[{"publication_identifier":{"eissn":["10916490"]},"project":[{"name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734"},{"call_identifier":"H2020","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","_id":"260F1432-B435-11E9-9278-68D0E5697425","grant_number":"742573"},{"name":"Modulation of adhesion function in cell-cell contact formation by cortical tension","grant_number":"187-2013","_id":"2521E28E-B435-11E9-9278-68D0E5697425"}],"acknowledgement":"We thank Guillaume Salbreaux, Silvia Grigolon, Edouard Hannezo, and Vanessa Barone for discussions and comments on the manuscript and Shayan Shamipour and Daniel Capek for help with data analysis. We also thank the Imaging & Optics, Electron Microscopy, and Zebrafish Facility Scientific Service Units at the Institute of Science and Technology Austria (ISTA)Nasser Darwish-Miranda  for continuous support. We acknowledge Hitoshi Morita for the gift of VinculinB-GFP plasmid. This research was supported by an ISTA Fellow Marie-Curie Co-funding of regional, national, and international programmes Grant P_IST_EU01 (to J.S.), European Molecular Biology Organization Long-Term Fellowship Grant, ALTF reference number: 187-2013 (to M.S.), Schroedinger Fellowship J4332-B28 (to M.S.), and European Research Council Advanced Grant (MECSPEC; to C.-P.H.).","publication_status":"published","status":"public","ec_funded":1,"author":[{"first_name":"Jana","id":"30F3F2F0-F248-11E8-B48F-1D18A9856A87","last_name":"Slovakova","full_name":"Slovakova, Jana"},{"id":"2F74BCDE-F248-11E8-B48F-1D18A9856A87","first_name":"Mateusz K","full_name":"Sikora, Mateusz K","last_name":"Sikora"},{"last_name":"Arslan","full_name":"Arslan, Feyza N","first_name":"Feyza N","id":"49DA7910-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5809-9566"},{"first_name":"Silvia","id":"2F1E1758-F248-11E8-B48F-1D18A9856A87","last_name":"Caballero Mancebo","full_name":"Caballero Mancebo, Silvia","orcid":"0000-0002-5223-3346"},{"id":"2B819732-F248-11E8-B48F-1D18A9856A87","first_name":"Gabriel","full_name":"Krens, Gabriel","last_name":"Krens","orcid":"0000-0003-4761-5996"},{"last_name":"Kaufmann","full_name":"Kaufmann, Walter","first_name":"Walter","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9735-5315"},{"full_name":"Merrin, Jack","last_name":"Merrin","id":"4515C308-F248-11E8-B48F-1D18A9856A87","first_name":"Jack","orcid":"0000-0001-5145-4609"},{"orcid":"0000-0002-0912-4566","first_name":"Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","full_name":"Heisenberg, Carl-Philipp J"}],"title":"Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion in zebrafish germ-layer progenitor cells","_id":"10766","issue":"8","abstract":[{"lang":"eng","text":"Tension of the actomyosin cell cortex plays a key role in determining cell–cell contact growth and size. The level of cortical tension outside of the cell–cell contact, when pulling at the contact edge, scales with the total size to which a cell–cell contact can grow [J.-L. Maître et al., Science 338, 253–256 (2012)]. Here, we show in zebrafish primary germ-layer progenitor cells that this monotonic relationship only applies to a narrow range of cortical tension increase and that above a critical threshold, contact size inversely scales with cortical tension. This switch from cortical tension increasing to decreasing progenitor cell–cell contact size is caused by cortical tension promoting E-cadherin anchoring to the actomyosin cytoskeleton, thereby increasing clustering and stability of E-cadherin at the contact. After tension-mediated E-cadherin stabilization at the contact exceeds a critical threshold level, the rate by which the contact expands in response to pulling forces from the cortex sharply drops, leading to smaller contacts at physiologically relevant timescales of contact formation. Thus, the activity of cortical tension in expanding cell–cell contact size is limited by tension-stabilizing E-cadherin–actin complexes at the contact."