[{"citation":{"short":"F.K. Schur, (2020).","ieee":"F. K. Schur, “STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy.” Institute of Science and Technology Austria, 2020.","apa":"Schur, F. K. (2020). STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:14592","ama":"Schur FK. STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. 2020. doi:10.15479/AT:ISTA:14592","ista":"Schur FK. 2020. STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy, Institute of Science and Technology Austria, 10.15479/AT:ISTA:14592.","chicago":"Schur, Florian KM. “STL-Files for 3D-Printed Grid Holders Described in Fäßler F, Zens B, et Al.; 3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation in Cryo-Electron Microscopy.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:14592.","mla":"Schur, Florian KM. STL-Files for 3D-Printed Grid Holders Described in Fäßler F, Zens B, et Al.; 3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation in Cryo-Electron Microscopy. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:14592."},"contributor":[{"last_name":"Fäßler","first_name":"Florian","orcid":"0000-0001-7149-769X","id":"404F5528-F248-11E8-B48F-1D18A9856A87","contributor_type":"researcher"},{"id":"45FD126C-F248-11E8-B48F-1D18A9856A87","contributor_type":"researcher","last_name":"Zens","first_name":"Bettina"},{"last_name":"Hauschild","first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","contributor_type":"researcher"},{"id":"48AD8942-F248-11E8-B48F-1D18A9856A87","contributor_type":"researcher","last_name":"Schur","first_name":"Florian KM","orcid":"0000-0003-4790-8078"}],"date_created":"2023-11-22T15:00:57Z","file_date_updated":"2023-12-01T10:39:59Z","status":"public","license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","oa":1,"year":"2020","oa_version":"Published Version","doi":"10.15479/AT:ISTA:14592","has_accepted_license":"1","type":"research_data","title":"STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy","corr_author":"1","department":[{"_id":"FlSc"}],"publisher":"Institute of Science and Technology Austria","abstract":[{"text":"Cryo-electron microscopy (cryo-EM) of cellular specimens provides insights into biological processes and structures within a native context. However, a major challenge still lies in the efficient and reproducible preparation of adherent cells for subsequent cryo-EM analysis. This is due to the sensitivity of many cellular specimens to the varying seeding and culturing conditions required for EM experiments, the often limited amount of cellular material and also the fragility of EM grids and their substrate. Here, we present low-cost and reusable 3D printed grid holders, designed to improve specimen preparation when culturing challenging cellular samples directly on grids. The described grid holders increase cell culture reproducibility and throughput, and reduce the resources required for cell culturing. We show that grid holders can be integrated into various cryo-EM workflows, including micro-patterning approaches to control cell seeding on grids, and for generating samples for cryo-focused ion beam milling and cryo-electron tomography experiments. Their adaptable design allows for the generation of specialized grid holders customized to a large variety of applications.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"id":"8586","status":"public","relation":"research_data"}]},"project":[{"_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A","grant_number":"P33367","name":"Structure and isoform diversity of the Arp2/3 complex"}],"month":"12","date_published":"2020-12-01T00:00:00Z","author":[{"orcid":"0000-0003-4790-8078","first_name":"Florian KM","last_name":"Schur","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","full_name":"Schur, Florian KM"}],"day":"01","tmp":{"name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","short":"CC BY-NC-SA (4.0)"},"date_updated":"2025-06-12T07:35:28Z","ddc":["570"],"article_processing_charge":"No","_id":"14592","file":[{"file_size":49297,"file_id":"14593","relation":"main_file","content_type":"application/zip","date_created":"2023-11-22T14:58:44Z","creator":"fschur","checksum":"0108616e2a59e51879ea51299a29b091","access_level":"open_access","date_updated":"2023-11-22T14:58:44Z","file_name":"3Dprint-files_download_v2.zip","success":1},{"file_size":641,"relation":"main_file","file_id":"14637","access_level":"open_access","checksum":"4c66ddedee4d01c1c4a7978208350cfc","date_updated":"2023-12-01T10:39:59Z","date_created":"2023-12-01T10:39:59Z","content_type":"text/plain","creator":"cchlebak","file_name":"readme.txt","success":1}]},{"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"department":[{"_id":"LaEr"}],"related_material":{"record":[{"id":"6183","relation":"earlier_version","status":"public"}]},"abstract":[{"text":"We study the unique solution m of the Dyson equation \\( -m(z)^{-1} = z\\1 - a + S[m(z)] \\) on a von Neumann algebra A with the constraint Imm≥0. Here, z lies in the complex upper half-plane, a is a self-adjoint element of A and S is a positivity-preserving linear operator on A. We show that m is the Stieltjes transform of a compactly supported A-valued measure on R. Under suitable assumptions, we establish that this measure has a uniformly 1/3-Hölder continuous density with respect to the Lebesgue measure, which is supported on finitely many intervals, called bands. In fact, the density is analytic inside the bands with a square-root growth at the edges and internal cubic root cusps whenever the gap between two bands vanishes. The shape of these singularities is universal and no other singularity may occur. We give a precise asymptotic description of m near the singular points. These asymptotics generalize the analysis at the regular edges given in the companion paper on the Tracy-Widom universality for the edge eigenvalue statistics for correlated random matrices [the first author et al., Ann. Probab. 48, No. 2, 963--1001 (2020; Zbl 1434.60017)] and they play a key role in the proof of the Pearcey universality at the cusp for Wigner-type matrices [G. Cipolloni et al., Pure Appl. Anal. 1, No. 4, 615--707 (2019; Zbl 07142203); the second author et al., Commun. Math. Phys. 378, No. 2, 1203--1278 (2020; Zbl 07236118)]. We also extend the finite dimensional band mass formula from [the first author et al., loc. cit.] to the von Neumann algebra setting by showing that the spectral mass of the bands is topologically rigid under deformations and we conclude that these masses are quantized in some important cases.","lang":"eng"}],"month":"09","date_published":"2020-09-01T00:00:00Z","publication_status":"published","_id":"14694","article_type":"original","citation":{"ama":"Alt J, Erdös L, Krüger TH. The Dyson equation with linear self-energy: Spectral bands, edges and cusps. Documenta Mathematica. 2020;25:1421-1539. doi:10.4171/dm/780","ieee":"J. Alt, L. Erdös, and T. H. Krüger, “The Dyson equation with linear self-energy: Spectral bands, edges and cusps,” Documenta Mathematica, vol. 25. EMS Press, pp. 1421–1539, 2020.","apa":"Alt, J., Erdös, L., & Krüger, T. H. (2020). The Dyson equation with linear self-energy: Spectral bands, edges and cusps. Documenta Mathematica. EMS Press. https://doi.org/10.4171/dm/780","short":"J. Alt, L. Erdös, T.H. Krüger, Documenta Mathematica 25 (2020) 1421–1539.","chicago":"Alt, Johannes, László Erdös, and Torben H Krüger. “The Dyson Equation with Linear Self-Energy: Spectral Bands, Edges and Cusps.” Documenta Mathematica. EMS Press, 2020. https://doi.org/10.4171/dm/780.","mla":"Alt, Johannes, et al. “The Dyson Equation with Linear Self-Energy: Spectral Bands, Edges and Cusps.” Documenta Mathematica, vol. 25, EMS Press, 2020, pp. 1421–539, doi:10.4171/dm/780.","ista":"Alt J, Erdös L, Krüger TH. 2020. The Dyson equation with linear self-energy: Spectral bands, edges and cusps. Documenta Mathematica. 25, 1421–1539."},"quality_controlled":"1","publication_identifier":{"eissn":["1431-0643"],"issn":["1431-0635"]},"intvolume":" 25","has_accepted_license":"1","publication":"Documenta Mathematica","title":"The Dyson equation with linear self-energy: Spectral bands, edges and cusps","arxiv":1,"corr_author":"1","oa_version":"Published Version","author":[{"id":"36D3D8B6-F248-11E8-B48F-1D18A9856A87","last_name":"Alt","first_name":"Johannes","full_name":"Alt, Johannes"},{"id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","last_name":"Erdös","orcid":"0000-0001-5366-9603","first_name":"László","full_name":"Erdös, László"},{"full_name":"Krüger, Torben H","id":"3020C786-F248-11E8-B48F-1D18A9856A87","last_name":"Krüger","orcid":"0000-0002-4821-3297","first_name":"Torben H"}],"day":"01","date_updated":"2025-04-15T08:05:00Z","ddc":["510"],"publisher":"EMS Press","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":25,"article_processing_charge":"Yes","file":[{"file_name":"2020_DocumentaMathematica_Alt.pdf","success":1,"checksum":"12aacc1d63b852ff9a51c1f6b218d4a6","access_level":"open_access","date_updated":"2023-12-18T10:42:32Z","content_type":"application/pdf","date_created":"2023-12-18T10:42:32Z","creator":"dernst","file_id":"14695","relation":"main_file","file_size":1374708}],"date_created":"2023-12-18T10:37:43Z","file_date_updated":"2023-12-18T10:42:32Z","keyword":["General Mathematics"],"language":[{"iso":"eng"}],"type":"journal_article","page":"1421-1539","external_id":{"arxiv":["1804.07752"]},"status":"public","oa":1,"year":"2020","doi":"10.4171/dm/780"},{"language":[{"iso":"eng"}],"date_created":"2024-01-28T23:01:44Z","status":"public","external_id":{"arxiv":["1903.04046"]},"oa":1,"year":"2020","scopus_import":"1","doi":"10.2140/paa.2020.2.35","type":"journal_article","page":"35-73","publisher":"Mathematical Sciences Publishers","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"last_name":"Lewin","first_name":"Mathieu","full_name":"Lewin, Mathieu"},{"full_name":"Lieb, Elliott H.","first_name":"Elliott H.","last_name":"Lieb"},{"full_name":"Seiringer, Robert","last_name":"Seiringer","first_name":"Robert","orcid":"0000-0002-6781-0521","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"}],"date_updated":"2024-10-09T21:08:02Z","day":"01","article_processing_charge":"No","volume":2,"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.1903.04046","open_access":"1"}],"citation":{"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","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.","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","short":"M. Lewin, E.H. Lieb, R. Seiringer, Pure and Applied Analysis 2 (2020) 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.","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.","ista":"Lewin M, Lieb EH, Seiringer R. 2020. The local density approximation in density functional theory. Pure and Applied Analysis. 