--- _id: '13065' abstract: - lang: eng text: Domestication is a human-induced selection process that imprints the genomes of domesticated populations over a short evolutionary time scale, and that occurs in a given demographic context. Reconstructing historical gene flow, effective population size changes and their timing is therefore of fundamental interest to understand how plant demography and human selection jointly shape genomic divergence during domestication. Yet, the comparison under a single statistical framework of independent domestication histories across different crop species has been little evaluated so far. Thus, it is unclear whether domestication leads to convergent demographic changes that similarly affect crop genomes. To address this question, we used existing and new transcriptome data on three crop species of Solanaceae (eggplant, pepper and tomato), together with their close wild relatives. We fitted twelve demographic models of increasing complexity on the unfolded joint allele frequency spectrum for each wild/crop pair, and we found evidence for both shared and species-specific demographic processes between species. A convergent history of domestication with gene-flow was inferred for all three species, along with evidence of strong reduction in the effective population size during the cultivation stage of tomato and pepper. The absence of any reduction in size of the crop in eggplant stands out from the classical view of the domestication process; as does the existence of a “protracted period” of management before cultivation. Our results also suggest divergent management strategies of modern cultivars among species as their current demography substantially differs. Finally, the timing of domestication is species-specific and supported by the few historical records available. article_processing_charge: No author: - first_name: Stephanie full_name: Arnoux, Stephanie last_name: Arnoux - first_name: Christelle full_name: Fraisse, Christelle id: 32DF5794-F248-11E8-B48F-1D18A9856A87 last_name: Fraisse orcid: 0000-0001-8441-5075 - first_name: Christopher full_name: Sauvage, Christopher last_name: Sauvage citation: ama: 'Arnoux S, Fraisse C, Sauvage C. VCF files of synonymous SNPs related to: Genomic inference of complex domestication histories in three Solanaceae species. 2020. doi:10.5061/DRYAD.Q2BVQ83HD' apa: 'Arnoux, S., Fraisse, C., & Sauvage, C. (2020). VCF files of synonymous SNPs related to: Genomic inference of complex domestication histories in three Solanaceae species. Dryad. https://doi.org/10.5061/DRYAD.Q2BVQ83HD' chicago: 'Arnoux, Stephanie, Christelle Fraisse, and Christopher Sauvage. “VCF Files of Synonymous SNPs Related to: Genomic Inference of Complex Domestication Histories in Three Solanaceae Species.” Dryad, 2020. https://doi.org/10.5061/DRYAD.Q2BVQ83HD.' ieee: 'S. Arnoux, C. Fraisse, and C. Sauvage, “VCF files of synonymous SNPs related to: Genomic inference of complex domestication histories in three Solanaceae species.” Dryad, 2020.' ista: 'Arnoux S, Fraisse C, Sauvage C. 2020. VCF files of synonymous SNPs related to: Genomic inference of complex domestication histories in three Solanaceae species, Dryad, 10.5061/DRYAD.Q2BVQ83HD.' mla: 'Arnoux, Stephanie, et al. VCF Files of Synonymous SNPs Related to: Genomic Inference of Complex Domestication Histories in Three Solanaceae Species. Dryad, 2020, doi:10.5061/DRYAD.Q2BVQ83HD.' short: S. Arnoux, C. Fraisse, C. Sauvage, (2020). date_created: 2023-05-23T16:30:20Z date_published: 2020-10-19T00:00:00Z date_updated: 2025-07-10T12:01:27Z day: '19' ddc: - '570' department: - _id: NiBa doi: 10.5061/DRYAD.Q2BVQ83HD license: https://creativecommons.org/publicdomain/zero/1.0/ main_file_link: - open_access: '1' url: https://doi.org/10.5061/dryad.q2bvq83hd month: '10' oa: 1 oa_version: Published Version publisher: Dryad related_material: link: - relation: software url: https://github.com/starnoux/arnoux_et_al_2019 record: - id: '8928' relation: used_in_publication status: public status: public title: 'VCF files of synonymous SNPs related to: Genomic inference of complex domestication histories in three Solanaceae species' tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data_reference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '13071' abstract: - lang: eng text: This dataset comprises all data shown in the plots of the main part of the submitted article "Bidirectional Electro-Optic Wavelength Conversion in the Quantum Ground State". Additional raw data are available from the corresponding author on reasonable request. article_processing_charge: No author: - first_name: William J full_name: Hease, William J id: 29705398-F248-11E8-B48F-1D18A9856A87 last_name: Hease orcid: 0000-0001-9868-2166 - first_name: Alfredo R full_name: Rueda Sanchez, Alfredo R id: 3B82B0F8-F248-11E8-B48F-1D18A9856A87 last_name: Rueda Sanchez orcid: 0000-0001-6249-5860 - first_name: Rishabh full_name: Sahu, Rishabh id: 47D26E34-F248-11E8-B48F-1D18A9856A87 last_name: Sahu orcid: 0000-0001-6264-2162 - first_name: Matthias full_name: Wulf, Matthias id: 45598606-F248-11E8-B48F-1D18A9856A87 last_name: Wulf orcid: 0000-0001-6613-1378 - first_name: Georg M full_name: Arnold, Georg M id: 3770C838-F248-11E8-B48F-1D18A9856A87 last_name: Arnold orcid: 0000-0003-1397-7876 - first_name: Harald full_name: Schwefel, Harald last_name: Schwefel - first_name: Johannes M full_name: Fink, Johannes M id: 4B591CBA-F248-11E8-B48F-1D18A9856A87 last_name: Fink orcid: 0000-0001-8112-028X citation: ama: Hease WJ, Rueda Sanchez AR, Sahu R, et al. Bidirectional electro-optic wavelength conversion in the quantum ground state. 2020. doi:10.5281/ZENODO.4266025 apa: Hease, W. J., Rueda Sanchez, A. R., Sahu, R., Wulf, M., Arnold, G. M., Schwefel, H., & Fink, J. M. (2020). Bidirectional electro-optic wavelength conversion in the quantum ground state. Zenodo. https://doi.org/10.5281/ZENODO.4266025 chicago: Hease, William J, Alfredo R Rueda Sanchez, Rishabh Sahu, Matthias Wulf, Georg M Arnold, Harald Schwefel, and Johannes M Fink. “Bidirectional Electro-Optic Wavelength Conversion in the Quantum Ground State.” Zenodo, 2020. https://doi.org/10.5281/ZENODO.4266025. ieee: W. J. Hease et al., “Bidirectional electro-optic wavelength conversion in the quantum ground state.” Zenodo, 2020. ista: Hease WJ, Rueda Sanchez AR, Sahu R, Wulf M, Arnold GM, Schwefel H, Fink JM. 2020. Bidirectional electro-optic wavelength conversion in the quantum ground state, Zenodo, 10.5281/ZENODO.4266025. mla: Hease, William J., et al. Bidirectional Electro-Optic Wavelength Conversion in the Quantum Ground State. Zenodo, 2020, doi:10.5281/ZENODO.4266025. short: W.J. Hease, A.R. Rueda Sanchez, R. Sahu, M. Wulf, G.M. Arnold, H. Schwefel, J.M. Fink, (2020). corr_author: '1' date_created: 2023-05-23T16:44:11Z date_published: 2020-11-10T00:00:00Z date_updated: 2026-01-07T11:18:30Z day: '10' ddc: - '530' department: - _id: JoFi doi: 10.5281/ZENODO.4266025 license: https://creativecommons.org/licenses/by/4.0/ main_file_link: - open_access: '1' url: https://doi.org/10.5281/zenodo.4266026 month: '11' oa: 1 oa_version: Published Version publisher: Zenodo related_material: record: - id: '9114' relation: used_in_publication status: public status: public title: Bidirectional electro-optic wavelength conversion in the quantum ground state 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: '2020' ... --- _id: '13073' abstract: - lang: eng text: The Mytilus complex of marine mussel species forms a mosaic of hybrid zones, found across temperate regions of the globe. This allows us to study "replicated" instances of secondary contact between closely-related species. Previous work on this complex has shown that local introgression is both widespread and highly heterogeneous, and has identified SNPs that are outliers of differentiation between lineages. Here, we developed an ancestry-informative panel of such SNPs. We then compared their frequencies in newly-sampled populations, including samples from within the hybrid zones, and parental populations at different distances from the contact. Results show that close to the hybrid zones, some outlier loci are near to fixation for the heterospecific allele, suggesting enhanced local introgression, or the local sweep of a shared ancestral allele. Conversely, genomic cline analyses, treating local parental populations as the reference, reveal a globally high concordance among loci, albeit with a few signals of asymmetric introgression. Enhanced local introgression at specific loci is consistent with the early transfer of adaptive variants after contact, possibly including asymmetric bi-stable variants (Dobzhansky-Muller incompatibilities), or haplotypes loaded with fewer deleterious mutations. Having escaped one barrier, however, these variants can be trapped or delayed at the next barrier, confining the introgression locally. These results shed light on the decay of species barriers during phases of contact. article_processing_charge: No author: - first_name: Alexis full_name: Simon, Alexis last_name: Simon - first_name: Christelle full_name: Fraisse, Christelle id: 32DF5794-F248-11E8-B48F-1D18A9856A87 last_name: Fraisse orcid: 0000-0001-8441-5075 - first_name: Tahani full_name: El Ayari, Tahani last_name: El Ayari - first_name: Cathy full_name: Liautard-Haag, Cathy last_name: Liautard-Haag - first_name: Petr full_name: Strelkov, Petr last_name: Strelkov - first_name: John full_name: Welch, John last_name: Welch - first_name: Nicolas full_name: Bierne, Nicolas last_name: Bierne citation: ama: Simon A, Fraisse C, El Ayari T, et al. How do species barriers decay? concordance and local introgression in mosaic hybrid zones of mussels. 