}],"doi":"10.1073/pnas.2122030119","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"file":[{"file_name":"2022_PNAS_Slovakova.pdf","relation":"main_file","creator":"dernst","file_size":1609678,"success":1,"date_updated":"2022-02-21T08:45:11Z","access_level":"open_access","content_type":"application/pdf","checksum":"d49f83c3580613966f71768ddb9a55a5","file_id":"10780","date_created":"2022-02-21T08:45:11Z"}],"has_accepted_license":"1","article_processing_charge":"No","volume":119,"day":"14","citation":{"ista":"Slovakova J, Sikora MK, Arslan FN, Caballero Mancebo S, Krens G, Kaufmann W, Merrin J, Heisenberg C-PJ. 2022. Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion in zebrafish germ-layer progenitor cells. Proceedings of the National Academy of Sciences of the United States of America. 119(8), e2122030119.","ama":"Slovakova J, Sikora MK, Arslan FN, et al. Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion in zebrafish germ-layer progenitor cells. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2022;119(8). doi:<a href=\"https://doi.org/10.1073/pnas.2122030119\">10.1073/pnas.2122030119</a>","short":"J. Slovakova, M.K. Sikora, F.N. Arslan, S. Caballero Mancebo, G. Krens, W. Kaufmann, J. Merrin, C.-P.J. Heisenberg, Proceedings of the National Academy of Sciences of the United States of America 119 (2022).","ieee":"J. Slovakova <i>et al.</i>, “Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion in zebrafish germ-layer progenitor cells,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 119, no. 8. Proceedings of the National Academy of Sciences, 2022.","apa":"Slovakova, J., Sikora, M. K., Arslan, F. N., Caballero Mancebo, S., Krens, G., Kaufmann, W., … Heisenberg, C.-P. J. (2022). Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion in zebrafish germ-layer progenitor cells. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2122030119\">https://doi.org/10.1073/pnas.2122030119</a>","mla":"Slovakova, Jana, et al. “Tension-Dependent Stabilization of E-Cadherin Limits Cell-Cell Contact Expansion in Zebrafish Germ-Layer Progenitor Cells.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 119, no. 8, e2122030119, Proceedings of the National Academy of Sciences, 2022, doi:<a href=\"https://doi.org/10.1073/pnas.2122030119\">10.1073/pnas.2122030119</a>.","chicago":"Slovakova, Jana, Mateusz K Sikora, Feyza N Arslan, Silvia Caballero Mancebo, Gabriel Krens, Walter Kaufmann, Jack Merrin, and Carl-Philipp J Heisenberg. “Tension-Dependent Stabilization of E-Cadherin Limits Cell-Cell Contact Expansion in Zebrafish Germ-Layer Progenitor Cells.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. Proceedings of the National Academy of Sciences, 2022. <a href=\"https://doi.org/10.1073/pnas.2122030119\">https://doi.org/10.1073/pnas.2122030119</a>."},"ddc":["570"],"file_date_updated":"2022-02-21T08:45:11Z","month":"02","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","oa_version":"Published Version","publication":"Proceedings of the National Academy of Sciences of the United States of America","date_updated":"2023-08-02T14:26:51Z","related_material":{"record":[{"relation":"earlier_version","status":"public","id":"9750"}]},"article_type":"original","article_number":"e2122030119","oa":1,"year":"2022","intvolume":"       119","publisher":"Proceedings of the National Academy of Sciences","isi":1,"quality_controlled":"1","type":"journal_article","language":[{"iso":"eng"}],"department":[{"_id":"CaHe"},{"_id":"EM-Fac"},{"_id":"Bio"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_published":"2022-02-14T00:00:00Z","external_id":{"isi":["000766926900009"]},"acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"},{"_id":"PreCl"}],"scopus_import":"1","date_created":"2022-02-20T23:01:31Z"},{"date_published":"2022-02-09T00:00:00Z","external_id":{"pmid":["35135349"],"isi":["000752812800012"]},"scopus_import":"1","date_created":"2022-02-20T23:01:31Z","department":[{"_id":"BeVi"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","intvolume":"       