2(1), 35–73."},"quality_controlled":"1","publication_identifier":{"eissn":["2578-5885"],"issn":["2578-5893"]},"intvolume":" 2","oa_version":"Preprint","publication":"Pure and Applied Analysis","title":" The local density approximation in density functional theory","arxiv":1,"corr_author":"1","department":[{"_id":"RoSe"}],"abstract":[{"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.","lang":"eng"}],"date_published":"2020-01-01T00:00:00Z","month":"01","issue":"1","_id":"14891","article_type":"original","publication_status":"published"},{"title":"Molecular recognition at septin interfaces: The switches hold the key","pmid":1,"publication":"Journal of Molecular Biology","oa_version":"Published Version","intvolume":" 432","publication_identifier":{"issn":["0022-2836"]},"quality_controlled":"1","citation":{"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.","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.","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.","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.","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","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","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."},"publication_status":"published","article_type":"original","_id":"15036","issue":"21","date_published":"2020-10-02T00:00:00Z","month":"10","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."}],"department":[{"_id":"MaLo"}],"type":"journal_article","page":"5784-5801","doi":"10.1016/j.jmb.2020.09.001","oa":1,"year":"2020","status":"public","external_id":{"pmid":["32910969"]},"keyword":["Molecular Biology","Structural Biology"],"date_created":"2024-02-28T08:50:34Z","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://doi.org/10.1016/j.jmb.2020.09.001","open_access":"1"}],"volume":432,"article_processing_charge":"No","ddc":["570"],"day":"02","date_updated":"2026-06-18T17:44:49Z","author":[{"first_name":"Higor Vinícius Dias","last_name":"Rosa","full_name":"Rosa, Higor Vinícius Dias"},{"full_name":"Leonardo, Diego Antonio","last_name":"Leonardo","first_name":"Diego Antonio"},{"first_name":"Gabriel","last_name":"Brognara","id":"D96FFDA0-A884-11E9-9968-DC26E6697425","full_name":"Brognara, Gabriel"},{"full_name":"Brandão-Neto, José","last_name":"Brandão-Neto","first_name":"José"},{"first_name":"Humberto","last_name":"D'Muniz Pereira","full_name":"D'Muniz Pereira, Humberto"},{"full_name":"Araújo, Ana Paula Ulian","last_name":"Araújo","first_name":"Ana Paula Ulian"},{"full_name":"Garratt, Richard Charles","first_name":"Richard Charles","last_name":"Garratt"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Elsevier"},{"article_processing_charge":"No","file":[{"relation":"main_file","file_id":"15038","file_size":3089212,"success":1,"file_name":"2020_MolecularPlant_MoulinierAnzola.pdf","date_updated":"2024-02-28T12:39:56Z","checksum":"c538a5008f7827f62d17d40a3bfabe65","access_level":"open_access","creator":"dernst","content_type":"application/pdf","date_created":"2024-02-28T12:39:56Z"}],"volume":13,"publisher":"Elsevier","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"full_name":"Moulinier-Anzola, Jeanette","first_name":"Jeanette","last_name":"Moulinier-Anzola"},{"first_name":"Maximilian","last_name":"Schwihla","full_name":"Schwihla, Maximilian"},{"full_name":"De-Araújo, Lucinda","last_name":"De-Araújo","first_name":"Lucinda"},{"full_name":"Artner, Christina","last_name":"Artner","first_name":"Christina","id":"45DF286A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Jörg, Lisa","last_name":"Jörg","first_name":"Lisa"},{"last_name":"Konstantinova","first_name":"Nataliia","full_name":"Konstantinova, Nataliia"},{"last_name":"Luschnig","first_name":"Christian","full_name":"Luschnig, Christian"},{"full_name":"Korbei, Barbara","last_name":"Korbei","first_name":"Barbara"}],"ddc":["580"],"date_updated":"2024-02-28T12:41:52Z","day":"04","external_id":{"pmid":["32087370"]},"status":"public","year":"2020","oa":1,"doi":"10.1016/j.molp.2020.02.012","type":"journal_article","page":"717-731","language":[{"iso":"eng"}],"date_created":"2024-02-28T08:55:56Z","file_date_updated":"2024-02-28T12:39:56Z","keyword":["Plant Science","Molecular Biology"],"_id":"15037","article_type":"original","publication_status":"published","department":[{"_id":"EvBe"}],"abstract":[{"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.","lang":"eng"}],"date_published":"2020-05-04T00:00:00Z","month":"05","issue":"5","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa_version":"Published Version","has_accepted_license":"1","publication":"Molecular Plant","title":"TOLs function as ubiquitin receptors in the early steps of the ESCRT pathway in higher plants","pmid":1,"citation":{"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.","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","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.","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","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.","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.","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."},"quality_controlled":"1","publication_identifier":{"issn":["1674-2052"]},"intvolume":" 13"},{"publication_identifier":{"issn":["2374-3468"]},"intvolume":" 34","citation":{"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.","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.","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.","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","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.","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","short":"T. Brázdil, K. Chatterjee, P. Novotný, J. Vahala, Proceedings of the 34th AAAI Conference on Artificial Intelligence 34 (2020) 9794–9801."},"quality_controlled":"1","oa_version":"Preprint","arxiv":1,"title":"Reinforcement learning of risk-constrained policies in Markov decision processes","publication":"Proceedings of the 34th AAAI Conference on Artificial Intelligence","project":[{"name":"Game Theory","grant_number":"S11407","_id":"25863FF4-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"date_published":"2020-04-03T00:00:00Z","month":"04","department":[{"_id":"KrCh"}],"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."}],"issue":"06","_id":"15055","article_type":"original","publication_status":"published","language":[{"iso":"eng"}],"keyword":["General Medicine"],"date_created":"2024-03-04T08:07:22Z","doi":"10.1609/aaai.v34i06.6531","status":"public","external_id":{"arxiv":["2002.12086"]},"year":"2020","oa":1,"conference":{"end_date":"2020-02-12","start_date":"2020-02-07","location":"New York, NY, United States","name":"AAAI: Conference on Artificial Intelligence"},"page":"9794-9801","type":"journal_article","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.","publisher":"Association for the Advancement of Artificial Intelligence","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"03","date_updated":"2025-04-15T06:30:08Z","author":[{"full_name":"Brázdil, Tomáš","first_name":"Tomáš","last_name":"Brázdil"},{"full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","orcid":"0000-0002-4561-241X","last_name":"Chatterjee"},{"first_name":"Petr","last_name":"Novotný","full_name":"Novotný, Petr"},{"last_name":"Vahala","first_name":"Jiří","full_name":"Vahala, Jiří"}],"article_processing_charge":"No","volume":34,"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2002.12086","open_access":"1"}]},{"issue":"27","tmp":{"short":"CC BY-NC (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)"},"department":[{"_id":"MaDe"}],"abstract":[{"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.","lang":"eng"}],"date_published":"2020-07-01T00:00:00Z","month":"07","publication_status":"published","_id":"15057","article_type":"original","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","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.","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).","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.","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.","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."