2020. doi:10.5061/DRYAD.R4XGXD29N apa: Simon, A., Fraisse, C., El Ayari, T., Liautard-Haag, C., Strelkov, P., Welch, J., & Bierne, N. (2020). How do species barriers decay? concordance and local introgression in mosaic hybrid zones of mussels. Dryad. https://doi.org/10.5061/DRYAD.R4XGXD29N chicago: Simon, Alexis, Christelle Fraisse, Tahani El Ayari, Cathy Liautard-Haag, Petr Strelkov, John Welch, and Nicolas Bierne. “How Do Species Barriers Decay? Concordance and Local Introgression in Mosaic Hybrid Zones of Mussels.” Dryad, 2020. https://doi.org/10.5061/DRYAD.R4XGXD29N. ieee: A. Simon et al., “How do species barriers decay? concordance and local introgression in mosaic hybrid zones of mussels.” Dryad, 2020. ista: Simon A, Fraisse C, El Ayari T, Liautard-Haag C, Strelkov P, Welch J, Bierne N. 2020. How do species barriers decay? concordance and local introgression in mosaic hybrid zones of mussels, Dryad, 10.5061/DRYAD.R4XGXD29N. mla: Simon, Alexis, et al. How Do Species Barriers Decay? Concordance and Local Introgression in Mosaic Hybrid Zones of Mussels. Dryad, 2020, doi:10.5061/DRYAD.R4XGXD29N. short: A. Simon, C. Fraisse, T. El Ayari, C. Liautard-Haag, P. Strelkov, J. Welch, N. Bierne, (2020). date_created: 2023-05-23T16:48:27Z date_published: 2020-09-22T00:00:00Z date_updated: 2025-07-10T12:01:22Z day: '22' ddc: - '570' department: - _id: NiBa doi: 10.5061/DRYAD.R4XGXD29N main_file_link: - open_access: '1' url: https://doi.org/10.5061/dryad.r4xgxd29n month: '09' oa: 1 oa_version: Published Version publisher: Dryad related_material: record: - id: '8708' relation: used_in_publication status: public status: public title: How do species barriers decay? concordance and local introgression in mosaic hybrid zones of mussels tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data_reference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '13341' abstract: - lang: eng text: "Scanning nanoscale superconducting quantum interference devices (nanoSQUIDs)\r\nare of growing interest for highly sensitive quantitative imaging of magnetic,\r\nspintronic, and transport properties of low-dimensional systems. Utilizing\r\nspecifically designed grooved quartz capillaries pulled into a sharp pipette,\r\nwe have fabricated the smallest SQUID-on-tip (SOT) devices with effective\r\ndiameters down to 39 nm. Integration of a resistive shunt in close proximity to\r\nthe pipette apex combined with self-aligned deposition of In and Sn, have\r\nresulted in SOT with a flux noise of 42 n$\\Phi_0$Hz$^{-1/2}$, yielding a record\r\nlow spin noise of 0.29 $\\mu_B$Hz$^{-1/2}$. In addition, the new SOTs function\r\nat sub-Kelvin temperatures and in high magnetic fields of over 2.5 T.\r\nIntegrating the SOTs into a scanning probe microscope allowed us to image the\r\nstray field of a single Fe$_3$O$_4$ nanocube at 300 mK. Our results show that\r\nthe easy magnetization axis direction undergoes a transition from the (111)\r\ndirection at room temperature to an in-plane orientation, which could be\r\nattributed to the Verwey phase transition in Fe$_3$O$_4$." article_processing_charge: No article_type: original arxiv: 1 author: - first_name: Y. full_name: Anahory, Y. last_name: Anahory - first_name: H. R. full_name: Naren, H. R. last_name: Naren - first_name: E. O. full_name: Lachman, E. O. last_name: Lachman - first_name: S. Buhbut full_name: Sinai, S. Buhbut last_name: Sinai - first_name: A. full_name: Uri, A. last_name: Uri - first_name: L. full_name: Embon, L. last_name: Embon - first_name: E. full_name: Yaakobi, E. last_name: Yaakobi - first_name: Y. full_name: Myasoedov, Y. last_name: Myasoedov - first_name: M. E. full_name: Huber, M. E. last_name: Huber - first_name: Rafal full_name: Klajn, Rafal id: 8e84690e-1e48-11ed-a02b-a1e6fb8bb53b last_name: Klajn - first_name: E. full_name: Zeldov, E. last_name: Zeldov citation: ama: Anahory Y, Naren HR, Lachman EO, et al. SQUID-on-tip with single-electron spin sensitivity for high-field and ultra-low temperature nanomagnetic imaging. Nanoscale. 2020;12(5):3174-3182. doi:10.1039/C9NR08578E apa: Anahory, Y., Naren, H. R., Lachman, E. O., Sinai, S. B., Uri, A., Embon, L., … Zeldov, E. (2020). SQUID-on-tip with single-electron spin sensitivity for high-field and ultra-low temperature nanomagnetic imaging. Nanoscale. Royal Society of Chemistry. https://doi.org/10.1039/C9NR08578E chicago: Anahory, Y., H. R. Naren, E. O. Lachman, S. Buhbut Sinai, A. Uri, L. Embon, E. Yaakobi, et al. “SQUID-on-Tip with Single-Electron Spin Sensitivity for High-Field and Ultra-Low Temperature Nanomagnetic Imaging.” Nanoscale. Royal Society of Chemistry, 2020. https://doi.org/10.1039/C9NR08578E. ieee: Y. Anahory et al., “SQUID-on-tip with single-electron spin sensitivity for high-field and ultra-low temperature nanomagnetic imaging,” Nanoscale, vol. 12, no. 5. Royal Society of Chemistry, pp. 3174–3182, 2020. ista: Anahory Y, Naren HR, Lachman EO, Sinai SB, Uri A, Embon L, Yaakobi E, Myasoedov Y, Huber ME, Klajn R, Zeldov E. 2020. SQUID-on-tip with single-electron spin sensitivity for high-field and ultra-low temperature nanomagnetic imaging. Nanoscale. 12(5), 3174–3182. mla: Anahory, Y., et al. “SQUID-on-Tip with Single-Electron Spin Sensitivity for High-Field and Ultra-Low Temperature Nanomagnetic Imaging.” Nanoscale, vol. 12, no. 5, Royal Society of Chemistry, 2020, pp. 3174–82, doi:10.1039/C9NR08578E. short: Y. Anahory, H.R. Naren, E.O. Lachman, S.B. Sinai, A. Uri, L. Embon, E. Yaakobi, Y. Myasoedov, M.E. Huber, R. Klajn, E. Zeldov, Nanoscale 12 (2020) 3174–3182. date_created: 2023-08-01T08:27:12Z date_published: 2020-01-10T00:00:00Z date_updated: 2023-08-02T09:35:52Z day: '10' doi: 10.1039/C9NR08578E extern: '1' external_id: arxiv: - '2001.03342' intvolume: ' 12' issue: '5' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2001.03342 month: '01' oa: 1 oa_version: Preprint page: 3174-3182 publication: Nanoscale publication_identifier: eissn: - 2040-3372 publication_status: published publisher: Royal Society of Chemistry quality_controlled: '1' scopus_import: '1' status: public title: SQUID-on-tip with single-electron spin sensitivity for high-field and ultra-low temperature nanomagnetic imaging type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 12 year: '2020' ... --- OA_place: repository OA_type: green _id: '19807' abstract: - lang: eng text: Microstructures can be carefully designed to reveal the quantum phase of the wave-like nature of electrons in a metal. Here, we report phase-coherent oscillations of out-of-plane magnetoresistance in the layered delafossites PdCoO2 and PtCoO2. The oscillation period is equivalent to that determined by the magnetic flux quantum, h/e, threading an area defined by the atomic interlayer separation and the sample width, where h is Planck’s constant and e is the charge of an electron. The phase of the electron wave function appears robust over length scales exceeding 10 micrometers and persisting up to temperatures of T > 50 kelvin. We show that the experimental signal stems from a periodic field modulation of the out-of-plane hopping. These results demonstrate extraordinary single-particle quantum coherence lengths in delafossites. article_processing_charge: No article_type: original arxiv: 1 author: - first_name: Carsten full_name: Putzke, Carsten last_name: Putzke - first_name: Maja D. full_name: Bachmann, Maja D. last_name: Bachmann - first_name: Philippa full_name: McGuinness, Philippa last_name: McGuinness - first_name: Elina full_name: Zhakina, Elina last_name: Zhakina - first_name: Veronika full_name: Sunko, Veronika id: 23cb1cf6-2c7a-11ef-91a4-f72fc19f20b3 last_name: Sunko orcid: 0000-0003-2724-3523 - first_name: Marcin full_name: Konczykowski, Marcin last_name: Konczykowski - first_name: Takashi full_name: Oka, Takashi last_name: Oka - first_name: Roderich full_name: Moessner, Roderich last_name: Moessner - first_name: Ady full_name: Stern, Ady last_name: Stern - first_name: Markus full_name: König, Markus last_name: König - first_name: Seunghyun full_name: Khim, Seunghyun last_name: Khim - first_name: Andrew P. full_name: Mackenzie, Andrew P. last_name: Mackenzie - first_name: Philip J.W. full_name: Moll, Philip J.W. last_name: Moll citation: ama: Putzke C, Bachmann MD, McGuinness P, et al. h/e oscillations in interlayer transport of delafossites. Science. 2020;368(6496):1234-1238. doi:10.1126/science.aay8413 apa: Putzke, C., Bachmann, M. D., McGuinness, P., Zhakina, E., Sunko, V., Konczykowski, M., … Moll, P. J. W. (2020). h/e oscillations in interlayer transport of delafossites. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.aay8413 chicago: Putzke, Carsten, Maja D. Bachmann, Philippa McGuinness, Elina Zhakina, Veronika Sunko, Marcin Konczykowski, Takashi Oka, et al. “H/e Oscillations in Interlayer Transport of Delafossites.” Science. American Association for the Advancement of Science, 2020. https://doi.org/10.1126/science.aay8413. ieee: C. Putzke et al., “h/e oscillations in interlayer transport of delafossites,” Science, vol. 368, no. 6496. American Association for the Advancement of Science, pp. 1234–1238, 2020. ista: Putzke C, Bachmann MD, McGuinness P, Zhakina E, Sunko V, Konczykowski M, Oka T, Moessner R, Stern A, König M, Khim S, Mackenzie AP, Moll PJW. 2020. h/e oscillations in interlayer transport of delafossites. Science. 368(6496), 1234–1238. mla: Putzke, Carsten, et al. “H/e Oscillations in Interlayer Transport of Delafossites.” Science, vol. 368, no. 6496, American Association for the Advancement of Science, 2020, pp. 1234–38, doi:10.1126/science.aay8413. short: C. Putzke, M.D. Bachmann, P. McGuinness, E. Zhakina, V. Sunko, M. Konczykowski, T. Oka, R. Moessner, A. Stern, M. König, S. Khim, A.P. Mackenzie, P.J.W. Moll, Science 368 (2020) 1234–1238. date_created: 2025-06-10T09:11:34Z date_published: 2020-06-12T00:00:00Z date_updated: 2025-06-10T11:27:54Z day: '12' doi: 10.1126/science.aay8413 extern: '1' external_id: arxiv: - '1902.07331' pmid: - '32527829' intvolume: ' 368' issue: '6496' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.1902.07331 month: '06' oa: 1 oa_version: Preprint page: 1234-1238 pmid: 1 publication: Science publication_identifier: eissn: - 1095-9203 issn: - 0036-8075 publication_status: published publisher: American Association for the Advancement of Science quality_controlled: '1' scopus_import: '1' status: public title: h/e oscillations in interlayer transport of delafossites type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 368 year: '2020' ... --- OA_place: publisher OA_type: gold _id: '19812' abstract: - lang: eng text: A nearly free electron metal and a Mott insulating state can be thought of as opposite ends of the spectrum of possibilities for the motion of electrons in a solid. Understanding their interaction lies at the heart of the correlated electron problem. In the magnetic oxide metal PdCrO2, nearly free and Mott-localized electrons exist in alternating layers, forming natural heterostructures. Using angle-resolved photoemission spectroscopy, quantitatively supported by a strong coupling analysis, we show that the coupling between these layers leads to an “intertwined” excitation that is a convolution of the charge spectrum of the metallic layer and the spin susceptibility of the Mott layer. Our findings establish PdCrO2 as a model system in which to probe Kondo lattice physics and also open new routes to use the a priori nonmagnetic probe of photoemission to gain insights into the spin susceptibility of correlated electron materials. article_number: aaz0611 article_processing_charge: Yes article_type: original arxiv: 1 author: - first_name: Veronika full_name: Sunko, Veronika id: 23cb1cf6-2c7a-11ef-91a4-f72fc19f20b3 last_name: Sunko orcid: 0000-0003-2724-3523 - first_name: F. full_name: Mazzola, F. last_name: Mazzola - first_name: S. full_name: Kitamura, S. last_name: Kitamura - first_name: S. full_name: Khim, S. last_name: Khim - first_name: P. full_name: Kushwaha, P. last_name: Kushwaha - first_name: O. J. full_name: Clark, O. J. last_name: Clark - first_name: M. D. full_name: Watson, M. D. last_name: Watson - first_name: I. full_name: Marković, I. last_name: Marković - first_name: D. full_name: Biswas, D. last_name: Biswas - first_name: L. full_name: Pourovskii, L. last_name: Pourovskii - first_name: T. K. full_name: Kim, T. K. last_name: Kim - first_name: T.