289","publisher":"The Royal Society","year":"2022","oa":1,"article_type":"original","page":"20211985","publication":"Proceedings of the Royal Society B: Biological Sciences","date_updated":"2023-08-02T14:26:07Z","oa_version":"Published Version","day":"09","citation":{"ama":"Kelemen RK, Elkrewi MN, Lindholm AK, Vicoso B. Novel patterns of expression and recruitment of new genes on the t-haplotype, a mouse selfish chromosome. <i>Proceedings of the Royal Society B: Biological Sciences</i>. 2022;289(1968):20211985. doi:<a href=\"https://doi.org/10.1098/rspb.2021.1985\">10.1098/rspb.2021.1985</a>","ista":"Kelemen RK, Elkrewi MN, Lindholm AK, Vicoso B. 2022. Novel patterns of expression and recruitment of new genes on the t-haplotype, a mouse selfish chromosome. Proceedings of the Royal Society B: Biological Sciences. 289(1968), 20211985.","short":"R.K. Kelemen, M.N. Elkrewi, A.K. Lindholm, B. Vicoso, Proceedings of the Royal Society B: Biological Sciences 289 (2022) 20211985.","apa":"Kelemen, R. K., Elkrewi, M. N., Lindholm, A. K., &#38; Vicoso, B. (2022). Novel patterns of expression and recruitment of new genes on the t-haplotype, a mouse selfish chromosome. <i>Proceedings of the Royal Society B: Biological Sciences</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rspb.2021.1985\">https://doi.org/10.1098/rspb.2021.1985</a>","ieee":"R. K. Kelemen, M. N. Elkrewi, A. K. Lindholm, and B. Vicoso, “Novel patterns of expression and recruitment of new genes on the t-haplotype, a mouse selfish chromosome,” <i>Proceedings of the Royal Society B: Biological Sciences</i>, vol. 289, no. 1968. The Royal Society, p. 20211985, 2022.","mla":"Kelemen, Réka K., et al. “Novel Patterns of Expression and Recruitment of New Genes on the T-Haplotype, a Mouse Selfish Chromosome.” <i>Proceedings of the Royal Society B: Biological Sciences</i>, vol. 289, no. 1968, The Royal Society, 2022, p. 20211985, doi:<a href=\"https://doi.org/10.1098/rspb.2021.1985\">10.1098/rspb.2021.1985</a>.","chicago":"Kelemen, Réka K, Marwan N Elkrewi, Anna K. Lindholm, and Beatriz Vicoso. “Novel Patterns of Expression and Recruitment of New Genes on the T-Haplotype, a Mouse Selfish Chromosome.” <i>Proceedings of the Royal Society B: Biological Sciences</i>. The Royal Society, 2022. <a href=\"https://doi.org/10.1098/rspb.2021.1985\">https://doi.org/10.1098/rspb.2021.1985</a>."},"month":"02","pmid":1,"ddc":["570"],"file_date_updated":"2022-02-21T08:17:38Z","has_accepted_license":"1","article_processing_charge":"No","volume":289,"file":[{"file_size":2366976,"relation":"main_file","creator":"dernst","file_name":"2022_ProceedingsRoyalSocB_Kelemen.pdf","date_updated":"2022-02-21T08:17:38Z","success":1,"content_type":"application/pdf","checksum":"27042a3706ae52a919fed1ac114bf7bb","access_level":"open_access","date_created":"2022-02-21T08:17:38Z","file_id":"10779"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"issue":"1968","abstract":[{"lang":"eng","text":"The t-haplotype of mice is a classical model for autosomal transmission distortion. A largely non-recombining variant of the proximal region of chromosome 17, it is transmitted to more than 90% of the progeny of heterozygous males through the disabling of sperm carrying a standard chromosome. While extensive genetic and functional work has shed light on individual genes involved in drive, much less is known about the evolution and function of the rest of its hundreds of genes. Here, we characterize the sequence and expression of dozens of t-specific transcripts and of their chromosome 17 homologues. Many genes showed reduced expression of the t-allele, but an equal number of genes showed increased expression of their t-copy, consistent with increased activity or a newly evolved function. Genes on the t-haplotype had a significantly higher non-synonymous substitution rate than their homologues on the standard chromosome, with several genes harbouring dN/dS ratios above 1. Finally, the t-haplotype has acquired at least two genes from other chromosomes, which show high and tissue-specific expression. These results provide a first overview of the gene content of this selfish element, and support a more dynamic evolutionary scenario than expected of a large genomic region with almost no recombination."