},"quality_controlled":"1","publication_identifier":{"eissn":["2375-2548"]},"intvolume":" 6","has_accepted_license":"1","publication":"Science Advances","title":"VRK-1 extends life span by activation of AMPK via phosphorylation","article_number":"aaw7824","oa_version":"Published Version","author":[{"last_name":"Park","first_name":"Sangsoon","full_name":"Park, Sangsoon"},{"full_name":"Artan, Murat","id":"C407B586-6052-11E9-B3AE-7006E6697425","orcid":"0000-0001-8945-6992","first_name":"Murat","last_name":"Artan"},{"full_name":"Han, Seung Hyun","last_name":"Han","first_name":"Seung Hyun"},{"last_name":"Park","first_name":"Hae-Eun H.","full_name":"Park, Hae-Eun H."},{"first_name":"Yoonji","last_name":"Jung","full_name":"Jung, Yoonji"},{"full_name":"Hwang, Ara B.","last_name":"Hwang","first_name":"Ara B."},{"full_name":"Shin, Won Sik","last_name":"Shin","first_name":"Won Sik"},{"full_name":"Kim, Kyong-Tai","last_name":"Kim","first_name":"Kyong-Tai"},{"last_name":"Lee","first_name":"Seung-Jae V.","full_name":"Lee, Seung-Jae V."}],"date_updated":"2024-03-04T09:52:09Z","day":"01","ddc":["570"],"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. ","publisher":"American Association for the Advancement of Science","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":6,"article_processing_charge":"No","file":[{"file_size":1864415,"relation":"main_file","file_id":"15058","access_level":"open_access","checksum":"a37157cd0de709dce5fe03f4a31cd0b6","date_updated":"2024-03-04T09:46:41Z","date_created":"2024-03-04T09:46:41Z","content_type":"application/pdf","creator":"dernst","file_name":"2020_ScienceAdvances_Park.pdf","success":1}],"date_created":"2024-03-04T09:41:57Z","file_date_updated":"2024-03-04T09:46:41Z","language":[{"iso":"eng"}],"type":"journal_article","status":"public","oa":1,"year":"2020","doi":"10.1126/sciadv.aaw7824"},{"date_created":"2024-03-04T09:57:48Z","language":[{"iso":"eng"}],"citation":{"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","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.","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","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.","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.","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.","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."},"quality_controlled":"1","publication_identifier":{"eisbn":["9788831299008"]},"type":"conference","publication":"14th European Conference on Antennas and Propagation","title":"Compact millimeter and submillimeter-wave photonic radiometer for cubesats","status":"public","year":"2020","conference":{"name":"EuCAP: European Conference on Antennas and Propagation","start_date":"2020-03-15","location":"Copenhagen, Denmark","end_date":"2020-03-20"},"oa_version":"None","doi":"10.23919/eucap48036.2020.9135962","author":[{"full_name":"Wasiak, Michal","last_name":"Wasiak","first_name":"Michal"},{"last_name":"Botello","first_name":"Gabriel Santamaria","full_name":"Botello, Gabriel Santamaria"},{"first_name":"Kerlos Atia","last_name":"Abdalmalak","full_name":"Abdalmalak, Kerlos Atia"},{"last_name":"Sedlmeir","first_name":"Florian","full_name":"Sedlmeir, Florian"},{"id":"3B82B0F8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6249-5860","first_name":"Alfredo R","last_name":"Rueda Sanchez","full_name":"Rueda Sanchez, Alfredo R"},{"last_name":"Segovia-Vargas","first_name":"Daniel","full_name":"Segovia-Vargas, Daniel"},{"last_name":"Schwefel","first_name":"Harald G. L.","full_name":"Schwefel, Harald G. L."},{"full_name":"Munoz, Luis Enrique Garcia","last_name":"Munoz","first_name":"Luis Enrique Garcia"}],"day":"08","date_updated":"2024-03-04T10:02:49Z","acknowledgement":"This work has been financially supported by Comunidad de Madrid S2018/NMT-4333 ARTINLARA-CM projects, and “FUNDACIÓN SENER” REFTA projects.","publisher":"IEEE","department":[{"_id":"JoFi"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"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.","lang":"eng"}],"month":"07","date_published":"2020-07-08T00:00:00Z","publication_status":"published","article_processing_charge":"No","_id":"15059"},{"date_created":"2024-03-04T10:03:52Z","language":[{"iso":"eng"}],"type":"journal_article","page":"22101-22112","doi":"10.1073/pnas.1917269117","year":"2020","oa":1,"external_id":{"pmid":["32848067"]},"status":"public","ddc":["570"],"date_updated":"2026-06-18T17:45:21Z","day":"08","author":[{"full_name":"Pinotsis, Nikos","first_name":"Nikos","last_name":"Pinotsis"},{"last_name":"Zielinska","first_name":"Karolina","full_name":"Zielinska, Karolina"},{"full_name":"Babuta, Mrigya","last_name":"Babuta","first_name":"Mrigya"},{"full_name":"Arolas, Joan L.","first_name":"Joan L.","last_name":"Arolas"},{"first_name":"Julius","last_name":"Kostan","full_name":"Kostan, Julius"},{"full_name":"Khan, Muhammad Bashir","first_name":"Muhammad Bashir","last_name":"Khan"},{"last_name":"Schreiner","first_name":"Claudia","full_name":"Schreiner, Claudia"},{"full_name":"Testa Salmazo, Anita P","last_name":"Testa Salmazo","first_name":"Anita P","id":"41F1F098-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Ciccarelli, Luciano","first_name":"Luciano","last_name":"Ciccarelli"},{"full_name":"Puchinger, Martin","first_name":"Martin","last_name":"Puchinger"},{"first_name":"Eirini A.","last_name":"Gkougkoulia","full_name":"Gkougkoulia, Eirini A."},{"first_name":"Euripedes de Almeida","last_name":"Ribeiro","full_name":"Ribeiro, Euripedes de Almeida"},{"full_name":"Marlovits, Thomas C.","first_name":"Thomas C.","last_name":"Marlovits"},{"last_name":"Bhattacharya","first_name":"Alok","full_name":"Bhattacharya, Alok"},{"first_name":"Kristina","last_name":"Djinovic-Carugo","full_name":"Djinovic-Carugo, Kristina"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","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. ","publisher":"National Academy of Sciences","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.191726911"}],"volume":117,"article_processing_charge":"No","acknowledged_ssus":[{"_id":"LifeSc"}],"intvolume":" 117","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"quality_controlled":"1","citation":{"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.","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.","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.","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.","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","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","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."},"title":"Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin","pmid":1,"publication":"Proceedings of the National Academy of Sciences of the United States of America","oa_version":"Published Version","issue":"36","date_published":"2020-09-08T00:00:00Z","month":"09","abstract":[{"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.","lang":"eng"}],"department":[{"_id":"CaBe"}],"publication_status":"published","article_type":"original","_id":"15061"},{"corr_author":"1","title":"Optimal lower bound on the least singular value of the shifted Ginibre ensemble","arxiv":1,"publication":"Probability and Mathematical Physics","oa_version":"Preprint","intvolume":" 1","publication_identifier":{"issn":["2690-0998"]},"quality_controlled":"1","citation":{"short":"G. Cipolloni, L. Erdös, D.J. Schröder, Probability and Mathematical Physics 1 (2020) 101–146.","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","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.","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."},"publication_status":"published","article_type":"original","_id":"15063","ec_funded":1,"issue":"1","date_published":"2020-11-16T00:00:00Z","month":"11","project":[{"_id":"258DCDE6-B435-11E9-9278-68D0E5697425","grant_number":"338804","call_identifier":"FP7","name":"Random matrices, universality and disordered quantum systems"},{"call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","name":"International IST Doctoral Program"}],"abstract":[{"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).","lang":"eng"}],"department":[{"_id":"LaEr"}],"page":"101-146","type":"journal_article","doi":"10.2140/pmp.2020.1.101","scopus_import":"1","oa":1,"year":"2020","status":"public","external_id":{"arxiv":["1908.01653"]},"keyword":["General Medicine"],"date_created":"2024-03-04T10:27:57Z","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.1908.01653","open_access":"1"}],"volume":1,"article_processing_charge":"No","day":"16","date_updated":"2025-07-10T11:51:06Z","author":[{"full_name":"Cipolloni, Giorgio","orcid":"0000-0002-4901-7992","first_name":"Giorgio","last_name":"Cipolloni","id":"42198EFA-F248-11E8-B48F-1D18A9856A87"},{"id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5366-9603","first_name":"László","last_name":"Erdös","full_name":"Erdös, László"},{"full_name":"Schröder, Dominik J","first_name":"Dominik J","orcid":"0000-0002-2904-1856","last_name":"Schröder","id":"408ED176-F248-11E8-B48F-1D18A9856A87"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Mathematical Sciences Publishers","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"},{"author":[{"full_name":"Bauer, U.","first_name":"U.","last_name":"Bauer"},{"full_name":"Edelsbrunner, Herbert","orcid":"0000-0002-9823-6833","first_name":"Herbert","last_name":"Edelsbrunner","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Jablonski, Grzegorz","id":"4483EF78-F248-11E8-B48F-1D18A9856A87","first_name":"Grzegorz","orcid":"0000-0002-3536-9866","last_name":"Jablonski"},{"last_name":"Mrozek","first_name":"M.","full_name":"Mrozek, M."