-L. full_name: Lee, T.-L. last_name: Lee - first_name: P. K. full_name: Thakur, P. K. last_name: Thakur - first_name: H. full_name: Rosner, H. last_name: Rosner - first_name: A. full_name: Georges, A. last_name: Georges - first_name: R. full_name: Moessner, R. last_name: Moessner - first_name: T. full_name: Oka, T. last_name: Oka - first_name: A. P. full_name: Mackenzie, A. P. last_name: Mackenzie - first_name: P. D. C. full_name: King, P. D. C. last_name: King citation: ama: Sunko V, Mazzola F, Kitamura S, et al. Probing spin correlations using angle-resolved photoemission in a coupled metallic/Mott insulator system. Science Advances. 2020;6(6). doi:10.1126/sciadv.aaz0611 apa: Sunko, V., Mazzola, F., Kitamura, S., Khim, S., Kushwaha, P., Clark, O. J., … King, P. D. C. (2020). Probing spin correlations using angle-resolved photoemission in a coupled metallic/Mott insulator system. Science Advances. American Association for the Advancement of Science. https://doi.org/10.1126/sciadv.aaz0611 chicago: Sunko, Veronika, F. Mazzola, S. Kitamura, S. Khim, P. Kushwaha, O. J. Clark, M. D. Watson, et al. “Probing Spin Correlations Using Angle-Resolved Photoemission in a Coupled Metallic/Mott Insulator System.” Science Advances. American Association for the Advancement of Science, 2020. https://doi.org/10.1126/sciadv.aaz0611. ieee: V. Sunko et al., “Probing spin correlations using angle-resolved photoemission in a coupled metallic/Mott insulator system,” Science Advances, vol. 6, no. 6. American Association for the Advancement of Science, 2020. ista: Sunko V, Mazzola F, Kitamura S, Khim S, Kushwaha P, Clark OJ, Watson MD, Marković I, Biswas D, Pourovskii L, Kim TK, Lee T-L, Thakur PK, Rosner H, Georges A, Moessner R, Oka T, Mackenzie AP, King PDC. 2020. Probing spin correlations using angle-resolved photoemission in a coupled metallic/Mott insulator system. Science Advances. 6(6), aaz0611. mla: Sunko, Veronika, et al. “Probing Spin Correlations Using Angle-Resolved Photoemission in a Coupled Metallic/Mott Insulator System.” Science Advances, vol. 6, no. 6, aaz0611, American Association for the Advancement of Science, 2020, doi:10.1126/sciadv.aaz0611. short: V. Sunko, F. Mazzola, S. Kitamura, S. Khim, P. Kushwaha, O.J. Clark, M.D. Watson, I. Marković, D. Biswas, L. Pourovskii, T.K. Kim, T.-L. Lee, P.K. Thakur, H. Rosner, A. Georges, R. Moessner, T. Oka, A.P. Mackenzie, P.D.C. King, Science Advances 6 (2020). date_created: 2025-06-10T09:14:20Z date_published: 2020-02-07T00:00:00Z date_updated: 2025-06-10T13:12:09Z day: '07' doi: 10.1126/sciadv.aaz0611 extern: '1' external_id: arxiv: - '1809.08972' pmid: - '32128385' has_accepted_license: '1' intvolume: ' 6' issue: '6' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1126/sciadv.aaz0611 month: '02' oa: 1 oa_version: Published Version pmid: 1 publication: Science Advances publication_identifier: eissn: - 2375-2548 publication_status: published publisher: American Association for the Advancement of Science quality_controlled: '1' scopus_import: '1' status: public title: Probing spin correlations using angle-resolved photoemission in a coupled metallic/Mott insulator system 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: '2020' ... --- OA_type: closed access _id: '19817' abstract: - lang: eng text: "We report a combined experimental and theoretical study of the surface and bulk electronic structure of aluminium diboride, a nonsuperconducting sister compound of the superconductor MgB2. We perform angle-resolved photoemission measurements with variable photon energy, and compare them to density functional theory calculations to disentangle the surface and bulk contributions to the measured spectra. Aluminium diboride is known to be aluminium deficient, Al1−\U0001D6FF⁢B2, which would be expected to lead to a hole doping as compared to the nominally stoichimoetric compound. Nonetheless, we find that the bulk \U0001D70E states, which mediate superconductivity in MgB2, remain more than 600meV below the Fermi level. However, we also observe \U0001D70E states originating from the boron terminated surface, with an order of magnitude smaller binding energy of 70meV, and demonstrate how surface hole-doping can bring these across the Fermi level." article_number: '035143' article_processing_charge: No article_type: original author: - first_name: Veronika full_name: Sunko, Veronika id: 23cb1cf6-2c7a-11ef-91a4-f72fc19f20b3 last_name: Sunko orcid: 0000-0003-2724-3523 - first_name: D. full_name: Milosavljević, D. last_name: Milosavljević - first_name: F. full_name: Mazzola, F. last_name: Mazzola - first_name: O. J. full_name: Clark, O. J. last_name: Clark - first_name: U. full_name: Burkhardt, U. last_name: Burkhardt - first_name: T. K. full_name: Kim, T. K. last_name: Kim - first_name: H. full_name: Rosner, H. last_name: Rosner - first_name: Yu. full_name: Grin, Yu. last_name: Grin - first_name: A. P. full_name: Mackenzie, A. P. last_name: Mackenzie - first_name: P. D. C. full_name: King, P. D. C. last_name: King citation: ama: Sunko V, Milosavljević D, Mazzola F, et al. Surface and bulk electronic structure of aluminium diboride. Physical Review B. 2020;102(3). doi:10.1103/physrevb.102.035143 apa: Sunko, V., Milosavljević, D., Mazzola, F., Clark, O. J., Burkhardt, U., Kim, T. K., … King, P. D. C. (2020). Surface and bulk electronic structure of aluminium diboride. Physical Review B. American Physical Society. https://doi.org/10.1103/physrevb.102.035143 chicago: Sunko, Veronika, D. Milosavljević, F. Mazzola, O. J. Clark, U. Burkhardt, T. K. Kim, H. Rosner, Yu. Grin, A. P. Mackenzie, and P. D. C. King. “Surface and Bulk Electronic Structure of Aluminium Diboride.” Physical Review B. American Physical Society, 2020. https://doi.org/10.1103/physrevb.102.035143. ieee: V. Sunko et al., “Surface and bulk electronic structure of aluminium diboride,” Physical Review B, vol. 102, no. 3. American Physical Society, 2020. ista: Sunko V, Milosavljević D, Mazzola F, Clark OJ, Burkhardt U, Kim TK, Rosner H, Grin Y, Mackenzie AP, King PDC. 2020. Surface and bulk electronic structure of aluminium diboride. Physical Review B. 102(3), 035143. mla: Sunko, Veronika, et al. “Surface and Bulk Electronic Structure of Aluminium Diboride.” Physical Review B, vol. 102, no. 3, 035143, American Physical Society, 2020, doi:10.1103/physrevb.102.035143. short: V. Sunko, D. Milosavljević, F. Mazzola, O.J. Clark, U. Burkhardt, T.K. Kim, H. Rosner, Y. Grin, A.P. Mackenzie, P.D.C. King, Physical Review B 102 (2020). date_created: 2025-06-10T09:17:59Z date_published: 2020-07-22T00:00:00Z date_updated: 2025-06-10T12:30:48Z day: '22' doi: 10.1103/physrevb.102.035143 extern: '1' intvolume: ' 102' issue: '3' language: - iso: eng month: '07' oa_version: None publication: Physical Review B publication_identifier: eissn: - 2469-9969 issn: - 2469-9950 publication_status: published publisher: American Physical Society quality_controlled: '1' scopus_import: '1' status: public title: Surface and bulk electronic structure of aluminium diboride type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 102 year: '2020' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '19823' abstract: - lang: eng text: The delafossite metals PdCoO2, PtCoO2, and PdCrO2 are among the highest conductivity materials known, with low-temperature mean free paths of tens of microns in the best as-grown single crystals. A key question is whether these very low resistive scattering rates result from strongly suppressed backscattering due to special features of the electronic structure or are a consequence of highly unusual levels of crystalline perfection. We report the results of experiments in which high-energy electron irradiation was used to introduce point disorder to the Pd and Pt layers in which the conduction occurs. We obtain the cross section for formation of Frenkel pairs in absolute units, and cross-check our analysis with first-principles calculations of the relevant atomic displacement energies. We observe an increase of resistivity that is linear in defect density with a slope consistent with scattering in the unitary limit. Our results enable us to deduce that the as-grown crystals contain extremely low levels of in-plane defects of approximately 0.001%. This confirms that crystalline perfection is the most important factor in realizing the long mean free paths and highlights how unusual these delafossite metals are in comparison with the vast majority of other multicomponent oxides and alloys. We discuss the implications of our findings for future materials research. article_number: '021018' article_processing_charge: Yes article_type: original arxiv: 1 author: - first_name: Veronika full_name: Sunko, Veronika id: 23cb1cf6-2c7a-11ef-91a4-f72fc19f20b3 last_name: Sunko orcid: 0000-0003-2724-3523 - first_name: P. H. full_name: McGuinness, P. H. last_name: McGuinness - first_name: C. S. full_name: Chang, C. S. last_name: Chang - first_name: E. full_name: Zhakina, E. last_name: Zhakina - first_name: S. full_name: Khim, S. last_name: Khim - first_name: C. E. full_name: Dreyer, C. E. last_name: Dreyer - first_name: M. full_name: Konczykowski, M. last_name: Konczykowski - first_name: H. full_name: Borrmann, H. last_name: Borrmann - first_name: P. J. W. full_name: Moll, P. J. W. last_name: Moll - first_name: M. full_name: König, M. last_name: König - first_name: D. A. full_name: Muller, D. A. last_name: Muller - first_name: A. P. full_name: Mackenzie, A. P. last_name: Mackenzie citation: ama: Sunko V, McGuinness PH, Chang CS, et al. Controlled introduction of defects to delafossite metals by electron irradiation. Physical Review X. 2020;10(2). doi:10.1103/physrevx.10.021018 apa: Sunko, V., McGuinness, P. H., Chang, C. S., Zhakina, E., Khim, S., Dreyer, C. E., … Mackenzie, A. P. (2020). Controlled introduction of defects to delafossite metals by electron irradiation. Physical Review X. American Physical Society. https://doi.org/10.1103/physrevx.10.021018 chicago: Sunko, Veronika, P. H. McGuinness, C. S. Chang, E. Zhakina, S. Khim, C. E. Dreyer, M. Konczykowski, et al. “Controlled Introduction of Defects to Delafossite Metals by Electron Irradiation.” Physical Review X. American Physical Society, 2020. https://doi.org/10.1103/physrevx.10.021018. ieee: V. Sunko et