}],"doi":"10.1098/rspb.2021.1985","author":[{"id":"48D3F8DE-F248-11E8-B48F-1D18A9856A87","first_name":"Réka K","full_name":"Kelemen, Réka K","last_name":"Kelemen"},{"first_name":"Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","last_name":"Elkrewi","full_name":"Elkrewi, Marwan N","orcid":"0000-0002-5328-7231"},{"first_name":"Anna K.","full_name":"Lindholm, Anna K.","last_name":"Lindholm"},{"id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","full_name":"Vicoso, Beatriz","last_name":"Vicoso","orcid":"0000-0002-4579-8306"}],"title":"Novel patterns of expression and recruitment of new genes on the t-haplotype, a mouse selfish chromosome","_id":"10767","publication_status":"published","acknowledgement":"This project has received funding from the European Research Council under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 715257) and from the Swiss National Science Foundation (grant no. 310030_189145).\r\nWe thank Jari Garbely of the Department of Evolutionary Biology and Environmental Studies, University of Zurich, Zurich, Switzerland, for conducting the PCR verification. Barbara\r\nKonig, Gabi Stichel and A.K.L. collected mouse tissue samples, from the field study led by R.K.K. ","status":"public","ec_funded":1,"publication_identifier":{"eissn":["14712954"]},"project":[{"_id":"250BDE62-B435-11E9-9278-68D0E5697425","grant_number":"715257","name":"Prevalence and Influence of Sexual Antagonism on Genome Evolution","call_identifier":"H2020"}]},{"year":"2022","oa":1,"article_type":"original","article_number":"102174","date_updated":"2023-08-02T14:29:12Z","publication":"Current Opinion in Plant Biology","scopus_import":"1","date_created":"2022-02-20T23:01:32Z","external_id":{"isi":["000758724700004"],"pmid":["35123880"]},"date_published":"2022-02-01T00:00:00Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"JiFr"}],"quality_controlled":"1","language":[{"iso":"eng"}],"type":"journal_article","isi":1,"intvolume":"        65","publisher":"Elsevier","doi":"10.1016/j.pbi.2022.102174","issue":"2","abstract":[{"text":"Among the most fascinated properties of the plant hormone auxin is its ability to promote formation of its own directional transport routes. These gradually narrowing auxin channels form from the auxin source toward the sink and involve coordinated, collective polarization of individual cells. Once established, the channels provide positional information, along which new vascular strands form, for example, during organogenesis, regeneration, or leave venation. The main prerequisite of this still mysterious auxin canalization mechanism is a feedback between auxin signaling and its directional transport. This is manifested by auxin-induced re-arrangements of polar, subcellular localization of PIN-FORMED (PIN) auxin exporters. Immanent open questions relate to how position of auxin source and sink as well as tissue context are sensed and translated into tissue polarization and how cells communicate to polarize coordinately. Recently, identification of the first molecular players opens new avenues into molecular studies of this intriguing example of self-organizing plant development.","lang":"eng"}],"_id":"10768","author":[{"orcid":"0000-0003-2140-7195","full_name":"Hajny, Jakub","last_name":"Hajny","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","first_name":"Jakub"},{"orcid":"0000-0002-0471-8285","last_name":"Tan","full_name":"Tan, Shutang","first_name":"Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří","last_name":"Friml"}],"title":"Auxin