}],"day":"01","ddc":["500"],"date_updated":"2024-03-04T10:54:04Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Springer Nature","acknowledgement":"This research has been supported by the DFG Collaborative Research Center SFB/TRR 109 “Discretization in Geometry and Dynamics”, by Polish MNiSzW Grant No. 2621/7.PR/12/2013/2, by the Polish National Science Center under Maestro Grant No. 2014/14/A/ST1/00453 and Grant No. DEC-2013/09/N/ST6/02995. Open Access funding provided by Projekt DEAL.","volume":4,"file":[{"success":1,"file_name":"2020_JourApplCompTopology_Bauer.pdf","date_updated":"2024-03-04T10:52:42Z","access_level":"open_access","checksum":"eed1168b6e66cd55272c19bb7fca8a1c","creator":"dernst","date_created":"2024-03-04T10:52:42Z","content_type":"application/pdf","file_id":"15065","relation":"main_file","file_size":851190}],"article_processing_charge":"Yes (via OA deal)","date_created":"2024-03-04T10:47:49Z","file_date_updated":"2024-03-04T10:52:42Z","language":[{"iso":"eng"}],"page":"455-480","type":"journal_article","oa":1,"year":"2020","status":"public","doi":"10.1007/s41468-020-00058-8","scopus_import":"1","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"issue":"4","abstract":[{"text":"We call a continuous self-map that reveals itself through a discrete set of point-value pairs a sampled dynamical system. Capturing the available information with chain maps on Delaunay complexes, we use persistent homology to quantify the evidence of recurrent behavior. We establish a sampling theorem to recover the eigenspaces of the endomorphism on homology induced by the self-map. Using a combinatorial gradient flow arising from the discrete Morse theory for Čech and Delaunay complexes, we construct a chain map to transform the problem from the natural but expensive Čech complexes to the computationally efficient Delaunay triangulations. The fast chain map algorithm has applications beyond dynamical systems.","lang":"eng"}],"department":[{"_id":"HeEd"}],"date_published":"2020-12-01T00:00:00Z","month":"12","publication_status":"published","article_type":"original","_id":"15064","quality_controlled":"1","citation":{"ama":"Bauer U, Edelsbrunner H, Jablonski G, Mrozek M. Čech-Delaunay gradient flow and homology inference for self-maps. Journal of Applied and Computational Topology. 2020;4(4):455-480. doi:10.1007/s41468-020-00058-8","apa":"Bauer, U., Edelsbrunner, H., Jablonski, G., & Mrozek, M. (2020). Čech-Delaunay gradient flow and homology inference for self-maps. Journal of Applied and Computational Topology. Springer Nature. https://doi.org/10.1007/s41468-020-00058-8","ieee":"U. Bauer, H. Edelsbrunner, G. Jablonski, and M. Mrozek, “Čech-Delaunay gradient flow and homology inference for self-maps,” Journal of Applied and Computational Topology, vol. 4, no. 4. Springer Nature, pp. 455–480, 2020.","short":"U. Bauer, H. Edelsbrunner, G. Jablonski, M. Mrozek, Journal of Applied and Computational Topology 4 (2020) 455–480.","chicago":"Bauer, U., Herbert Edelsbrunner, Grzegorz Jablonski, and M. Mrozek. “Čech-Delaunay Gradient Flow and Homology Inference for Self-Maps.” Journal of Applied and Computational Topology. Springer Nature, 2020. https://doi.org/10.1007/s41468-020-00058-8.","mla":"Bauer, U., et al. “Čech-Delaunay Gradient Flow and Homology Inference for Self-Maps.” Journal of Applied and Computational Topology, vol. 4, no. 4, Springer Nature, 2020, pp. 455–80, doi:10.1007/s41468-020-00058-8.","ista":"Bauer U, Edelsbrunner H, Jablonski G, Mrozek M. 2020. Čech-Delaunay gradient flow and homology inference for self-maps. Journal of Applied and Computational Topology. 4(4), 455–480."},"intvolume":" 4","publication_identifier":{"issn":["2367-1726"],"eissn":["2367-1734"]},"publication":"Journal of Applied and Computational Topology","has_accepted_license":"1","title":"Čech-Delaunay gradient flow and homology inference for self-maps","oa_version":"Published Version"},{"file_date_updated":"2024-03-20T08:05:46Z","date_created":"2024-03-04T11:41:31Z","language":[{"iso":"eng"}],"type":"conference","doi":"10.3390/ecm2020-07116","status":"public","oa":1,"year":"2020","conference":{"location":"Virtual","name":"ECM: Electronic Conference on Microbiology","start_date":"2020-11-02","end_date":"2020-11-30"},"date_updated":"2024-03-20T08:06:22Z","day":"02","ddc":["570"],"author":[{"full_name":"Oshurkova, Viktoriia","last_name":"Oshurkova","first_name":"Viktoriia"},{"full_name":"Troshina, Olga","last_name":"Troshina","first_name":"Olga"},{"full_name":"Trubitsyn, Vladimir","first_name":"Vladimir","last_name":"Trubitsyn"},{"full_name":"Ryzhmanova, Yana","last_name":"Ryzhmanova","first_name":"Yana"},{"id":"C4558D3C-6102-11E9-A62E-F418E6697425","orcid":"0000-0003-1006-6639","first_name":"Olga","last_name":"Bochkareva","full_name":"Bochkareva, Olga"},{"full_name":"Shcherbakova, Viktoria","first_name":"Viktoria","last_name":"Shcherbakova"}],"acknowledgement":"The work was supported by of Russian Foundation of Basic Research: grant № 19-04-00831 for Viktoria Shcherbakova and Olga Troshina, grant № 18-34-00334 for Viktoriia Oshurkova and Vladimir Trubitsyn. \r\nWe thank Dr Natalia Suzina (IBPM RAS, Federal Research Center Pushchino Center for\r\nBiological Research RAS) for the help with the microscopic studies, respectively; Dr. Margarita Meyer (Division of Genetics, Department of Medicine, BWH and HMS, USA) and Dr Fedor Kondrashov (IST, Austria) for their help in obtaining the genomic sequence of strain JL01. ","publisher":"MDPI","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"Yes","file":[{"file_id":"15127","relation":"main_file","file_size":595543,"success":1,"file_name":"2020_ECM_Oshurkova.pdf","date_updated":"2024-03-20T08:05:46Z","checksum":"d1914af7811a21a4b2744eb51b5834e3","access_level":"open_access","creator":"dernst","date_created":"2024-03-20T08:05:46Z","content_type":"application/pdf"}],"citation":{"ista":"Oshurkova V, Troshina O, Trubitsyn V, Ryzhmanova Y, Bochkareva O, Shcherbakova V. 2020. Characterization of methanosarcina mazei JL01 isolated from holocene arctic permafrost and study of the archaeon cooperation with bacterium Sphaerochaeta associata GLS2T. Proceedings of 1st International Electronic Conference on Microbiology. ECM: Electronic Conference on Microbiology.","chicago":"Oshurkova, Viktoriia, Olga Troshina, Vladimir Trubitsyn, Yana Ryzhmanova, Olga Bochkareva, and Viktoria Shcherbakova. “Characterization of Methanosarcina Mazei JL01 Isolated from Holocene Arctic Permafrost and Study of the Archaeon Cooperation with Bacterium Sphaerochaeta Associata GLS2T.” In Proceedings of 1st International Electronic Conference on Microbiology. MDPI, 2020. https://doi.org/10.3390/ecm2020-07116.","mla":"Oshurkova, Viktoriia, et al. “Characterization of Methanosarcina Mazei JL01 Isolated from Holocene Arctic Permafrost and Study of the Archaeon Cooperation with Bacterium Sphaerochaeta Associata GLS2T.” Proceedings of 1st International Electronic Conference on Microbiology, MDPI, 2020, doi:10.3390/ecm2020-07116.","short":"V. Oshurkova, O. Troshina, V. Trubitsyn, Y. Ryzhmanova, O. Bochkareva, V. Shcherbakova, in:, Proceedings of 1st International Electronic Conference on Microbiology, MDPI, 2020.","ama":"Oshurkova V, Troshina O, Trubitsyn V, Ryzhmanova Y, Bochkareva O, Shcherbakova V. Characterization of methanosarcina mazei JL01 isolated from holocene arctic permafrost and study of the archaeon cooperation with bacterium Sphaerochaeta associata GLS2T. In: Proceedings of 1st International Electronic Conference on Microbiology. MDPI; 2020. doi:10.3390/ecm2020-07116","apa":"Oshurkova, V., Troshina, O., Trubitsyn, V., Ryzhmanova, Y., Bochkareva, O., & Shcherbakova, V. (2020). Characterization of methanosarcina mazei JL01 isolated from holocene arctic permafrost and study of the archaeon cooperation with bacterium Sphaerochaeta associata GLS2T. In Proceedings of 1st International Electronic Conference on Microbiology. Virtual: MDPI. https://doi.org/10.3390/ecm2020-07116","ieee":"V. Oshurkova, O. Troshina, V. Trubitsyn, Y. Ryzhmanova, O. Bochkareva, and V. Shcherbakova, “Characterization of methanosarcina mazei JL01 isolated from holocene arctic permafrost and study of the archaeon cooperation with bacterium Sphaerochaeta associata GLS2T,” in Proceedings of 1st International Electronic Conference on Microbiology, Virtual, 2020."},"quality_controlled":"1","title":"Characterization of methanosarcina mazei JL01 isolated from holocene arctic permafrost and study of the archaeon cooperation with bacterium Sphaerochaeta associata GLS2T","has_accepted_license":"1","publication":"Proceedings of 1st International Electronic Conference on Microbiology","oa_version":"Published Version","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_published":"2020-11-02T00:00:00Z","month":"11","department":[{"_id":"FyKo"}],"abstract":[{"text":"A mesophilic methanogenic culture, designated JL01, was isolated from Holocene permafrost in the Russian Arctic [1]. After long-term extensive cultivation at 15°C it turned out to be a tied binary culture of archaeal (JL01) and bacterial (Sphaerochaeta associata GLS2) strains.