al., “Controlled introduction of defects to delafossite metals by electron irradiation,” Physical Review X, vol. 10, no. 2. American Physical Society, 2020. ista: Sunko V, McGuinness PH, Chang CS, Zhakina E, Khim S, Dreyer CE, Konczykowski M, Borrmann H, Moll PJW, König M, Muller DA, Mackenzie AP. 2020. Controlled introduction of defects to delafossite metals by electron irradiation. Physical Review X. 10(2), 021018. mla: Sunko, Veronika, et al. “Controlled Introduction of Defects to Delafossite Metals by Electron Irradiation.” Physical Review X, vol. 10, no. 2, 021018, American Physical Society, 2020, doi:10.1103/physrevx.10.021018. short: V. Sunko, P.H. McGuinness, C.S. Chang, E. Zhakina, S. Khim, C.E. Dreyer, M. Konczykowski, H. Borrmann, P.J.W. Moll, M. König, D.A. Muller, A.P. Mackenzie, Physical Review X 10 (2020). date_created: 2025-06-10T09:21:11Z date_published: 2020-04-24T00:00:00Z date_updated: 2025-06-10T13:08:51Z day: '24' doi: 10.1103/physrevx.10.021018 extern: '1' external_id: arxiv: - '2001.01471' intvolume: ' 10' issue: '2' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1103/PhysRevX.10.021018 month: '04' oa: 1 oa_version: Published Version publication: Physical Review X publication_identifier: eissn: - 2160-3308 publication_status: published publisher: American Physical Society quality_controlled: '1' scopus_import: '1' status: public title: Controlled introduction of defects to delafossite metals by electron irradiation type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 10 year: '2020' ... --- OA_place: publisher _id: '19986' abstract: - lang: eng text: 'For non-probabilistic programs, a key question in static analysis is termination, which asks whether a given program terminates under a given initial condition. In the presence of probabilistic behaviour, there are two fundamental extensions of the termination question: (a) the almost-sure termination question, which asks whether the termination probability is 1; and (b) the bounded-time termination question, which asks whether the expected termination time is bounded. There are many active research directions to address these two questions; one important such direction is the use of martingale theory for termination analysis. In this chapter, we survey the main techniques of the martingale-based approach to the termination analysis of probabilistic programs.' acknowledgement: "Krishnendu Chatterjee is supported by the Austrian Science Fund (FWF) NFN\r\nGrant No. S11407-N23 (RiSE/SHiNE), and COST Action GAMENET. Hongfei Fu\r\nis supported by the National Natural Science Foundation of China (NSFC) Grant\r\nNo. 61802254. Petr Novotný is supported by the Czech Science Foundation grant\r\nNo. GJ19-15134Y." article_processing_charge: No author: - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Hongfei full_name: Fu, Hongfei id: 3AAD03D6-F248-11E8-B48F-1D18A9856A87 last_name: Fu - first_name: Petr full_name: Novotný, Petr id: 3CC3B868-F248-11E8-B48F-1D18A9856A87 last_name: Novotný citation: ama: 'Chatterjee K, Fu H, Novotný P. Termination Analysis of Probabilistic Programs with Martingales. In: Foundations of Probabilistic Programming. Cambridge University Press; 2020:221-258. doi:10.1017/9781108770750.008' apa: Chatterjee, K., Fu, H., & Novotný, P. (2020). Termination Analysis of Probabilistic Programs with Martingales. In Foundations of Probabilistic Programming (pp. 221–258). Cambridge University Press. https://doi.org/10.1017/9781108770750.008 chicago: Chatterjee, Krishnendu, Hongfei Fu, and Petr Novotný. “Termination Analysis of Probabilistic Programs with Martingales.” In Foundations of Probabilistic Programming, 221–58. Cambridge University Press, 2020. https://doi.org/10.1017/9781108770750.008. ieee: K. Chatterjee, H. Fu, and P. Novotný, “Termination Analysis of Probabilistic Programs with Martingales,” in Foundations of Probabilistic Programming, Cambridge University Press, 2020, pp. 221–258. ista: 'Chatterjee K, Fu H, Novotný P. 2020.Termination Analysis of Probabilistic Programs with Martingales. In: Foundations of Probabilistic Programming. , 221–258.' mla: Chatterjee, Krishnendu, et al. “Termination Analysis of Probabilistic Programs with Martingales.” Foundations of Probabilistic Programming, Cambridge University Press, 2020, pp. 221–58, doi:10.1017/9781108770750.008. short: K. Chatterjee, H. Fu, P. Novotný, in:, Foundations of Probabilistic Programming, Cambridge University Press, 2020, pp. 221–258. corr_author: '1' date_created: 2025-07-10T13:28:51Z date_published: 2020-11-18T00:00:00Z date_updated: 2025-09-23T12:10:25Z day: '18' ddc: - '000' department: - _id: KrCh doi: 10.1017/9781108770750.008 file: - access_level: open_access checksum: 28ece115e8d2d9263e253a598e7caef2 content_type: application/pdf creator: dernst date_created: 2025-09-23T12:03:09Z date_updated: 2025-09-23T12:03:09Z file_id: '20380' file_name: 2020_ProbProgramming_Chatterjee.pdf file_size: 316681 relation: main_file success: 1 file_date_updated: 2025-09-23T12:03:09Z has_accepted_license: '1' language: - iso: eng month: '11' oa: 1 oa_version: Published Version page: 221-258 project: - _id: 25863FF4-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: S11407 name: Game Theory publication: Foundations of Probabilistic Programming publication_identifier: eisbn: - '9781108770750' isbn: - '9781108488518' publication_status: published publisher: Cambridge University Press quality_controlled: '1' status: public title: Termination Analysis of Probabilistic Programs with Martingales 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: book_chapter user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- OA_place: repository OA_type: green _id: '20766' abstract: - lang: eng text: Reversible catalytic reactions operate under thermodynamic control, and thus, establishing a selective catalytic system poses a considerable challenge. Herein, we report a reversible transfer hydrocyanation protocol that exhibits high selectivity for the thermodynamically less favorable branched isomer. Selectivity is achieved by exploiting the lower barrier for C–CN oxidative addition and reductive elimination at benzylic positions in the absence of a cocatalytic Lewis acid. Through the design of a novel type of HCN donor, a practical, branched-selective, HCN-free transfer hydrocyanation was realized. The synthetically useful resolution of a mixture of branched and linear nitrile isomers was also demonstrated to underline the value of reversible and selective transfer reactions. In a broader context, this work demonstrates that high kinetic selectivity can be achieved in reversible transfer reactions, thus opening new horizons for their synthetic applications. article_processing_charge: No article_type: original author: - first_name: Benjamin N. full_name: Bhawal, Benjamin N. last_name: Bhawal - first_name: Julia full_name: Reisenbauer, Julia id: 51d862e9-36ee-11f0-86d3-8534c85a5496 last_name: Reisenbauer - first_name: Christian full_name: Ehinger, Christian last_name: Ehinger - first_name: Bill full_name: Morandi, Bill last_name: Morandi citation: ama: 'Bhawal BN, Reisenbauer J, Ehinger C, Morandi B. Overcoming selectivity issues in reversible catalysis: A transfer hydrocyanation exhibiting high kinetic control. Journal of the American Chemical Society. 2020;142(25):10914-10920. doi:10.1021/jacs.0c03184' apa: 'Bhawal, B. N., Reisenbauer, J., Ehinger, C., & Morandi, B. (2020). Overcoming selectivity issues in reversible catalysis: A transfer hydrocyanation exhibiting high kinetic control. Journal of the American Chemical Society. American Chemical Society. https://doi.org/10.1021/jacs.0c03184' chicago: 'Bhawal, Benjamin N., Julia Reisenbauer, Christian Ehinger, and Bill Morandi. “Overcoming Selectivity Issues in Reversible Catalysis: A Transfer Hydrocyanation Exhibiting High Kinetic Control.” Journal of the American Chemical Society. American Chemical Society, 2020. https://doi.org/10.1021/jacs.0c03184.' ieee: 'B. N. Bhawal, J. Reisenbauer, C. Ehinger, and B. Morandi, “Overcoming selectivity issues in reversible catalysis: A transfer hydrocyanation exhibiting high kinetic control,” Journal of the American Chemical Society, vol. 142, no. 25. American Chemical Society, pp. 10914–10920, 2020.' ista: 'Bhawal BN, Reisenbauer J, Ehinger C, Morandi B. 2020. Overcoming selectivity issues in reversible catalysis: A transfer hydrocyanation exhibiting high kinetic control. Journal of the American Chemical Society. 142(25), 10914–10920.' mla: 'Bhawal, Benjamin N., et al. “Overcoming Selectivity Issues in Reversible Catalysis: A Transfer Hydrocyanation Exhibiting High Kinetic Control.” Journal of the American Chemical Society, vol. 142, no. 25, American Chemical Society, 2020, pp. 10914–20, doi:10.1021/jacs.0c03184.' short: B.N. Bhawal, J. Reisenbauer, C. Ehinger, B. Morandi, Journal of the American Chemical Society 142 (2020) 10914–10920. date_created: 2025-12-09T14:25:37Z date_published: 2020-06-01T00:00:00Z date_updated: 2025-12-16T12:10:08Z day: '01' doi: 10.1021/jacs.0c03184 extern: '1' external_id: pmid: - '32478515' intvolume: ' 142' issue: '25' language: - iso: eng main_file_link: - open_access: '1' url: 10.26434/chemrxiv.11931633.v1 month: '06' oa: 1 oa_version: Preprint page: 10914-10920 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: 'Overcoming selectivity issues in reversible catalysis: A transfer hydrocyanation exhibiting high kinetic control' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 142 year: '2020' ... --- OA_type: closed access _id: '20806' abstract: - lang: eng text: "Regulation of phosphatidylinositol phosphates plays a crucial role in signal transduction, membrane trafficking or autophagy. Members of the myotubularin family of lipid phosphatases contribute to phosphoinositide metabolism by counteracting the activity of phosphoinositide kinases. The mechanisms determining their subcellular localization and targeting to specific membrane compartments are still poorly understood.\r\nWe show here that the inactive phosphatase MTMR9 localizes to the intermediate compartment and to the Golgi apparatus and is able to recruit its active phosphatase partners MTMR6 and MTMR8 to these locations. Furthermore, MTMR8 and MTMR9 co-localize with the small GTPase RAB1A and regulate its localization. Loss of MTMR9 expression compromises the integrity of the Golgi apparatus and results in altered distribution of RAB1A and actin nucleation-promoting factor WHAMM. Loss or overexpression of MTMR9 leads to decreased rate of protein secretion. We demonstrate that secretion of physiologically relevant cargo exemplified by the WNT3A protein is affected after perturbation of MTMR9 levels." article_number: '111709' article_processing_charge: No article_type: original author: - first_name: Lenka full_name: Doubravská, Lenka last_name: Doubravská - first_name: Vojtěch full_name: Dostál, Vojtěch last_name: Dostál - first_name: Filip full_name: Knop, Filip id: 25f3131f-6e7c-11ef-8296-b64ccd4a1b69 last_name: Knop orcid: 0000-0002-3845-3465 - first_name: Lenka full_name: Libusová, Lenka last_name: Libusová - first_name: Marie full_name: Macůrková, Marie last_name: Macůrková citation: ama: Doubravská L, Dostál V, Knop F, Libusová L, Macůrková M. Human myotubularin-related protein 9 regulates ER-to-Golgi trafficking and modulates WNT3A secretion. Experimental Cell Research. 