canalization: From speculative models toward molecular players","status":"public","publication_status":"published","acknowledgement":"The authors apologize to those researchers whose work was not cited. In addition, exciting topics such as PIN polarization in context of phyllotaxis, shoot branching and termination of gravitropic bending, or role of additional auxin transporters could not have been included owing to lack of space. This work was supported by the Czech Science Foundation GAČR (GA18-26981S). The authors also acknowledge the EMBO for supporting J.H. with a long-term fellowship (ALTF217-2021).","publication_identifier":{"issn":["1369-5266"]},"oa_version":"Published Version","file_date_updated":"2022-03-10T13:34:09Z","ddc":["580"],"month":"02","pmid":1,"day":"01","citation":{"short":"J. Hajny, S. Tan, J. Friml, Current Opinion in Plant Biology 65 (2022).","ista":"Hajny J, Tan S, Friml J. 2022. Auxin canalization: From speculative models toward molecular players. Current Opinion in Plant Biology. 65(2), 102174.","ama":"Hajny J, Tan S, Friml J. Auxin canalization: From speculative models toward molecular players. <i>Current Opinion in Plant Biology</i>. 2022;65(2). doi:<a href=\"https://doi.org/10.1016/j.pbi.2022.102174\">10.1016/j.pbi.2022.102174</a>","apa":"Hajny, J., Tan, S., &#38; Friml, J. (2022). Auxin canalization: From speculative models toward molecular players. <i>Current Opinion in Plant Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.pbi.2022.102174\">https://doi.org/10.1016/j.pbi.2022.102174</a>","ieee":"J. Hajny, S. Tan, and J. Friml, “Auxin canalization: From speculative models toward molecular players,” <i>Current Opinion in Plant Biology</i>, vol. 65, no. 2. Elsevier, 2022.","mla":"Hajny, Jakub, et al. “Auxin Canalization: From Speculative Models toward Molecular Players.” <i>Current Opinion in Plant Biology</i>, vol. 65, no. 2, 102174, Elsevier, 2022, doi:<a href=\"https://doi.org/10.1016/j.pbi.2022.102174\">10.1016/j.pbi.2022.102174</a>.","chicago":"Hajny, Jakub, Shutang Tan, and Jiří Friml. “Auxin Canalization: From Speculative Models toward Molecular Players.” <i>Current Opinion in Plant Biology</i>. Elsevier, 2022. <a href=\"https://doi.org/10.1016/j.pbi.2022.102174\">https://doi.org/10.1016/j.pbi.2022.102174</a>."},"volume":65,"article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"file_id":"10844","date_created":"2022-03-10T13:34:09Z","access_level":"open_access","checksum":"f1ee02b6fb4200934eeb31fa69120885","content_type":"application/pdf","success":1,"date_updated":"2022-03-10T13:34:09Z","file_name":"2022_CurrentOpPlantBiology_Hajny.pdf","relation":"main_file","file_size":820322,"creator":"dernst"}]},{"citation":{"apa":"Daguerre, L., Torroba, G., Medina Ramos, R. A., &#38; Solís, M. (2022). Non relativistic quantum field theory: Dynamics and irreversibility. <i>Anales de la Asociacion Fisica Argentina</i>. Asociación Física Argentina. <a href=\"https://doi.org/10.31527/analesafa.2021.32.4.93\">https://doi.org/10.31527/analesafa.2021.32.4.93</a>","ieee":"L. Daguerre, G. Torroba, R. A. Medina Ramos, and M. Solís, “Non relativistic quantum field theory: Dynamics and irreversibility,” <i>Anales de la Asociacion Fisica Argentina</i>, vol. 32, no. 4. Asociación Física Argentina, pp. 93–98, 2022.","ista":"Daguerre L, Torroba G, Medina Ramos RA, Solís M. 2022. Non relativistic quantum field theory: Dynamics and irreversibility. Anales de la Asociacion Fisica Argentina. 32(4), 93–98.","short":"L. Daguerre, G. Torroba, R.A. Medina Ramos, M. Solís, Anales de la Asociacion Fisica Argentina 32 (2022) 93–98.","ama":"Daguerre L, Torroba G, Medina Ramos RA, Solís M. Non relativistic quantum field theory: Dynamics and irreversibility. <i>Anales de la Asociacion Fisica Argentina</i>. 