\r\nStrain JL01 was a strict anaerobe and grew on methanol, acetate and methylamines as energy and carbon sources. Cells were irregular coccoid, non-motile, non-spore-forming, and Gram-stainpositive. Optimum conditions for growth were 24-28 oC, pH 6.8–7.3 and 0.075-0.1 M NaCl.\r\nPhylogenetic tree reconstructions based on 16S rRNA and concatenated alignment of broadly\r\nconserved protein-coding genes revealed its close relation to Methanosarcina mazei S-6\r\nT (similarity 99.5%). The comparison of whole genomic sequences (ANI) of the isolate and the type strain of M.mazei was 98.5%, which is higher than the values recommended for new species. Thus strain JL01 (=VKM B-2370=JCM 31898) represents the first M. mazei isolated from permanently subzero Arcticsediments. The long-term co-cultivation of JL01 with S. associata GLS2T showed the methane production without any additional carbon and energy sources. Genome analysis of S. associata GLS2T revealed putative genes involved in methanochondroithin catabolism.","lang":"eng"}],"publication_status":"published","_id":"15071"},{"ec_funded":1,"_id":"15077","publication_status":"published","abstract":[{"lang":"eng","text":"We consider the following dynamic load-balancing process: given an underlying graph G with n nodes, in each step t≥ 0, one unit of load is created, and placed at a randomly chosen graph node. In the same step, the chosen node picks a random neighbor, and the two nodes balance their loads by averaging them. We are interested in the expected gap between the minimum and maximum loads at nodes as the process progresses, and its dependence on n and on the graph structure. Variants of the above graphical balanced allocation process have been studied previously by Peres, Talwar, and Wieder [Peres et al., 2015], and by Sauerwald and Sun [Sauerwald and Sun, 2015]. These authors left as open the question of characterizing the gap in the case of cycle graphs in the dynamic case, where weights are created during the algorithm’s execution. For this case, the only known upper bound is of 𝒪(n log n), following from a majorization argument due to [Peres et al., 2015], which analyzes a related graphical allocation process. In this paper, we provide an upper bound of 𝒪 (√n log n) on the expected gap of the above process for cycles of length n. We introduce a new potential analysis technique, which enables us to bound the difference in load between k-hop neighbors on the cycle, for any k ≤ n/2. We complement this with a \"gap covering\" argument, which bounds the maximum value of the gap by bounding its value across all possible subsets of a certain structure, and recursively bounding the gaps within each subset. We provide analytical and experimental evidence that our upper bound on the gap is tight up to a logarithmic factor."}],"related_material":{"record":[{"id":"8286","status":"public","relation":"later_version"}]},"department":[{"_id":"DaAl"}],"date_published":"2020-06-29T00:00:00Z","month":"06","project":[{"call_identifier":"H2020","_id":"268A44D6-B435-11E9-9278-68D0E5697425","grant_number":"805223","name":"Elastic Coordination for Scalable Machine Learning"}],"tmp":{"name":"Creative Commons Attribution 3.0 Unported (CC BY 3.0)","short":"CC BY (3.0)","legal_code_url":"https://creativecommons.org/licenses/by/3.0/legalcode","image":"/images/cc_by.png"},"license":"https://creativecommons.org/licenses/by/3.0/","article_number":"7","oa_version":"Published Version","publication":"47th International Colloquium on Automata, Languages, and Programming","has_accepted_license":"1","corr_author":"1","title":"Dynamic averaging load balancing on cycles","arxiv":1,"quality_controlled":"1","citation":{"short":"D.-A. Alistarh, G. Nadiradze, A. Sabour, in:, 47th International Colloquium on Automata, Languages, and Programming, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020.","ama":"Alistarh D-A, Nadiradze G, Sabour A. Dynamic averaging load balancing on cycles. In: 47th International Colloquium on Automata, Languages, and Programming. Vol 168. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2020. doi:10.4230/LIPIcs.ICALP.2020.7","apa":"Alistarh, D.-A., Nadiradze, G., & Sabour, A. (2020). Dynamic averaging load balancing on cycles. In 47th International Colloquium on Automata, Languages, and Programming (Vol. 168). Saarbrücken, Germany, Virtual: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.ICALP.2020.7","ieee":"D.-A. Alistarh, G. Nadiradze, and A. Sabour, “Dynamic averaging load balancing on cycles,” in 47th International Colloquium on Automata, Languages, and Programming, Saarbrücken, Germany, Virtual, 2020, vol. 168.","ista":"Alistarh D-A, Nadiradze G, Sabour A. 2020. Dynamic averaging load balancing on cycles. 47th International Colloquium on Automata, Languages, and Programming. ICALP: Automata, Languages and Programming, LIPIcs, vol. 168, 7.","mla":"Alistarh, Dan-Adrian, et al. “Dynamic Averaging Load Balancing on Cycles.” 47th International Colloquium on Automata, Languages, and Programming, vol. 168, 7, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020, doi:10.4230/LIPIcs.ICALP.2020.7.","chicago":"Alistarh, Dan-Adrian, Giorgi Nadiradze, and Amirmojtaba Sabour. “Dynamic Averaging Load Balancing on Cycles.” In 47th International Colloquium on Automata, Languages, and Programming, Vol. 168. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020. https://doi.org/10.4230/LIPIcs.ICALP.2020.7."},"intvolume":" 168","file":[{"creator":"dernst","date_created":"2024-03-05T07:25:15Z","content_type":"application/pdf","date_updated":"2024-03-05T07:25:15Z","access_level":"open_access","checksum":"e5eb16199f4ccfd77a321977eb3f026f","success":1,"file_name":"2020_LIPIcs_Alistarh.pdf","file_size":782987,"relation":"main_file","file_id":"15078"}],"article_processing_charge":"No","volume":168,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"The authors sincerely thank Thomas Sauerwald and George Giakkoupis for insightful discussions, and Mohsen Ghaffari, Yuval Peres, and Udi Wieder for feedback on earlier\r\nversions of this draft. We also thank the ICALP anonymous reviewers for their very useful comments.\r\nFunding: European Research Council funding award PR1042ERC01","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","author":[{"last_name":"Alistarh","orcid":"0000-0003-3650-940X","first_name":"Dan-Adrian","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","full_name":"Alistarh, Dan-Adrian"},{"id":"3279A00C-F248-11E8-B48F-1D18A9856A87","last_name":"Nadiradze","orcid":"0000-0001-5634-0731","first_name":"Giorgi","full_name":"Nadiradze, Giorgi"},{"first_name":"Amirmojtaba","last_name":"Sabour","id":"bcc145fd-e77f-11ea-ae8b-80d661dbff67","full_name":"Sabour, Amirmojtaba"}],"ddc":["000"],"date_updated":"2025-07-10T11:55:11Z","day":"29","year":"2020","oa":1,"conference":{"name":"ICALP: Automata, Languages and Programming","start_date":"2020-07-08","location":"Saarbrücken, Germany, Virtual","end_date":"2020-07-11"},"external_id":{"arxiv":["2003.09297"]},"status":"public","doi":"10.4230/LIPIcs.ICALP.2020.7","scopus_import":"1","type":"conference","language":[{"iso":"eng"}],"alternative_title":["LIPIcs"],"date_created":"2024-03-05T07:25:37Z","file_date_updated":"2024-03-05T07:25:15Z"},{"abstract":[{"text":"Two plane drawings of geometric graphs on the same set of points are called disjoint compatible if their union is plane and they do not have an edge in common. For a given set S of 2n points two plane drawings of perfect matchings M1 and M2 (which do not need to be disjoint nor compatible) are disjoint tree-compatible if there exists a plane drawing of a spanning tree T on S which is disjoint compatible to both M1 and M2.\r\nWe show that the graph of all disjoint tree-compatible perfect geometric matchings on 2n points in convex position is connected if and only if 2n ≥ 10. Moreover, in that case the diameter\r\nof this graph is either 4 or 5, independent of n.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"Research on this work was initiated at the 6th Austrian-Japanese-Mexican-Spanish Workshop on Discrete Geometry and continued during the 16th European Geometric Graph-Week, both held near Strobl, Austria. We are grateful to the participants for the inspiring atmosphere. We especially thank Alexander Pilz for bringing this class of problems to our attention and Birgit Vogtenhuber for inspiring discussions. D.P. is partially supported by the FWF grant I 3340-N35 (Collaborative DACH project Arrangements and Drawings). The research stay of P.P. at IST Austria is funded by the project CZ.02.2.69/0.0/0.0/17_050/0008466 Improvement of internationalization in the field of research and development at Charles University, through the support of quality projects MSCA-IF. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 734922.","department":[{"_id":"KrCh"},{"_id":"UlWa"}],"month":"04","date_published":"2020-04-01T00:00:00Z","author":[{"full_name":"Aichholzer, Oswin","first_name":"Oswin","last_name":"Aichholzer"},{"full_name":"Obmann, Julia","last_name":"Obmann","first_name":"Julia"},{"last_name":"Patak","first_name":"Pavel","id":"B593B804-1035-11EA-B4F1-947645A5BB83","full_name":"Patak, Pavel"},{"full_name":"Perz, Daniel","last_name":"Perz","first_name":"Daniel"},{"id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","last_name":"Tkadlec","orcid":"0000-0002-1097-9684","first_name":"Josef","full_name":"Tkadlec, Josef"}],"date_updated":"2026-06-18T17:45:52Z","day":"01","ddc":["000"],"article_processing_charge":"No","_id":"15082","main_file_link":[{"open_access":"1","url":"https://www1.pub.informatik.uni-wuerzburg.de/eurocg2020/data/uploads/papers/eurocg20_paper_56.pdf"}],"publication_status":"published","quality_controlled":"1","language":[{"iso":"eng"}],"citation":{"mla":"Aichholzer, Oswin, et al. “Disjoint Tree-Compatible Plane Perfect Matchings.” 