2020;386(1). doi:10.1016/j.yexcr.2019.111709 apa: Doubravská, L., Dostál, V., Knop, F., Libusová, L., & Macůrková, M. (2020). Human myotubularin-related protein 9 regulates ER-to-Golgi trafficking and modulates WNT3A secretion. Experimental Cell Research. Elsevier. https://doi.org/10.1016/j.yexcr.2019.111709 chicago: Doubravská, Lenka, Vojtěch Dostál, Filip Knop, Lenka Libusová, and Marie Macůrková. “Human Myotubularin-Related Protein 9 Regulates ER-to-Golgi Trafficking and Modulates WNT3A Secretion.” Experimental Cell Research. Elsevier, 2020. https://doi.org/10.1016/j.yexcr.2019.111709. ieee: L. Doubravská, V. Dostál, F. Knop, L. Libusová, and M. Macůrková, “Human myotubularin-related protein 9 regulates ER-to-Golgi trafficking and modulates WNT3A secretion,” Experimental Cell Research, vol. 386, no. 1. Elsevier, 2020. ista: Doubravská L, Dostál V, Knop F, Libusová L, Macůrková M. 2020. Human myotubularin-related protein 9 regulates ER-to-Golgi trafficking and modulates WNT3A secretion. Experimental Cell Research. 386(1), 111709. mla: Doubravská, Lenka, et al. “Human Myotubularin-Related Protein 9 Regulates ER-to-Golgi Trafficking and Modulates WNT3A Secretion.” Experimental Cell Research, vol. 386, no. 1, 111709, Elsevier, 2020, doi:10.1016/j.yexcr.2019.111709. short: L. Doubravská, V. Dostál, F. Knop, L. Libusová, M. Macůrková, Experimental Cell Research 386 (2020). date_created: 2025-12-12T09:03:03Z date_published: 2020-01-01T00:00:00Z date_updated: 2025-12-15T10:17:13Z day: '01' doi: 10.1016/j.yexcr.2019.111709 extern: '1' external_id: pmid: - '31704058 ' intvolume: ' 386' issue: '1' language: - iso: eng month: '01' oa_version: None pmid: 1 publication: Experimental Cell Research publication_identifier: issn: - 0014-4827 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Human myotubularin-related protein 9 regulates ER-to-Golgi trafficking and modulates WNT3A secretion type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 386 year: '2020' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '19306' acknowledgement: "We thank Maureen Barr, Martin Harterink, Max Heiman and Inna Nechipurenko for reagents, the Caenorhabditis Genetics Center for strains, and the Sengupta lab for comments and advice.\r\nThis work was funded in part by the NIH (R35 GM122463 – P.S., and F32 DC018453 – A.P.), and the EMBO (ALTF 302-2019 – N.A-W.)." article_number: '303' article_processing_charge: Yes article_type: original author: - first_name: Anna full_name: Kazatskaya, Anna last_name: Kazatskaya - first_name: Lisa full_name: Yuan, Lisa last_name: Yuan - first_name: Niko Paresh full_name: Amin-Wetzel, Niko Paresh id: E95D3014-9D8C-11E9-9C80-D2F8E5697425 last_name: Amin-Wetzel - first_name: Alison full_name: Philbrook, Alison last_name: Philbrook - first_name: Mario full_name: de Bono, Mario id: 4E3FF80E-F248-11E8-B48F-1D18A9856A87 last_name: de Bono orcid: 0000-0001-8347-0443 - first_name: Piali full_name: Sengupta, Piali last_name: Sengupta citation: ama: Kazatskaya A, Yuan L, Amin-Wetzel NP, Philbrook A, de Bono M, Sengupta P. The URX oxygen-sensing neurons in C. elegans are ciliated. microPublication Biology. 2020;2020(9). doi:10.17912/MICROPUB.BIOLOGY.000303 apa: Kazatskaya, A., Yuan, L., Amin-Wetzel, N. P., Philbrook, A., de Bono, M., & Sengupta, P. (2020). The URX oxygen-sensing neurons in C. elegans are ciliated. MicroPublication Biology. Caltech Library. https://doi.org/10.17912/MICROPUB.BIOLOGY.000303 chicago: Kazatskaya, Anna, Lisa Yuan, Niko Paresh Amin-Wetzel, Alison Philbrook, Mario de Bono, and Piali Sengupta. “The URX Oxygen-Sensing Neurons in C. Elegans Are Ciliated.” MicroPublication Biology. Caltech Library, 2020. https://doi.org/10.17912/MICROPUB.BIOLOGY.000303. ieee: A. Kazatskaya, L. Yuan, N. P. Amin-Wetzel, A. Philbrook, M. de Bono, and P. Sengupta, “The URX oxygen-sensing neurons in C. elegans are ciliated,” microPublication Biology, vol. 2020, no. 9. Caltech Library, 2020. ista: Kazatskaya A, Yuan L, Amin-Wetzel NP, Philbrook A, de Bono M, Sengupta P. 2020. The URX oxygen-sensing neurons in C. elegans are ciliated. microPublication Biology. 2020(9), 303. mla: Kazatskaya, Anna, et al. “The URX Oxygen-Sensing Neurons in C. Elegans Are Ciliated.” MicroPublication Biology, vol. 2020, no. 9, 303, Caltech Library, 2020, doi:10.17912/MICROPUB.BIOLOGY.000303. short: A. Kazatskaya, L. Yuan, N.P. Amin-Wetzel, A. Philbrook, M. de Bono, P. Sengupta, MicroPublication Biology 2020 (2020). date_created: 2025-03-07T08:21:51Z date_published: 2020-09-20T00:00:00Z date_updated: 2025-03-11T08:30:41Z day: '20' ddc: - '570' department: - _id: MaDe doi: 10.17912/MICROPUB.BIOLOGY.000303 external_id: pmid: - '33005885' file: - access_level: open_access checksum: 14a7cad20775521ce85e0e3c77aa7936 content_type: application/pdf creator: dernst date_created: 2025-03-11T08:27:40Z date_updated: 2025-03-11T08:27:40Z file_id: '19383' file_name: 2020_MicroPublBio_Kazatskaya.pdf file_size: 1486239 relation: main_file success: 1 file_date_updated: 2025-03-11T08:27:40Z has_accepted_license: '1' intvolume: ' 2020' issue: '9' language: - iso: eng month: '09' oa: 1 oa_version: Published Version pmid: 1 publication: microPublication Biology publication_identifier: eissn: - 2578-9430 publication_status: published publisher: Caltech Library quality_controlled: '1' status: public title: The URX oxygen-sensing neurons in C. elegans are ciliated 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: 2020 year: '2020' ... --- _id: '14891' abstract: - lang: eng text: We give the first mathematically rigorous justification of the local density approximation in density functional theory. We provide a quantitative estimate on the difference between the grand-canonical Levy–Lieb energy of a given density (the lowest possible energy of all quantum states having this density) and the integral over the uniform electron gas energy of this density. The error involves gradient terms and justifies the use of the local density approximation in the situation where the density is very flat on sufficiently large regions in space. article_processing_charge: No article_type: original arxiv: 1 author: - first_name: Mathieu full_name: Lewin, Mathieu last_name: Lewin - first_name: Elliott H. full_name: Lieb, Elliott H. last_name: Lieb - first_name: Robert full_name: Seiringer, Robert id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 citation: ama: Lewin M, Lieb EH, Seiringer R. The local density approximation in density functional theory. Pure and Applied Analysis. 2020;2(1):35-73. doi:10.2140/paa.2020.2.35 apa: Lewin, M., Lieb, E. H., & Seiringer, R. (2020). The local density approximation in density functional theory. Pure and Applied Analysis. Mathematical Sciences Publishers. https://doi.org/10.2140/paa.2020.2.35 chicago: Lewin, Mathieu, Elliott H. Lieb, and Robert Seiringer. “ The Local Density Approximation in Density Functional Theory.” Pure and Applied Analysis. Mathematical Sciences Publishers, 2020. https://doi.org/10.2140/paa.2020.2.35. ieee: M. Lewin, E. H. Lieb, and R. Seiringer, “ The local density approximation in density functional theory,” Pure and Applied Analysis, vol. 2, no. 1. Mathematical Sciences Publishers, pp. 35–73, 2020. ista: Lewin M, Lieb EH, Seiringer R. 2020. The local density approximation in density functional theory. Pure and Applied Analysis. 2(1), 35–73. mla: Lewin, Mathieu, et al. “ The Local Density Approximation in Density Functional Theory.” Pure and Applied Analysis, vol. 2, no. 1, Mathematical Sciences Publishers, 2020, pp. 35–73, doi:10.2140/paa.2020.2.35. short: M. Lewin, E.H. Lieb, R. Seiringer, Pure and Applied Analysis 2 (2020) 35–73. corr_author: '1' date_created: 2024-01-28T23:01:44Z date_published: 2020-01-01T00:00:00Z date_updated: 2024-10-09T21:08:02Z day: '01' department: - _id: RoSe doi: 10.2140/paa.2020.2.35 external_id: arxiv: - '1903.04046' intvolume: ' 2' issue: '1' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.1903.04046 month: '01' oa: 1 oa_version: Preprint page: 35-73 publication: Pure and Applied Analysis publication_identifier: eissn: - 2578-5885 issn: - 2578-5893 publication_status: published publisher: Mathematical Sciences Publishers quality_controlled: '1' scopus_import: '1' status: public title: ' The local density approximation in density functional theory' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 2 year: '2020' ... --- _id: '15036' abstract: - lang: eng text: The assembly of a septin filament requires that homologous monomers must distinguish between one another in establishing appropriate interfaces with their neighbors. To understand this phenomenon at the molecular level, we present the first four crystal structures of heterodimeric septin complexes. We describe in detail the two distinct types of G-interface present within the octameric particles, which must polymerize to form filaments. These are formed between SEPT2 and SEPT6 and between SEPT7 and SEPT3, and their description permits an understanding of the structural basis for the selectivity necessary for correct filament assembly. By replacing SEPT6 by SEPT8 or SEPT11, it is possible to rationalize Kinoshita's postulate, which predicts the exchangeability of septins from within a subgroup. Switches I and II, which in classical small GTPases provide a mechanism for nucleotide-dependent conformational change, have been repurposed in septins to play a fundamental role in molecular recognition. Specifically, it is switch I which holds the key to discriminating between the two different G-interfaces. Moreover, residues which are characteristic for a given subgroup play subtle, but pivotal, roles in guaranteeing that the correct interfaces are formed. article_processing_charge: No article_type: original author: - first_name: Higor Vinícius Dias full_name: Rosa, Higor Vinícius Dias last_name: Rosa - first_name: Diego Antonio full_name: Leonardo, Diego Antonio last_name: Leonardo - first_name: Gabriel full_name: Brognara, Gabriel id: D96FFDA0-A884-11E9-9968-DC26E6697425 last_name: Brognara - first_name: José full_name: Brandão-Neto, José last_name: Brandão-Neto - first_name: Humberto full_name: D'Muniz Pereira, Humberto last_name: D'Muniz Pereira - first_name: Ana Paula Ulian full_name: Araújo, Ana Paula Ulian last_name: Araújo - first_name: Richard Charles full_name: Garratt, Richard Charles last_name: Garratt citation: ama: 'Rosa HVD, Leonardo DA, Brognara G, et al. Molecular recognition at septin interfaces: The switches hold the key. Journal of Molecular Biology. 