2022;32(4):93-98. doi:<a href=\"https://doi.org/10.31527/analesafa.2021.32.4.93\">10.31527/analesafa.2021.32.4.93</a>","chicago":"Daguerre, L., G. Torroba, Raimel A Medina Ramos, and M. Solís. “Non relativistic quantum field theory: Dynamics and irreversibility.” <i>Anales de la Asociacion Fisica Argentina</i>. Asociación Física Argentina, 2022. <a href=\"https://doi.org/10.31527/analesafa.2021.32.4.93\">https://doi.org/10.31527/analesafa.2021.32.4.93</a>.","mla":"Daguerre, L., et al. “Non relativistic quantum field theory: Dynamics and irreversibility.” <i>Anales de la Asociacion Fisica Argentina</i>, vol. 32, no. 4, Asociación Física Argentina, 2022, pp. 93–98, doi:<a href=\"https://doi.org/10.31527/analesafa.2021.32.4.93\">10.31527/analesafa.2021.32.4.93</a>."},"day":"13","month":"01","file_date_updated":"2022-02-21T09:32:44Z","ddc":["530"],"oa_version":"Published Version","file":[{"file_name":"2022_AnalesAFA_Daguerre.pdf","relation":"main_file","creator":"dernst","file_size":4505751,"access_level":"open_access","content_type":"application/pdf","checksum":"ca66a3017205677c5b4d22b3bb74fb0b","success":1,"date_updated":"2022-02-21T09:32:44Z","file_id":"10782","date_created":"2022-02-21T09:32:44Z"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","article_processing_charge":"No","volume":32,"title":"Non relativistic quantum field theory: Dynamics and irreversibility","author":[{"first_name":"L.","last_name":"Daguerre","full_name":"Daguerre, L."},{"full_name":"Torroba, G.","last_name":"Torroba","first_name":"G."},{"full_name":"Medina Ramos, Raimel A","last_name":"Medina Ramos","id":"CE680B90-D85A-11E9-B684-C920E6697425","first_name":"Raimel A"},{"first_name":"M.","last_name":"Solís","full_name":"Solís, M."}],"_id":"10769","abstract":[{"text":"studiamos aspectos de Teoría Cuántica de Campos a densidad finita usando técnicas y conceptos de información cuántica. Nos enfocamos en fermiones de Dirac masivos con potencial químico en 1+1 dimensiones espacio-temporales. Usando la entropía de entrelazamiento en un intervalo, construimos la función c entrópica que es finita. Esta función c no es monótona, e incorpora el entrelazamiento de largo alcance proveniente de la superficie de Fermi. Motivados por trabajos previos de modelos en la red, calculamos numéricamente las entropías de Renyi y encontramos oscilaciones de Friedel. Seguidamente, analizamos la información mutua como una medida de correlación entre diferentes regiones. Usando una expansión de distancia grande desarrollada por Cardy, argumentamos que la información mutua detecta las correlaciones inducidas por la superficie de Fermi todavía al orden dominante en la expansión. Finalmente, analizamos la entropía relativa y sus generalizaciones de Renyi para distinguir estados con diferente carga. Encontramos que estados en diferentes sectores de superselección dan origen a un comportamiento super-extensivo en la entropía relativa.","lang":"eng"}],"issue":"4","doi":"10.31527/analesafa.2021.32.4.93","publication_identifier":{"eissn":["18501168"]},"status":"public","acknowledgement":"Se agradece a Horacio Casini por distintas discusiones y comentarios a lo largo del trabajo. LD cuenta con el apoyo de CNEA y UNCuyo, Inst. GT cuenta con el apoyo de CONICET,\r\nANPCyT, CNEA, y UNCuyo, Inst. Balseiro. RM cuenta con el apoyo de IST Austria. MS cuenta con el apoyode CONICET y UNCuyo, Inst. Balseiro. También se agradece a la Asociación Argentina de Física por la posibilidad de presentar este artículo en el marco de una Mención Especial por el Premio Luis Másperi 2020.","publication_status":"published","department":[{"_id":"MaSe"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2022-01-13T00:00:00Z","date_created":"2022-02-20T23:01:32Z","scopus_import":"1","publisher":"Asociación Física Argentina","intvolume":"        32","quality_controlled":"1","type":"journal_article","language":[{"iso":"spa"}],"oa":1,"year":"2022","publication":"Anales