36th European Workshop on Computational Geometry, 56, 2020.","chicago":"Aichholzer, Oswin, Julia Obmann, Pavel Patak, Daniel Perz, and Josef Tkadlec. “Disjoint Tree-Compatible Plane Perfect Matchings.” In 36th European Workshop on Computational Geometry, 2020.","ista":"Aichholzer O, Obmann J, Patak P, Perz D, Tkadlec J. 2020. Disjoint tree-compatible plane perfect matchings. 36th European Workshop on Computational Geometry. EuroCG: European Workshop on Computational Geometry, 56.","apa":"Aichholzer, O., Obmann, J., Patak, P., Perz, D., & Tkadlec, J. (2020). Disjoint tree-compatible plane perfect matchings. In 36th European Workshop on Computational Geometry. Würzburg, Germany, Virtual.","ieee":"O. Aichholzer, J. Obmann, P. Patak, D. Perz, and J. Tkadlec, “Disjoint tree-compatible plane perfect matchings,” in 36th European Workshop on Computational Geometry, Würzburg, Germany, Virtual, 2020.","ama":"Aichholzer O, Obmann J, Patak P, Perz D, Tkadlec J. Disjoint tree-compatible plane perfect matchings. In: 36th European Workshop on Computational Geometry. ; 2020.","short":"O. Aichholzer, J. Obmann, P. Patak, D. Perz, J. Tkadlec, in:, 36th European Workshop on Computational Geometry, 2020."},"date_created":"2024-03-05T08:57:17Z","conference":{"end_date":"2020-03-18","location":"Würzburg, Germany, Virtual","start_date":"2020-03-16","name":"EuroCG: European Workshop on Computational Geometry"},"year":"2020","oa":1,"status":"public","article_number":"56","oa_version":"Published Version","publication":"36th European Workshop on Computational Geometry","type":"conference","corr_author":"1","title":"Disjoint tree-compatible plane perfect matchings"},{"type":"conference","external_id":{"arxiv":["2010.12460"]},"status":"public","oa":1,"conference":{"start_date":"2020-12-06","location":"Vancouver, Canada","name":"NeurIPS: Neural Information Processing Systems","end_date":"2020-12-12"},"year":"2020","date_created":"2024-03-06T08:35:58Z","alternative_title":["NeurIPS"],"language":[{"iso":"eng"}],"volume":33,"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2010.12460","open_access":"1"}],"article_processing_charge":"No","day":"10","date_updated":"2025-04-14T07:49:16Z","author":[{"first_name":"Fartash ","last_name":"Faghri","full_name":"Faghri, Fartash "},{"full_name":"Tabrizian, Iman ","last_name":"Tabrizian","first_name":"Iman "},{"full_name":"Markov, Ilia","last_name":"Markov","first_name":"Ilia","id":"D0CF4148-C985-11E9-8066-0BDEE5697425"},{"id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","last_name":"Alistarh","first_name":"Dan-Adrian","orcid":"0000-0003-3650-940X","full_name":"Alistarh, Dan-Adrian"},{"full_name":"Roy, Daniel ","last_name":"Roy","first_name":"Daniel "},{"full_name":"Ramezani-Kebrya, Ali ","first_name":"Ali ","last_name":"Ramezani-Kebrya"}],"acknowledgement":"The authors would like to thank Blair Bilodeau, David Fleet, Mufan Li, and Jeffrey Negrea for\r\nhelpful discussions. FF was supported by OGS Scholarship. DA and IM were supported the\r\nEuropean Research Council (ERC) under the European Union’s Horizon 2020 research and innovation\r\nprogramme (grant agreement No 805223 ScaleML). DMR was supported by an NSERC Discovery\r\nGrant. ARK was supported by NSERC Postdoctoral Fellowship. Resources used in preparing this research were provided, in part, by the Province of Ontario, the Government of Canada through CIFAR, and companies sponsoring the Vector Institute.","publisher":"Neural Information Processing Systems Foundation","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","arxiv":1,"title":"Adaptive gradient quantization for data-parallel SGD","publication":"Advances in Neural Information Processing Systems","oa_version":"Preprint","publication_identifier":{"isbn":["9781713829546"]},"intvolume":" 33","citation":{"mla":"Faghri, Fartash, et al. “Adaptive Gradient Quantization for Data-Parallel SGD.” Advances in Neural Information Processing Systems, vol. 33, Neural Information Processing Systems Foundation, 2020.","chicago":"Faghri, Fartash , Iman Tabrizian, Ilia Markov, Dan-Adrian Alistarh, Daniel Roy, and Ali Ramezani-Kebrya. “Adaptive Gradient Quantization for Data-Parallel SGD.” In Advances in Neural Information Processing Systems, Vol. 33. Neural Information Processing Systems Foundation, 2020.","ista":"Faghri F, Tabrizian I, Markov I, Alistarh D-A, Roy D, Ramezani-Kebrya A. 2020. Adaptive gradient quantization for data-parallel SGD. Advances in Neural Information Processing Systems. NeurIPS: Neural Information Processing Systems, NeurIPS, vol. 33.","ama":"Faghri F, Tabrizian I, Markov I, Alistarh D-A, Roy D, Ramezani-Kebrya A. Adaptive gradient quantization for data-parallel SGD. In: Advances in Neural Information Processing Systems. Vol 33. Neural Information Processing Systems Foundation; 2020.","ieee":"F. Faghri, I. Tabrizian, I. Markov, D.-A. Alistarh, D. Roy, and A. Ramezani-Kebrya, “Adaptive gradient quantization for data-parallel SGD,” in Advances in Neural Information Processing Systems, Vancouver, Canada, 2020, vol. 33.","apa":"Faghri, F., Tabrizian, I., Markov, I., Alistarh, D.-A., Roy, D., & Ramezani-Kebrya, A. (2020). Adaptive gradient quantization for data-parallel SGD. In Advances in Neural Information Processing Systems (Vol. 33). Vancouver, Canada: Neural Information Processing Systems Foundation.","short":"F. Faghri, I. Tabrizian, I. Markov, D.-A. Alistarh, D. Roy, A. Ramezani-Kebrya, in:, Advances in Neural Information Processing Systems, Neural Information Processing Systems Foundation, 2020."},"quality_controlled":"1","publication_status":"published","_id":"15086","ec_funded":1,"project":[{"name":"Elastic Coordination for Scalable Machine Learning","grant_number":"805223","_id":"268A44D6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"date_published":"2020-12-10T00:00:00Z","month":"12","department":[{"_id":"DaAl"}],"abstract":[{"lang":"eng","text":"Many communication-efficient variants of SGD use gradient quantization schemes. These schemes are often heuristic and fixed over the course of training. We empirically observe that the statistics of gradients of deep models change during the training. Motivated by this observation, we introduce two adaptive quantization schemes, ALQ and AMQ. In both schemes, processors update their compression schemes in parallel by efficiently computing sufficient statistics of a parametric distribution. We improve the validation accuracy by almost 2% on CIFAR-10 and 1% on ImageNet in challenging low-cost communication setups. Our adaptive methods are also significantly more robust to the choice of hyperparameters.\r\n\r\n"}]},{"article_type":"original","_id":"15142","publication_status":"published","month":"11","date_published":"2020-11-23T00:00:00Z","abstract":[{"lang":"eng","text":"Bacteria and archaea employ CRISPR (clustered, regularly, interspaced, short palindromic repeats)-Cas (CRISPR-associated) systems as a type of adaptive immunity to target and degrade foreign nucleic acids. While a myriad of CRISPR-Cas systems have been identified to date, type I-C is one of the most commonly found subtypes in nature. Interestingly, the type I-C system employs a minimal Cascade effector complex, which encodes only three unique subunits in its operon. Here, we present a 3.1 Å resolution cryo-EM structure of the Desulfovibrio vulgaris type I-C Cascade, revealing the molecular mechanisms that underlie RNA-directed complex assembly. We demonstrate how this minimal Cascade utilizes previously overlooked, non-canonical small subunits to stabilize R-loop formation. Furthermore, we describe putative PAM and Cas3 binding sites. These findings provide the structural basis for harnessing the type I-C Cascade as a genome-engineering tool."}],"extern":"1","oa_version":"Published Version","article_number":"5931","pmid":1,"title":"Structural basis for assembly of non-canonical small subunits into type I-C Cascade","publication":"Nature Communications","intvolume":" 11","publication_identifier":{"issn":["2041-1723"]},"quality_controlled":"1","citation":{"ista":"O’Brien RE, Santos IC, Wrapp D, Bravo JPK, Schwartz EA, Brodbelt JS, Taylor DW. 2020. Structural basis for assembly of non-canonical small subunits into type I-C Cascade. Nature Communications. 11, 5931.","chicago":"O’Brien, Roisin E., Inês C. Santos, Daniel Wrapp, Jack Peter Kelly Bravo, Evan A. Schwartz, Jennifer S. Brodbelt, and David W. Taylor. “Structural Basis for Assembly of Non-Canonical Small Subunits into Type I-C Cascade.” Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-19785-8.","mla":"O’Brien, Roisin E., et al. “Structural Basis for Assembly of Non-Canonical Small Subunits into Type I-C Cascade.” Nature Communications, vol. 11, 5931, Springer Nature, 2020, doi:10.1038/s41467-020-19785-8.","short":"R.E. O’Brien, I.C. Santos, D. Wrapp, J.P.K. Bravo, E.A. Schwartz, J.S. Brodbelt, D.W. Taylor, Nature Communications 11 (2020).","ama":"O’Brien RE, Santos IC, Wrapp D, et al. Structural basis for assembly of non-canonical small subunits into type I-C Cascade. Nature Communications. 