2020;432(21):5784-5801. doi:10.1016/j.jmb.2020.09.001' apa: 'Rosa, H. V. D., Leonardo, D. A., Brognara, G., Brandão-Neto, J., D’Muniz Pereira, H., Araújo, A. P. U., & Garratt, R. C. (2020). Molecular recognition at septin interfaces: The switches hold the key. Journal of Molecular Biology. Elsevier. https://doi.org/10.1016/j.jmb.2020.09.001' chicago: 'Rosa, Higor Vinícius Dias, Diego Antonio Leonardo, Gabriel Brognara, José Brandão-Neto, Humberto D’Muniz Pereira, Ana Paula Ulian Araújo, and Richard Charles Garratt. “Molecular Recognition at Septin Interfaces: The Switches Hold the Key.” Journal of Molecular Biology. Elsevier, 2020. https://doi.org/10.1016/j.jmb.2020.09.001.' ieee: 'H. V. D. Rosa et al., “Molecular recognition at septin interfaces: The switches hold the key,” Journal of Molecular Biology, vol. 432, no. 21. Elsevier, pp. 5784–5801, 2020.' ista: 'Rosa HVD, Leonardo DA, Brognara G, Brandão-Neto J, D’Muniz Pereira H, Araújo APU, Garratt RC. 2020. Molecular recognition at septin interfaces: The switches hold the key. Journal of Molecular Biology. 432(21), 5784–5801.' mla: 'Rosa, Higor Vinícius Dias, et al. “Molecular Recognition at Septin Interfaces: The Switches Hold the Key.” Journal of Molecular Biology, vol. 432, no. 21, Elsevier, 2020, pp. 5784–801, doi:10.1016/j.jmb.2020.09.001.' short: H.V.D. Rosa, D.A. Leonardo, G. Brognara, J. Brandão-Neto, H. D’Muniz Pereira, A.P.U. Araújo, R.C. Garratt, Journal of Molecular Biology 432 (2020) 5784–5801. date_created: 2024-02-28T08:50:34Z date_published: 2020-10-02T00:00:00Z date_updated: 2024-02-28T12:37:54Z day: '02' department: - _id: MaLo doi: 10.1016/j.jmb.2020.09.001 external_id: pmid: - '32910969' intvolume: ' 432' issue: '21' keyword: - Molecular Biology - Structural Biology language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1016/j.jmb.2020.09.001 month: '10' oa: 1 oa_version: Published Version page: 5784-5801 pmid: 1 publication: Journal of Molecular Biology publication_identifier: issn: - 0022-2836 publication_status: published publisher: Elsevier quality_controlled: '1' status: public title: 'Molecular recognition at septin interfaces: The switches hold the key' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 432 year: '2020' ... --- _id: '15037' abstract: - lang: eng text: Protein abundance and localization at the plasma membrane (PM) shapes plant development and mediates adaptation to changing environmental conditions. It is regulated by ubiquitination, a post-translational modification crucial for the proper sorting of endocytosed PM proteins to the vacuole for subsequent degradation. To understand the significance and the variety of roles played by this reversible modification, the function of ubiquitin receptors, which translate the ubiquitin signature into a cellular response, needs to be elucidated. In this study, we show that TOL (TOM1-like) proteins function in plants as multivalent ubiquitin receptors, governing ubiquitinated cargo delivery to the vacuole via the conserved Endosomal Sorting Complex Required for Transport (ESCRT) pathway. TOL2 and TOL6 interact with components of the ESCRT machinery and bind to K63-linked ubiquitin via two tandemly arranged conserved ubiquitin-binding domains. Mutation of these domains results not only in a loss of ubiquitin binding but also altered localization, abolishing TOL6 ubiquitin receptor activity. Function and localization of TOL6 is itself regulated by ubiquitination, whereby TOL6 ubiquitination potentially modulates degradation of PM-localized cargoes, assisting in the fine-tuning of the delicate interplay between protein recycling and downregulation. Taken together, our findings demonstrate the function and regulation of a ubiquitin receptor that mediates vacuolar degradation of PM proteins in higher plants. article_processing_charge: No article_type: original author: - first_name: Jeanette full_name: Moulinier-Anzola, Jeanette last_name: Moulinier-Anzola - first_name: Maximilian full_name: Schwihla, Maximilian last_name: Schwihla - first_name: Lucinda full_name: De-Araújo, Lucinda last_name: De-Araújo - first_name: Christina full_name: Artner, Christina id: 45DF286A-F248-11E8-B48F-1D18A9856A87 last_name: Artner - first_name: Lisa full_name: Jörg, Lisa last_name: Jörg - first_name: Nataliia full_name: Konstantinova, Nataliia last_name: Konstantinova - first_name: Christian full_name: Luschnig, Christian last_name: Luschnig - first_name: Barbara full_name: Korbei, Barbara last_name: Korbei citation: ama: Moulinier-Anzola J, Schwihla M, De-Araújo L, et al. TOLs function as ubiquitin receptors in the early steps of the ESCRT pathway in higher plants. Molecular Plant. 2020;13(5):717-731. doi:10.1016/j.molp.2020.02.012 apa: Moulinier-Anzola, J., Schwihla, M., De-Araújo, L., Artner, C., Jörg, L., Konstantinova, N., … Korbei, B. (2020). TOLs function as ubiquitin receptors in the early steps of the ESCRT pathway in higher plants. Molecular Plant. Elsevier. https://doi.org/10.1016/j.molp.2020.02.012 chicago: Moulinier-Anzola, Jeanette, Maximilian Schwihla, Lucinda De-Araújo, Christina Artner, Lisa Jörg, Nataliia Konstantinova, Christian Luschnig, and Barbara Korbei. “TOLs Function as Ubiquitin Receptors in the Early Steps of the ESCRT Pathway in Higher Plants.” Molecular Plant. Elsevier, 2020. https://doi.org/10.1016/j.molp.2020.02.012. ieee: J. Moulinier-Anzola et al., “TOLs function as ubiquitin receptors in the early steps of the ESCRT pathway in higher plants,” Molecular Plant, vol. 13, no. 5. Elsevier, pp. 717–731, 2020. ista: Moulinier-Anzola J, Schwihla M, De-Araújo L, Artner C, Jörg L, Konstantinova N, Luschnig C, Korbei B. 2020. TOLs function as ubiquitin receptors in the early steps of the ESCRT pathway in higher plants. Molecular Plant. 13(5), 717–731. mla: Moulinier-Anzola, Jeanette, et al. “TOLs Function as Ubiquitin Receptors in the Early Steps of the ESCRT Pathway in Higher Plants.” Molecular Plant, vol. 13, no. 5, Elsevier, 2020, pp. 717–31, doi:10.1016/j.molp.2020.02.012. short: J. Moulinier-Anzola, M. Schwihla, L. De-Araújo, C. Artner, L. Jörg, N. Konstantinova, C. Luschnig, B. Korbei, Molecular Plant 13 (2020) 717–731. date_created: 2024-02-28T08:55:56Z date_published: 2020-05-04T00:00:00Z date_updated: 2024-02-28T12:41:52Z day: '04' ddc: - '580' department: - _id: EvBe doi: 10.1016/j.molp.2020.02.012 external_id: pmid: - '32087370' file: - access_level: open_access checksum: c538a5008f7827f62d17d40a3bfabe65 content_type: application/pdf creator: dernst date_created: 2024-02-28T12:39:56Z date_updated: 2024-02-28T12:39:56Z file_id: '15038' file_name: 2020_MolecularPlant_MoulinierAnzola.pdf file_size: 3089212 relation: main_file success: 1 file_date_updated: 2024-02-28T12:39:56Z has_accepted_license: '1' intvolume: ' 13' issue: '5' keyword: - Plant Science - Molecular Biology language: - iso: eng month: '05' oa: 1 oa_version: Published Version page: 717-731 pmid: 1 publication: Molecular Plant publication_identifier: issn: - 1674-2052 publication_status: published publisher: Elsevier quality_controlled: '1' status: public title: TOLs function as ubiquitin receptors in the early steps of the ESCRT pathway in higher plants 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: 13 year: '2020' ... --- _id: '15055' abstract: - lang: eng text: Markov decision processes (MDPs) are the defacto framework for sequential decision making in the presence of stochastic uncertainty. A classical optimization criterion for MDPs is to maximize the expected discounted-sum payoff, which ignores low probability catastrophic events with highly negative impact on the system. On the other hand, risk-averse policies require the probability of undesirable events to be below a given threshold, but they do not account for optimization of the expected payoff. We consider MDPs with discounted-sum payoff with failure states which represent catastrophic outcomes. The objective of risk-constrained planning is to maximize the expected discounted-sum payoff among risk-averse policies that ensure the probability to encounter a failure state is below a desired threshold. Our main contribution is an efficient risk-constrained planning algorithm that combines UCT-like search with a predictor learned through interaction with the MDP (in the style of AlphaZero) and with a risk-constrained action selection via linear programming. We demonstrate the effectiveness of our approach with experiments on classical MDPs from the literature, including benchmarks with an order of 106 states. acknowledgement: Krishnendu Chatterjee is supported by the Austrian Science Fund (FWF) NFN Grant No. S11407-N23 (RiSE/SHiNE), and COST Action GAMENET. Tomas Brazdil is supported by the Grant Agency of Masaryk University grant no. MUNI/G/0739/2017 and by the Czech Science Foundation grant No. 18-11193S. Petr Novotny and Jirı Vahala are supported by the Czech Science Foundation grant No. GJ19-15134Y. article_processing_charge: No article_type: original arxiv: 1 author: - first_name: Tomáš full_name: Brázdil, Tomáš last_name: Brázdil - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Petr full_name: Novotný, Petr last_name: Novotný - first_name: Jiří full_name: Vahala, Jiří last_name: Vahala citation: ama: Brázdil T, Chatterjee K, Novotný P, Vahala J. Reinforcement learning of risk-constrained policies in Markov decision processes. Proceedings of the 34th AAAI Conference on Artificial Intelligence. 2020;34(06):9794-9801. doi:10.1609/aaai.v34i06.6531 apa: 'Brázdil, T., Chatterjee, K., Novotný, P., & Vahala, J. (2020). Reinforcement learning of risk-constrained policies in Markov decision processes. Proceedings of the 34th AAAI Conference on Artificial Intelligence. New York, NY, United States: Association for the Advancement of Artificial Intelligence. https://doi.org/10.1609/aaai.v34i06.6531' chicago: Brázdil, Tomáš, Krishnendu Chatterjee, Petr Novotný, and Jiří Vahala. “Reinforcement Learning of Risk-Constrained Policies in Markov Decision Processes.” Proceedings of the 34th AAAI Conference on Artificial Intelligence. Association for the Advancement of Artificial Intelligence, 2020. https://doi.org/10.1609/aaai.v34i06.6531. ieee: T. Brázdil, K. Chatterjee, P. Novotný, and J. Vahala, “Reinforcement learning of risk-constrained policies in Markov decision processes,” Proceedings of the 34th AAAI Conference on Artificial Intelligence, vol. 34, no. 06. Association for the Advancement of Artificial Intelligence, pp. 9794–9801, 2020. ista: Brázdil T, Chatterjee K, Novotný P, Vahala J. 2020. Reinforcement learning of risk-constrained policies in Markov decision processes. Proceedings of the 34th AAAI Conference on Artificial Intelligence. 