freitas Amaral, Miguel. Archaeal_membranes : Code and Examples. Zenodo, 2024, doi:10.5281/ZENODO.13934991.' short: M. Santana de Freitas Amaral, (2024). corr_author: '1' date_created: 2026-02-17T12:52:26Z date_published: 2024-10-15T00:00:00Z date_updated: 2026-02-23T11:49:05Z day: '15' department: - _id: AnSa doi: 10.5281/ZENODO.13934991 fulldoi: https://doi.org/10.5281/ZENODO.13934991 has_accepted_license: '1' main_file_link: - open_access: '1' url: https://doi.org/10.5281/ZENODO.13934991 month: '10' oa: 1 oa_version: Published Version publisher: Zenodo related_material: record: - id: '21251' relation: used_for_analysis_in status: public status: public title: 'archaeal_membranes : code and examples' 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: research_data_reference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2024' ...