2020;11. doi:10.1038/s41467-020-19785-8","ieee":"R. E. O’Brien et al., “Structural basis for assembly of non-canonical small subunits into type I-C Cascade,” Nature Communications, vol. 11. Springer Nature, 2020.","apa":"O’Brien, R. E., Santos, I. C., Wrapp, D., Bravo, J. P. K., Schwartz, E. A., Brodbelt, J. S., & Taylor, D. W. (2020). Structural basis for assembly of non-canonical small subunits into type I-C Cascade. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-020-19785-8"},"article_processing_charge":"Yes","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41467-020-19785-8"}],"volume":11,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Springer Nature","day":"23","date_updated":"2024-06-04T05:52:51Z","author":[{"full_name":"O’Brien, Roisin E.","last_name":"O’Brien","first_name":"Roisin E."},{"first_name":"Inês C.","last_name":"Santos","full_name":"Santos, Inês C."},{"last_name":"Wrapp","first_name":"Daniel","full_name":"Wrapp, Daniel"},{"last_name":"Bravo","first_name":"Jack Peter Kelly","orcid":"0000-0003-0456-0753","id":"96aecfa5-8931-11ee-af30-aa6a5d6eee0e","full_name":"Bravo, Jack Peter Kelly"},{"last_name":"Schwartz","first_name":"Evan A.","full_name":"Schwartz, Evan A."},{"first_name":"Jennifer S.","last_name":"Brodbelt","full_name":"Brodbelt, Jennifer S."},{"last_name":"Taylor","first_name":"David W.","full_name":"Taylor, David W."}],"doi":"10.1038/s41467-020-19785-8","scopus_import":"1","year":"2020","oa":1,"external_id":{"pmid":["33230133"]},"status":"public","type":"journal_article","language":[{"iso":"eng"}],"keyword":["General Physics and Astronomy","General Biochemistry","Genetics and Molecular Biology","General Chemistry","Multidisciplinary"],"date_created":"2024-03-20T10:43:07Z"},{"date_published":"2020-04-23T00:00:00Z","month":"04","publisher":"American Association for the Advancement of Science ","abstract":[{"text":"Transcription factors (TFs) regulate gene expression through chromatin where nucleosomes restrict DNA access. To study how TFs bind nucleosome-occupied motifs, we focused on the reprogramming factors OCT4 and SOX2 in mouse embryonic stem cells. We determined TF engagement throughout a nucleosome at base-pair resolution in vitro, enabling structure determination by cryo–electron microscopy at two preferred positions. Depending on motif location, OCT4 and SOX2 differentially distort nucleosomal DNA. At one position, OCT4-SOX2 removes DNA from histone H2A and histone H3; however, at an inverted motif, the TFs only induce local DNA distortions. OCT4 uses one of its two DNA-binding domains to engage DNA in both structures, reading out a partial motif. These findings explain site-specific nucleosome engagement by the pluripotency factors OCT4 and SOX2, and they reveal how TFs distort nucleosomes to access chromatinized motifs.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2024-03-25T12:29:34Z","issue":"6498","day":"23","extern":"1","author":[{"full_name":"Michael, Alicia Kathleen","id":"6437c950-2a03-11ee-914d-d6476dd7b75c","orcid":"0000-0002-6080-839X","first_name":"Alicia Kathleen","last_name":"Michael"},{"last_name":"Grand","first_name":"Ralph S.","full_name":"Grand, Ralph S."},{"last_name":"Isbel","first_name":"Luke","full_name":"Isbel, Luke"},{"full_name":"Cavadini, Simone","first_name":"Simone","last_name":"Cavadini"},{"full_name":"Kozicka, Zuzanna","first_name":"Zuzanna","last_name":"Kozicka"},{"full_name":"Kempf, Georg","first_name":"Georg","last_name":"Kempf"},{"last_name":"Bunker","first_name":"Richard D.","full_name":"Bunker, Richard D."},{"full_name":"Schenk, Andreas D.","first_name":"Andreas D.","last_name":"Schenk"},{"full_name":"Graff-Meyer, Alexandra","first_name":"Alexandra","last_name":"Graff-Meyer"},{"first_name":"Ganesh R.","last_name":"Pathare","full_name":"Pathare, Ganesh R."},{"full_name":"Weiss, Joscha","last_name":"Weiss","first_name":"Joscha"},{"full_name":"Matsumoto, Syota","last_name":"Matsumoto","first_name":"Syota"},{"full_name":"Burger, Lukas","last_name":"Burger","first_name":"Lukas"},{"full_name":"Schübeler, Dirk","first_name":"Dirk","last_name":"Schübeler"},{"first_name":"Nicolas H.","last_name":"Thomä","full_name":"Thomä, Nicolas H."}],"_id":"15152","article_processing_charge":"No","article_type":"original","volume":368,"publication_status":"published","publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"intvolume":" 368","citation":{"ista":"Michael AK, Grand RS, Isbel L, Cavadini S, Kozicka Z, Kempf G, Bunker RD, Schenk AD, Graff-Meyer A, Pathare GR, Weiss J, Matsumoto S, Burger L, Schübeler D, Thomä NH. 2020. Mechanisms of OCT4-SOX2 motif readout on nucleosomes. Science. 368(6498), 1460–1465.","mla":"Michael, Alicia K., et al. “Mechanisms of OCT4-SOX2 Motif Readout on Nucleosomes.” Science, vol. 368, no. 6498, American Association for the Advancement of Science , 2020, pp. 1460–65, doi:10.1126/science.abb0074.","chicago":"Michael, Alicia K., Ralph S. Grand, Luke Isbel, Simone Cavadini, Zuzanna Kozicka, Georg Kempf, Richard D. Bunker, et al. “Mechanisms of OCT4-SOX2 Motif Readout on Nucleosomes.” Science. American Association for the Advancement of Science , 2020. https://doi.org/10.1126/science.abb0074.","short":"A.K. Michael, R.S. Grand, L. Isbel, S. Cavadini, Z. Kozicka, G. Kempf, R.D. Bunker, A.D. Schenk, A. Graff-Meyer, G.R. Pathare, J. Weiss, S. Matsumoto, L. Burger, D. Schübeler, N.H. Thomä, Science 368 (2020) 1460–1465.","ama":"Michael AK, Grand RS, Isbel L, et al. Mechanisms of OCT4-SOX2 motif readout on nucleosomes. Science. 2020;368(6498):1460-1465. doi:10.1126/science.abb0074","apa":"Michael, A. K., Grand, R. S., Isbel, L., Cavadini, S., Kozicka, Z., Kempf, G., … Thomä, N. H. (2020). Mechanisms of OCT4-SOX2 motif readout on nucleosomes. Science. American Association for the Advancement of Science . https://doi.org/10.1126/science.abb0074","ieee":"A. K. Michael et al., “Mechanisms of OCT4-SOX2 motif readout on nucleosomes,” Science, vol. 368, no. 6498. American Association for the Advancement of Science , pp. 1460–1465, 2020."},"language":[{"iso":"eng"}],"quality_controlled":"1","date_created":"2024-03-21T07:54:44Z","scopus_import":"1","oa_version":"None","doi":"10.1126/science.abb0074","status":"public","year":"2020","title":"Mechanisms of OCT4-SOX2 motif readout on nucleosomes","page":"1460-1465","type":"journal_article","publication":"Science"},{"article_processing_charge":"No","main_file_link":[{"url":"https://doi.org/10.7554/eLife.55275","open_access":"1"}],"volume":9,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"eLife Sciences Publications","day":"26","date_updated":"2024-03-25T12:25:02Z","author":[{"last_name":"Fribourgh","first_name":"Jennifer L","full_name":"Fribourgh, Jennifer L"},{"last_name":"Srivastava","first_name":"Ashutosh","full_name":"Srivastava, Ashutosh"},{"full_name":"Sandate, Colby R","last_name":"Sandate","first_name":"Colby R"},{"full_name":"Michael, Alicia Kathleen","id":"6437c950-2a03-11ee-914d-d6476dd7b75c","first_name":"Alicia Kathleen","last_name":"Michael"},{"last_name":"Hsu","first_name":"Peter L","full_name":"Hsu, Peter L"},{"first_name":"Christin","last_name":"Rakers","full_name":"Rakers, Christin"},{"full_name":"Nguyen, Leslee T","last_name":"Nguyen","first_name":"Leslee T"},{"full_name":"Torgrimson, Megan R","last_name":"Torgrimson","first_name":"Megan R"},{"full_name":"Parico, Gian Carlo G","first_name":"Gian Carlo G","last_name":"Parico"},{"full_name":"Tripathi, Sarvind","last_name":"Tripathi","first_name":"Sarvind"},{"full_name":"Zheng, Ning","last_name":"Zheng","first_name":"Ning"},{"last_name":"Lander","first_name":"Gabriel C","full_name":"Lander, Gabriel C"},{"last_name":"Hirota","first_name":"Tsuyoshi","full_name":"Hirota, Tsuyoshi"},{"full_name":"Tama, Florence","first_name":"Florence","last_name":"Tama"},{"full_name":"Partch, Carrie L","first_name":"Carrie L","last_name":"Partch"}],"doi":"10.7554/elife.55275","scopus_import":"1","year":"2020","oa":1,"status":"public","type":"journal_article","language":[{"iso":"eng"}],"keyword":["General Immunology and Microbiology","General Biochemistry","Genetics and Molecular Biology","General Medicine","General Neuroscience"],"date_created":"2024-03-21T07:55:12Z","article_type":"original","_id":"15153","publication_status":"published","month":"02","date_published":"2020-02-26T00:00:00Z","abstract":[{"text":"Mammalian circadian rhythms are generated by a transcription-based feedback loop in which CLOCK:BMAL1 drives transcription of its repressors (PER1/2, CRY1/2), which ultimately interact with CLOCK:BMAL1 to close the feedback loop with ~24 hr periodicity. Here we pinpoint a key difference between CRY1 and CRY2 that underlies their differential strengths as transcriptional repressors. Both cryptochromes bind the BMAL1 transactivation domain similarly to sequester it from coactivators and repress CLOCK:BMAL1 activity. However, we find that CRY1 is recruited with much higher affinity to the PAS domain core of CLOCK:BMAL1, allowing it to serve as a stronger repressor that lengthens circadian period. We discovered a dynamic serine-rich loop adjacent to the secondary pocket in the photolyase homology region (PHR) domain that regulates differential binding of cryptochromes to the PAS domain core of CLOCK:BMAL1. Notably, binding of the co-repressor PER2 remodels the serine loop of CRY2, making it more CRY1-like and enhancing its affinity for CLOCK:BMAL1.","lang":"eng"}],"extern":"1","oa_version":"Published Version","article_number":"55275","title":"Dynamics at the serine loop underlie differential affinity of cryptochromes for CLOCK:BMAL1 to control circadian timing","publication":"eLife","intvolume":" 9","publication_identifier":{"issn":["2050-084X"]},"quality_controlled":"1","citation":{"ista":"Fribourgh JL, Srivastava A, Sandate CR, Michael AK, Hsu PL, Rakers C, Nguyen LT, Torgrimson MR, Parico GCG, Tripathi S, Zheng N, Lander GC, Hirota T, Tama F, Partch CL. 2020. Dynamics at the serine loop underlie differential affinity of cryptochromes for CLOCK:BMAL1 to control circadian timing. eLife. 