34(06), 9794–9801. mla: Brázdil, Tomáš, et al. “Reinforcement Learning of Risk-Constrained Policies in Markov Decision Processes.” Proceedings of the 34th AAAI Conference on Artificial Intelligence, vol. 34, no. 06, Association for the Advancement of Artificial Intelligence, 2020, pp. 9794–801, doi:10.1609/aaai.v34i06.6531. short: T. Brázdil, K. Chatterjee, P. Novotný, J. Vahala, Proceedings of the 34th AAAI Conference on Artificial Intelligence 34 (2020) 9794–9801. conference: end_date: 2020-02-12 location: New York, NY, United States name: 'AAAI: Conference on Artificial Intelligence' start_date: 2020-02-07 date_created: 2024-03-04T08:07:22Z date_published: 2020-04-03T00:00:00Z date_updated: 2025-04-15T06:30:08Z day: '03' department: - _id: KrCh doi: 10.1609/aaai.v34i06.6531 external_id: arxiv: - '2002.12086' intvolume: ' 34' issue: '06' keyword: - General Medicine language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2002.12086 month: '04' oa: 1 oa_version: Preprint page: 9794-9801 project: - _id: 25863FF4-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: S11407 name: Game Theory publication: Proceedings of the 34th AAAI Conference on Artificial Intelligence publication_identifier: issn: - 2374-3468 publication_status: published publisher: Association for the Advancement of Artificial Intelligence quality_controlled: '1' status: public title: Reinforcement learning of risk-constrained policies in Markov decision processes type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 34 year: '2020' ... --- _id: '15057' abstract: - lang: eng text: Vaccinia virus–related kinase (VRK) is an evolutionarily conserved nuclear protein kinase. VRK-1, the single Caenorhabditis elegans VRK ortholog, functions in cell division and germline proliferation. However, the role of VRK-1 in postmitotic cells and adult life span remains unknown. Here, we show that VRK-1 increases organismal longevity by activating the cellular energy sensor, AMP-activated protein kinase (AMPK), via direct phosphorylation. We found that overexpression of vrk-1 in the soma of adult C. elegans increased life span and, conversely, inhibition of vrk-1 decreased life span. In addition, vrk-1 was required for longevity conferred by mutations that inhibit C. elegans mitochondrial respiration, which requires AMPK. VRK-1 directly phosphorylated and up-regulated AMPK in both C. elegans and cultured human cells. Thus, our data show that the somatic nuclear kinase, VRK-1, promotes longevity through AMPK activation, and this function appears to be conserved between C. elegans and humans. acknowledgement: 'This research was supported by grants NRF-2019R1A3B2067745 and NRF-2017R1A5A1015366 funded by the Korean Government (MSIT) through the National Research Foundation (NRF) of Korea to S.-J.V.L. and by grant Basic Science Research Program (No. 2019R1A2C2009440) funded by the Korean Government (MSIT) through the NRF of Korea to K.-T.K. ' article_number: aaw7824 article_processing_charge: No article_type: original author: - first_name: Sangsoon full_name: Park, Sangsoon last_name: Park - first_name: Murat full_name: Artan, Murat id: C407B586-6052-11E9-B3AE-7006E6697425 last_name: Artan orcid: 0000-0001-8945-6992 - first_name: Seung Hyun full_name: Han, Seung Hyun last_name: Han - first_name: Hae-Eun H. full_name: Park, Hae-Eun H. last_name: Park - first_name: Yoonji full_name: Jung, Yoonji last_name: Jung - first_name: Ara B. full_name: Hwang, Ara B. last_name: Hwang - first_name: Won Sik full_name: Shin, Won Sik last_name: Shin - first_name: Kyong-Tai full_name: Kim, Kyong-Tai last_name: Kim - first_name: Seung-Jae V. full_name: Lee, Seung-Jae V. last_name: Lee citation: ama: Park S, Artan M, Han SH, et al. VRK-1 extends life span by activation of AMPK via phosphorylation. Science Advances. 2020;6(27). doi:10.1126/sciadv.aaw7824 apa: Park, S., Artan, M., Han, S. H., Park, H.-E. H., Jung, Y., Hwang, A. B., … Lee, S.-J. V. (2020). VRK-1 extends life span by activation of AMPK via phosphorylation. Science Advances. American Association for the Advancement of Science. https://doi.org/10.1126/sciadv.aaw7824 chicago: Park, Sangsoon, Murat Artan, Seung Hyun Han, Hae-Eun H. Park, Yoonji Jung, Ara B. Hwang, Won Sik Shin, Kyong-Tai Kim, and Seung-Jae V. Lee. “VRK-1 Extends Life Span by Activation of AMPK via Phosphorylation.” Science Advances. American Association for the Advancement of Science, 2020. https://doi.org/10.1126/sciadv.aaw7824. ieee: S. Park et al., “VRK-1 extends life span by activation of AMPK via phosphorylation,” Science Advances, vol. 6, no. 27. American Association for the Advancement of Science, 2020. ista: Park S, Artan M, Han SH, Park H-EH, Jung Y, Hwang AB, Shin WS, Kim K-T, Lee S-JV. 2020. VRK-1 extends life span by activation of AMPK via phosphorylation. Science Advances. 6(27), aaw7824. mla: Park, Sangsoon, et al. “VRK-1 Extends Life Span by Activation of AMPK via Phosphorylation.” Science Advances, vol. 6, no. 27, aaw7824, American Association for the Advancement of Science, 2020, doi:10.1126/sciadv.aaw7824. short: S. Park, M. Artan, S.H. Han, H.-E.H. Park, Y. Jung, A.B. Hwang, W.S. Shin, K.-T. Kim, S.-J.V. Lee, Science Advances 6 (2020). date_created: 2024-03-04T09:41:57Z date_published: 2020-07-01T00:00:00Z date_updated: 2024-03-04T09:52:09Z day: '01' ddc: - '570' department: - _id: MaDe doi: 10.1126/sciadv.aaw7824 file: - access_level: open_access checksum: a37157cd0de709dce5fe03f4a31cd0b6 content_type: application/pdf creator: dernst date_created: 2024-03-04T09:46:41Z date_updated: 2024-03-04T09:46:41Z file_id: '15058' file_name: 2020_ScienceAdvances_Park.pdf file_size: 1864415 relation: main_file success: 1 file_date_updated: 2024-03-04T09:46:41Z has_accepted_license: '1' intvolume: ' 6' issue: '27' language: - iso: eng license: https://creativecommons.org/licenses/by-nc/4.0/ month: '07' oa: 1 oa_version: Published Version publication: Science Advances publication_identifier: eissn: - 2375-2548 publication_status: published publisher: American Association for the Advancement of Science quality_controlled: '1' status: public title: VRK-1 extends life span by activation of AMPK via phosphorylation tmp: image: /images/cc_by_nc.png legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) short: CC BY-NC (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 6 year: '2020' ... --- _id: '15059' abstract: - lang: eng text: "In this paper we present a room temperature radiometer that can eliminate the need of using cryostats in satellite payload reducing its weight and improving reliability. The proposed radiometer is based on an electro-optic upconverter that boosts up microwave photons energy by upconverting them into an optical domain what makes them immune to thermal noise even if operating at room temperature. The converter uses a high-quality factor whispering gallery\r\nmode (WGM) resonator providing naturally narrow bandwidth and therefore might be useful for applications like microwave hyperspectral sensing. The upconversion process is explained by\r\nproviding essential information about photon conversion efficiency and sensitivity. To prove the concept, we describe an experiment which shows state-of-the-art photon conversion efficiency n=10-5 per mW of pump power at the frequency of 80 GHz." acknowledgement: This work has been financially supported by Comunidad de Madrid S2018/NMT-4333 ARTINLARA-CM projects, and “FUNDACIÓN SENER” REFTA projects. article_processing_charge: No author: - first_name: Michal full_name: Wasiak, Michal last_name: Wasiak - first_name: Gabriel Santamaria full_name: Botello, Gabriel Santamaria last_name: Botello - first_name: Kerlos Atia full_name: Abdalmalak, Kerlos Atia last_name: Abdalmalak - first_name: Florian full_name: Sedlmeir, Florian last_name: Sedlmeir - first_name: Alfredo R full_name: Rueda Sanchez, Alfredo R id: 3B82B0F8-F248-11E8-B48F-1D18A9856A87 last_name: Rueda Sanchez orcid: 0000-0001-6249-5860 - first_name: Daniel full_name: Segovia-Vargas, Daniel last_name: Segovia-Vargas - first_name: Harald G. L. full_name: Schwefel, Harald G. L. last_name: Schwefel - first_name: Luis Enrique Garcia full_name: Munoz, Luis Enrique Garcia last_name: Munoz citation: ama: 'Wasiak M, Botello GS, Abdalmalak KA, et al. Compact millimeter and submillimeter-wave photonic radiometer for cubesats. In: 14th European Conference on Antennas and Propagation. IEEE; 2020. doi:10.23919/eucap48036.2020.9135962' apa: 'Wasiak, M., Botello, G. S., Abdalmalak, K. A., Sedlmeir, F., Rueda Sanchez, A. R., Segovia-Vargas, D., … Munoz, L. E. G. (2020). Compact millimeter and submillimeter-wave photonic radiometer for cubesats. In 14th European Conference on Antennas and Propagation. Copenhagen, Denmark: IEEE. https://doi.org/10.23919/eucap48036.2020.9135962' chicago: Wasiak, Michal, Gabriel Santamaria Botello, Kerlos Atia Abdalmalak, Florian Sedlmeir, Alfredo R Rueda Sanchez, Daniel Segovia-Vargas, Harald G. L. Schwefel, and Luis Enrique Garcia Munoz. “Compact Millimeter and Submillimeter-Wave Photonic Radiometer for Cubesats.” In 14th European Conference on Antennas and Propagation. IEEE, 2020. https://doi.org/10.23919/eucap48036.2020.9135962. ieee: M. Wasiak et al., “Compact millimeter and submillimeter-wave photonic radiometer for cubesats,” in 14th European Conference on Antennas and Propagation, Copenhagen, Denmark, 2020. ista: 'Wasiak M, Botello GS, Abdalmalak KA, Sedlmeir F, Rueda Sanchez AR, Segovia-Vargas D, Schwefel HGL, Munoz LEG. 2020. Compact millimeter and submillimeter-wave photonic radiometer for cubesats. 14th European Conference on Antennas and Propagation. EuCAP: European Conference on Antennas and Propagation.' mla: Wasiak, Michal, et al. “Compact Millimeter and Submillimeter-Wave Photonic Radiometer for Cubesats.” 