9, 55275.","chicago":"Fribourgh, Jennifer L, Ashutosh Srivastava, Colby R Sandate, Alicia K. Michael, Peter L Hsu, Christin Rakers, Leslee T Nguyen, et al. “Dynamics at the Serine Loop Underlie Differential Affinity of Cryptochromes for CLOCK:BMAL1 to Control Circadian Timing.” ELife. eLife Sciences Publications, 2020. https://doi.org/10.7554/elife.55275.","mla":"Fribourgh, Jennifer L., et al. “Dynamics at the Serine Loop Underlie Differential Affinity of Cryptochromes for CLOCK:BMAL1 to Control Circadian Timing.” ELife, vol. 9, 55275, eLife Sciences Publications, 2020, doi:10.7554/elife.55275.","short":"J.L. Fribourgh, A. Srivastava, C.R. Sandate, A.K. Michael, P.L. Hsu, C. Rakers, L.T. Nguyen, M.R. Torgrimson, G.C.G. Parico, S. Tripathi, N. Zheng, G.C. Lander, T. Hirota, F. Tama, C.L. Partch, ELife 9 (2020).","apa":"Fribourgh, J. L., Srivastava, A., Sandate, C. R., Michael, A. K., Hsu, P. L., Rakers, C., … Partch, C. L. (2020). Dynamics at the serine loop underlie differential affinity of cryptochromes for CLOCK:BMAL1 to control circadian timing. ELife. eLife Sciences Publications. https://doi.org/10.7554/elife.55275","ieee":"J. L. Fribourgh et al., “Dynamics at the serine loop underlie differential affinity of cryptochromes for CLOCK:BMAL1 to control circadian timing,” eLife, vol. 9. eLife Sciences Publications, 2020.","ama":"Fribourgh JL, Srivastava A, Sandate CR, et al. Dynamics at the serine loop underlie differential affinity of cryptochromes for CLOCK:BMAL1 to control circadian timing. eLife. 2020;9. doi:10.7554/elife.55275"}},{"page":"109-128","type":"journal_article","doi":"10.1093/mnras/staa3428","scopus_import":"1","year":"2020","oa":1,"status":"public","external_id":{"arxiv":["2009.00631"]},"keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"date_created":"2024-03-26T10:33:43Z","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2009.00631"}],"volume":501,"article_processing_charge":"No","day":"05","date_updated":"2024-10-14T12:32:49Z","author":[{"full_name":"Caiazzo, Ilaria","first_name":"Ilaria","orcid":"0000-0002-4770-5388","last_name":"Caiazzo","id":"8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d"},{"full_name":"Heyl, Jeremy","last_name":"Heyl","first_name":"Jeremy"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Oxford University Press","title":"Polarization of accreting X-ray pulsars. I. A new model","arxiv":1,"publication":"Monthly Notices of the Royal Astronomical Society","oa_version":"Preprint","intvolume":" 501","publication_identifier":{"eissn":["1365-2966"],"issn":["0035-8711"]},"quality_controlled":"1","citation":{"chicago":"Caiazzo, Ilaria, and Jeremy Heyl. “Polarization of Accreting X-Ray Pulsars. I. A New Model.” Monthly Notices of the Royal Astronomical Society. Oxford University Press, 2020. https://doi.org/10.1093/mnras/staa3428.","mla":"Caiazzo, Ilaria, and Jeremy Heyl. “Polarization of Accreting X-Ray Pulsars. I. A New Model.” Monthly Notices of the Royal Astronomical Society, vol. 501, no. 1, Oxford University Press, 2020, pp. 109–28, doi:10.1093/mnras/staa3428.","ista":"Caiazzo I, Heyl J. 2020. Polarization of accreting X-ray pulsars. I. A new model. Monthly Notices of the Royal Astronomical Society. 501(1), 109–128.","ieee":"I. Caiazzo and J. Heyl, “Polarization of accreting X-ray pulsars. I. A new model,” Monthly Notices of the Royal Astronomical Society, vol. 501, no. 1. Oxford University Press, pp. 109–128, 2020.","apa":"Caiazzo, I., & Heyl, J. (2020). Polarization of accreting X-ray pulsars. I. A new model. Monthly Notices of the Royal Astronomical Society. Oxford University Press. https://doi.org/10.1093/mnras/staa3428","ama":"Caiazzo I, Heyl J. Polarization of accreting X-ray pulsars. I. A new model. Monthly Notices of the Royal Astronomical Society. 2020;501(1):109-128. doi:10.1093/mnras/staa3428","short":"I. Caiazzo, J. Heyl, Monthly Notices of the Royal Astronomical Society 501 (2020) 109–128."},"publication_status":"published","article_type":"original","_id":"15220","extern":"1","issue":"1","date_published":"2020-11-05T00:00:00Z","month":"11","abstract":[{"lang":"eng","text":"A new window is opening in high-energy astronomy: X-ray polarimetry. With many missions currently under development and scheduled to launch as early as 2021, observations of the X-ray polarization of accreting X-ray pulsars will soon be available. As polarization is particularly sensitive to the geometry of the emission region, the upcoming polarimeters will shed new light on the emission mechanism of these objects, provided that we have sound theoretical models that agree with current spectroscopic and timing observation and that can make predictions of the polarization parameters of the emission. We here present a new model for the polarized emission of accreting X-ray pulsars in the accretion column scenario that for the first time takes into account the macroscopic structure and dynamics of the accretion region and the propagation of the radiation towards the observer, including relativistic beaming, gravitational lensing, and quantum electrodynamics. In this paper, we present all the details of the model, while in a companion paper, we apply our model to predict the polarization parameters of the bright X-ray pulsar Hercules X-1."}]},{"language":[{"iso":"eng"}],"keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"date_created":"2024-03-26T10:34:03Z","doi":"10.1093/mnras/staa3429","scopus_import":"1","year":"2020","oa":1,"status":"public","external_id":{"arxiv":["2009.00634"]},"page":"129-136","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Oxford University Press","day":"05","date_updated":"2024-10-14T12:32:58Z","author":[{"id":"8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d","last_name":"Caiazzo","first_name":"Ilaria","orcid":"0000-0002-4770-5388","full_name":"Caiazzo, Ilaria"},{"first_name":"Jeremy","last_name":"Heyl","full_name":"Heyl, Jeremy"}],"article_processing_charge":"No","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2009.00634"}],"volume":501,"intvolume":" 501","publication_identifier":{"eissn":["1365-2966"],"issn":["0035-8711"]},"quality_controlled":"1","citation":{"chicago":"Caiazzo, Ilaria, and Jeremy Heyl. “Polarization of Accreting X-Ray Pulsars – II. Hercules X-1.” Monthly Notices of the Royal Astronomical Society. Oxford University Press, 2020. https://doi.org/10.1093/mnras/staa3429.","mla":"Caiazzo, Ilaria, and Jeremy Heyl. “Polarization of Accreting X-Ray Pulsars – II. Hercules X-1.” Monthly Notices of the Royal Astronomical Society, vol. 501, no. 1, Oxford University Press, 2020, pp. 129–36, doi:10.1093/mnras/staa3429.","ista":"Caiazzo I, Heyl J. 2020. Polarization of accreting X-ray pulsars – II. Hercules X-1. Monthly Notices of the Royal Astronomical Society. 501(1), 129–136.","ieee":"I. Caiazzo and J. Heyl, “Polarization of accreting X-ray pulsars – II. Hercules X-1,” Monthly Notices of the Royal Astronomical Society, vol. 501, no. 1. Oxford University Press, pp. 129–136, 2020.","apa":"Caiazzo, I., & Heyl, J. (2020). Polarization of accreting X-ray pulsars – II. Hercules X-1. Monthly Notices of the Royal Astronomical Society. Oxford University Press. https://doi.org/10.1093/mnras/staa3429","ama":"Caiazzo I, Heyl J. Polarization of accreting X-ray pulsars – II. Hercules X-1. Monthly Notices of the Royal Astronomical Society. 2020;501(1):129-136. doi:10.1093/mnras/staa3429","short":"I. Caiazzo, J. Heyl, Monthly Notices of the Royal Astronomical Society 501 (2020) 129–136."},"oa_version":"Preprint","title":"Polarization of accreting X-ray pulsars – II. Hercules X-1","arxiv":1,"publication":"Monthly Notices of the Royal Astronomical Society","month":"11","date_published":"2020-11-05T00:00:00Z","abstract":[{"text":"We employ our new model for the polarized emission of accreting X-ray pulsars to describe the emission from the luminous X-ray pulsar Hercules X-1. In contrast with previous works, our model predicts the polarization parameters independently of spectral formation, and considers the structure and dynamics of the accretion column, as well as the additional effects on propagation due to general relativity and quantum electrodynamics. We find that our model can describe the observed pulse fraction and the pulse shape of the main peak, as well as the modulation of the cyclotron line with phase. We pick two geometries, assuming a single accretion column or two columns at the magnetic poles, that can describe current observations of pulse shape and cyclotron modulation with phase. Both models predict a high polarization fraction, between 60 and 80 per cent in the 1–10 keV range, that is phase and energy dependent, and that peaks at the same phase as the intensity. The phase and energy dependence of the polarization fraction and of the polarization angle can help discern between the different geometries.","lang":"eng"}],"issue":"1","extern":"1","article_type":"original","_id":"15221","publication_status":"published"}]