14th European Conference on Antennas and Propagation, IEEE, 2020, doi:10.23919/eucap48036.2020.9135962. short: M. Wasiak, G.S. Botello, K.A. Abdalmalak, F. Sedlmeir, A.R. Rueda Sanchez, D. Segovia-Vargas, H.G.L. Schwefel, L.E.G. Munoz, in:, 14th European Conference on Antennas and Propagation, IEEE, 2020. conference: end_date: 2020-03-20 location: Copenhagen, Denmark name: 'EuCAP: European Conference on Antennas and Propagation' start_date: 2020-03-15 date_created: 2024-03-04T09:57:48Z date_published: 2020-07-08T00:00:00Z date_updated: 2024-03-04T10:02:49Z day: '08' department: - _id: JoFi doi: 10.23919/eucap48036.2020.9135962 language: - iso: eng month: '07' oa_version: None publication: 14th European Conference on Antennas and Propagation publication_identifier: eisbn: - '9788831299008' publication_status: published publisher: IEEE quality_controlled: '1' status: public title: Compact millimeter and submillimeter-wave photonic radiometer for cubesats type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '15061' abstract: - lang: eng text: The actin cytoskeleton, a dynamic network of actin filaments and associated F-actin–binding proteins, is fundamentally important in eukaryotes. α-Actinins are major F-actin bundlers that are inhibited by Ca2+ in nonmuscle cells. Here we report the mechanism of Ca2+-mediated regulation of Entamoeba histolytica α-actinin-2 (EhActn2) with features expected for the common ancestor of Entamoeba and higher eukaryotic α-actinins. Crystal structures of Ca2+-free and Ca2+-bound EhActn2 reveal a calmodulin-like domain (CaMD) uniquely inserted within the rod domain. Integrative studies reveal an exceptionally high affinity of the EhActn2 CaMD for Ca2+, binding of which can only be regulated in the presence of physiological concentrations of Mg2+. Ca2+ binding triggers an increase in protein multidomain rigidity, reducing conformational flexibility of F-actin–binding domains via interdomain cross-talk and consequently inhibiting F-actin bundling. In vivo studies uncover that EhActn2 plays an important role in phagocytic cup formation and might constitute a new drug target for amoebic dysentery. acknowledged_ssus: - _id: LifeSc acknowledgement: "We thank the staff of the macromolecular crystallography (MX) and SAXS beamlines at the European Synchrotron Radiation facility, Diamond, and Swiss Light Source for excellent support, and the Life Sciences Facility of the Institute of Science and Technology Austria for usage of the rheometer. We thank Life Sciences editors for editing assistance. EM data were\r\nrecorded at the EM Facility of the Vienna BioCenter Core Facilities (Austria). Confocal microscopy was carried out at the Advanced Instrument Research Facility, Jawaharlal Nehru University. K.D.-C.’s research was supported by the Initial Training Network MUZIC (ITN-MUZIC) (N°238423), Austrian Science Fund (FWF) Projects I525, I1593, P22276, P19060, and W1221, Laura Bassi Centre of Optimized Structural Studies (N°253275), a Wellcome Trust Collaborative Award (201543/Z/16/Z), COST Action BM1405, Vienna Science and Technology Fund (WWTF) Chemical Biology Project LS17-008, and Christian Doppler Laboratory for High-Content Structural Biology and Biotechnology. K.Z., J.L.A., C.S., E.A.G., and A.S. were supported by the University of Vienna, J.K. by a Wellcome Trust Collaborative Award and by the Centre of Optimized Structural Studies, M.P. by FWF Project I1593, E.d.A.R. ITN-MUZIC, and FWF Projects I525 and I1593, and T.C.M. and L.C. by FWF Project I 2408-B22. E.A.G. acknowledges the PhD program Structure and Interaction of Biological Macromolecules. M.B. acknowledges the University Grant Commission, India, for a senior research fellowship. A.B. acknowledges a JC Bose Fellowship from the Science Engineering Research Council. " article_processing_charge: No article_type: original author: - first_name: Nikos full_name: Pinotsis, Nikos last_name: Pinotsis - first_name: Karolina full_name: Zielinska, Karolina last_name: Zielinska - first_name: Mrigya full_name: Babuta, Mrigya last_name: Babuta - first_name: Joan L. full_name: Arolas, Joan L. last_name: Arolas - first_name: Julius full_name: Kostan, Julius last_name: Kostan - first_name: Muhammad Bashir full_name: Khan, Muhammad Bashir last_name: Khan - first_name: Claudia full_name: Schreiner, Claudia last_name: Schreiner - first_name: Anita P full_name: Testa Salmazo, Anita P id: 41F1F098-F248-11E8-B48F-1D18A9856A87 last_name: Testa Salmazo - first_name: Luciano full_name: Ciccarelli, Luciano last_name: Ciccarelli - first_name: Martin full_name: Puchinger, Martin last_name: Puchinger - first_name: Eirini A. full_name: Gkougkoulia, Eirini A. last_name: Gkougkoulia - first_name: Euripedes de Almeida full_name: Ribeiro, Euripedes de Almeida last_name: Ribeiro - first_name: Thomas C. full_name: Marlovits, Thomas C. last_name: Marlovits - first_name: Alok full_name: Bhattacharya, Alok last_name: Bhattacharya - first_name: Kristina full_name: Djinovic-Carugo, Kristina last_name: Djinovic-Carugo citation: ama: Pinotsis N, Zielinska K, Babuta M, et al. Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin. Proceedings of the National Academy of Sciences of the United States of America. 2020;117(36):22101-22112. doi:10.1073/pnas.1917269117 apa: Pinotsis, N., Zielinska, K., Babuta, M., Arolas, J. L., Kostan, J., Khan, M. B., … Djinovic-Carugo, K. (2020). Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin. Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences. https://doi.org/10.1073/pnas.1917269117 chicago: Pinotsis, Nikos, Karolina Zielinska, Mrigya Babuta, Joan L. Arolas, Julius Kostan, Muhammad Bashir Khan, Claudia Schreiner, et al. “Calcium Modulates the Domain Flexibility and Function of an α-Actinin Similar to the Ancestral α-Actinin.” Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences, 2020. https://doi.org/10.1073/pnas.1917269117. ieee: N. Pinotsis et al., “Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin,” Proceedings of the National Academy of Sciences of the United States of America, vol. 117, no. 36. National Academy of Sciences, pp. 22101–22112, 2020. ista: Pinotsis N, Zielinska K, Babuta M, Arolas JL, Kostan J, Khan MB, Schreiner C, Testa Salmazo AP, Ciccarelli L, Puchinger M, Gkougkoulia EA, Ribeiro E de A, Marlovits TC, Bhattacharya A, Djinovic-Carugo K. 2020. Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin. Proceedings of the National Academy of Sciences of the United States of America. 117(36), 22101–22112. mla: Pinotsis, Nikos, et al. “Calcium Modulates the Domain Flexibility and Function of an α-Actinin Similar to the Ancestral α-Actinin.” Proceedings of the National Academy of Sciences of the United States of America, vol. 117, no. 36, National Academy of Sciences, 2020, pp. 22101–12, doi:10.1073/pnas.1917269117. short: N. Pinotsis, K. Zielinska, M. Babuta, J.L. Arolas, J. Kostan, M.B. Khan, C. Schreiner, A.P. Testa Salmazo, L. Ciccarelli, M. Puchinger, E.A. Gkougkoulia, E. de A. Ribeiro, T.C. Marlovits, A. Bhattacharya, K. Djinovic-Carugo, Proceedings of the National Academy of Sciences of the United States of America 117 (2020) 22101–22112. date_created: 2024-03-04T10:03:52Z date_published: 2020-09-08T00:00:00Z date_updated: 2025-05-14T10:57:38Z day: '08' department: - _id: CaBe doi: 10.1073/pnas.1917269117 external_id: pmid: - '32848067' intvolume: ' 117' issue: '36' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1073/pnas.191726911 month: '09' oa: 1 oa_version: Published Version page: 22101-22112 pmid: 1 publication: Proceedings of the National Academy of Sciences of the United States of America publication_identifier: eissn: - 1091-6490 issn: - 0027-8424 publication_status: published publisher: National Academy of Sciences quality_controlled: '1' status: public title: Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 117 year: '2020' ... --- _id: '15063' abstract: - lang: eng text: We consider the least singular value of a large random matrix with real or complex i.i.d. Gaussian entries shifted by a constant z∈C. We prove an optimal lower tail estimate on this singular value in the critical regime where z is around the spectral edge, thus improving the classical bound of Sankar, Spielman and Teng (SIAM J. Matrix Anal. Appl. 28:2 (2006), 446–476) for the particular shift-perturbation in the edge regime. Lacking Brézin–Hikami formulas in the real case, we rely on the superbosonization formula (Comm. Math. Phys. 283:2 (2008), 343–395). acknowledgement: Partially supported by ERC Advanced Grant No. 338804. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie Grant Agreement No. 66538 article_processing_charge: No article_type: original arxiv: 1 author: - first_name: Giorgio full_name: Cipolloni, Giorgio id: 42198EFA-F248-11E8-B48F-1D18A9856A87 last_name: Cipolloni orcid: 0000-0002-4901-7992 - first_name: László full_name: Erdös, László id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 - first_name: Dominik J full_name: Schröder, Dominik J id: 408ED176-F248-11E8-B48F-1D18A9856A87 last_name: Schröder orcid: 0000-0002-2904-1856 citation: ama: Cipolloni G, Erdös L, Schröder DJ. Optimal lower bound on the least singular value of the shifted Ginibre ensemble. Probability and Mathematical Physics. 2020;1(1):101-146. doi:10.2140/pmp.2020.1.101 apa: Cipolloni, G., Erdös, L., & Schröder, D. J. (2020). Optimal lower bound on the least singular value of the shifted Ginibre ensemble. Probability and Mathematical Physics. Mathematical Sciences Publishers. https://doi.org/10.2140/pmp.2020.1.101 chicago: Cipolloni, Giorgio, László Erdös, and Dominik J Schröder. “Optimal Lower Bound on the Least Singular Value of the Shifted Ginibre Ensemble.” Probability and Mathematical Physics. Mathematical Sciences Publishers, 2020. https://doi.org/10.2140/pmp.2020.1.101. ieee: G. Cipolloni, L. Erdös, and D. J. Schröder, “Optimal lower bound on the least singular value of the shifted Ginibre ensemble,” Probability and Mathematical Physics, vol. 1, no. 1. Mathematical Sciences Publishers, pp. 101–146, 2020. ista: Cipolloni G, Erdös L, Schröder DJ. 2020. Optimal lower bound on the least singular value of the shifted Ginibre ensemble. Probability and Mathematical Physics. 1(1), 101–146. mla: Cipolloni, Giorgio, et al. “Optimal Lower Bound on the Least Singular Value of the Shifted Ginibre Ensemble.” Probability and Mathematical Physics, vol. 1, no. 1, Mathematical Sciences Publishers, 2020, pp. 101–46, doi:10.2140/pmp.2020.1.101. short: G. Cipolloni, L. Erdös, D.J. Schröder, Probability and Mathematical Physics 1 (2020) 101–146. corr_author: '1' date_created: 2024-03-04T10:27:57Z date_published: 2020-11-16T00:00:00Z date_updated: 2025-07-10T11:51:06Z day: '16' department: - _id: LaEr doi: 10.2140/pmp.2020.1.101 ec_funded: 1 external_id: arxiv: - '1908.01653' intvolume: ' 1' issue: '1' keyword: - General Medicine language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.1908.01653 month: '11' oa: 1 oa_version: Preprint page: 101-146 project: - _id: 258DCDE6-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '338804' name: Random matrices, universality and disordered quantum systems - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program publication: Probability and Mathematical Physics publication_identifier: issn: - 2690-0998 publication_status: published publisher: Mathematical Sciences Publishers quality_controlled: '1' scopus_import: '1' status: public title: Optimal lower bound on the least singular value of the shifted Ginibre ensemble type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 1 year: '2020' ...