de la Asociacion Fisica Argentina","date_updated":"2022-02-21T09:36:01Z","page":"93-98","article_type":"original"},{"volume":34,"article_processing_charge":"No","arxiv":1,"oa_version":"Preprint","month":"04","citation":{"mla":"Evers, Ferdinand, et al. “Theory of Chirality Induced Spin Selectivity: Progress and Challenges.” <i>Advanced Materials</i>, vol. 34, no. 13, 2106629, Wiley, 2022, doi:<a href=\"https://doi.org/10.1002/adma.202106629\">10.1002/adma.202106629</a>.","chicago":"Evers, Ferdinand, Amnon Aharony, Nir Bar-Gill, Ora Entin-Wohlman, Per Hedegård, Oded Hod, Pavel Jelinek, et al. “Theory of Chirality Induced Spin Selectivity: Progress and Challenges.” <i>Advanced Materials</i>. Wiley, 2022. <a href=\"https://doi.org/10.1002/adma.202106629\">https://doi.org/10.1002/adma.202106629</a>.","ama":"Evers F, Aharony A, Bar-Gill N, et al. Theory of chirality induced spin selectivity: Progress and challenges. <i>Advanced Materials</i>. 2022;34(13). doi:<a href=\"https://doi.org/10.1002/adma.202106629\">10.1002/adma.202106629</a>","ista":"Evers F, Aharony A, Bar-Gill N, Entin-Wohlman O, Hedegård P, Hod O, Jelinek P, Kamieniarz G, Lemeshko M, Michaeli K, Mujica V, Naaman R, Paltiel Y, Refaely-Abramson S, Tal O, Thijssen J, Thoss M, Van Ruitenbeek JM, Venkataraman L, Waldeck DH, Yan B, Kronik L. 2022. Theory of chirality induced spin selectivity: Progress and challenges. Advanced Materials. 34(13), 2106629.","short":"F. Evers, A. Aharony, N. Bar-Gill, O. Entin-Wohlman, P. Hedegård, O. Hod, P. Jelinek, G. Kamieniarz, M. Lemeshko, K. Michaeli, V. Mujica, R. Naaman, Y. Paltiel, S. Refaely-Abramson, O. Tal, J. Thijssen, M. Thoss, J.M. Van Ruitenbeek, L. Venkataraman, D.H. Waldeck, B. Yan, L. Kronik, Advanced Materials 34 (2022).","apa":"Evers, F., Aharony, A., Bar-Gill, N., Entin-Wohlman, O., Hedegård, P., Hod, O., … Kronik, L. (2022). Theory of chirality induced spin selectivity: Progress and challenges. <i>Advanced Materials</i>. Wiley. <a href=\"https://doi.org/10.1002/adma.202106629\">https://doi.org/10.1002/adma.202106629</a>","ieee":"F. Evers <i>et al.</i>, “Theory of chirality induced spin selectivity: Progress and challenges,” <i>Advanced Materials</i>, vol. 34, no. 13. Wiley, 2022."},"day":"01","status":"public","publication_status":"published","publication_identifier":{"eissn":["15214095"],"issn":["09359648"]},"doi":"10.1002/adma.202106629","abstract":[{"lang":"eng","text":"A critical overview of the theory of the chirality-induced spin selectivity (CISS) effect, that is, phenomena in which the chirality of molecular species imparts significant spin selectivity to various electron processes, is provided. Based on discussions in a recently held workshop, and further work published since, the status of CISS effects—in electron transmission, electron transport, and chemical reactions—is reviewed. For each, a detailed discussion of the state-of-the-art in theoretical understanding is provided and remaining challenges and research opportunities are identified."}],"issue":"13","_id":"10771","title":"Theory of chirality induced spin selectivity: Progress and challenges","author":[{"last_name":"Evers","full_name":"Evers, Ferdinand","first_name":"Ferdinand"},{"last_name":"Aharony","full_name":"Aharony, Amnon","first_name":"Amnon"},{"last_name":"Bar-Gill","full_name":"Bar-Gill, Nir","first_name":"Nir"},{"first_name":"Ora","last_name":"Entin-Wohlman","full_name":"Entin-Wohlman, Ora"},{"last_name":"Hedegård","full_name":"Hedegård, Per","first_name":"Per"},{"full_name":"Hod, Oded","last_name":"Hod","first_name":"Oded"},{"first_name":"Pavel","full_name":"Jelinek, Pavel","last_name":"Jelinek"},{"last_name":"Kamieniarz","full_name":"Kamieniarz, Grzegorz","first_name":"Grzegorz"},{"id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","first_name":"Mikhail","full_name":"Lemeshko, Mikhail","last_name":"Lemeshko","orcid":"0000-0002-6990-7802"},{"first_name":"Karen","full_name":"Michaeli, Karen","last_name":"Michaeli"},{"first_name":"Vladimiro","full_name":"Mujica, Vladimiro","last_name":"Mujica"},{"first_name":"Ron","full_name":"Naaman, Ron","last_name":"Naaman"},{"full_name":"Paltiel, Yossi","last_name":"Paltiel","first_name":"Yossi"},{"last_name":"Refaely-Abramson","full_name":"Refaely-Abramson, Sivan","first_name":"Sivan"},{"full_name":"Tal, Oren","last_name":"Tal","first_name":"Oren"},{"full_name":"Thijssen, Jos","last_name":"Thijssen","first_name":"Jos"},{"first_name":"Michael","full_name":"Thoss, Michael","last_name":"Thoss"},{"full_name":"Van Ruitenbeek, Jan M.","last_name":"Van Ruitenbeek","first_name":"Jan M."},{"last_name":"Venkataraman","full_name":"Venkataraman, Latha","first_name":"Latha"},{"first_name":"David H.","last_name":"Waldeck","full_name":"Waldeck, David H."},{"first_name":"Binghai","full_name":"Yan, Binghai","last_name":"Yan"},{"full_name":"Kronik, Leeor","last_name":"Kronik","first_name":"Leeor"}],"language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","isi":1,"publisher":"Wiley","intvolume":"        34","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2108.09998"}],"date_created":"2022-02-20T23:01:33Z","scopus_import":"1","date_published":"2022-04-01T00:00:00Z","external_id":{"arxiv":["2108.09998"],"isi":["000753795900001"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"MiLe"}],"article_number":"2106629","article_type":"review","date_updated":"2023-08-02T14:30:22Z","publication":"Advanced Materials","year":"2022","oa":1},{"article_type":"original","page":"343-411","date_updated":"2023-08-02T14:29:50Z","publication":"Journal of the London Mathematical Society","year":"2022","oa":1,"type":"journal_article","language":[{"iso":"eng"}],"quality_controlled":"1","isi":1,"intvolume":"       105","publisher":"London Mathematical Society","scopus_import":"1","date_created":"2022-02-20T23:01:33Z","external_id":{"isi":["000751600600001"],"arxiv":["1712.10260"]},"date_published":"2022-02-05T00:00:00Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"TaHa"}],"status":"public","acknowledgement":"This paper is based on my PhD thesis, which would not be possible without the support of my advisor Bernd Siebert. I also thank Dan Abramovich, Mohammed Abouzaid, Mark Gross, Tom Coates and Dimitri Zvonkine for many useful conversations. Finally, I thank the anonymous referees for their many insightful comments and valuable suggestions which have resulted in major improvements to this article. This project has received funding from the EuropeanResearch Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement Number: 682603), and from Fondation Mathématique Jacques Hadamard. ","publication_status":"published","publication_identifier":{"issn":["0024-6107"],"eissn":["1469-7750"]},"doi":"10.1112/jlms.12515","issue":"1","abstract":[{"text":"We introduce tropical corals, balanced trees in a half-space, and show that they correspond to holomorphic polygons capturing the product rule in Lagrangian Floer theory for the elliptic curve. We then prove a correspondence theorem equating counts of tropical corals to punctured log Gromov–Witten invariants of the Tate curve. This implies that the homogeneous coordinate ring of the mirror to the Tate curve is isomorphic to the degree-zero part of symplectic cohomology, confirming a prediction of homological mirror symmetry.","lang":"eng"}],"_id":"10772","author":[{"full_name":"Arguez, Nuroemuer Huelya","last_name":"Arguez","id":"3c26b22e-c843-11eb-aa56-d38ffa0bdd08","first_name":"Nuroemuer Huelya"}],"title":"Mirror symmetry for the Tate curve via tropical and log corals","article_processing_charge":"Yes (via OA deal)","volume":105,"has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"arxiv":1,"file":[{"file_size":936873,"creator":"dernst","relation":"main_file","file_name":"2022_JournLondonMathSociety_Arguez.pdf","content_type":"application/pdf","checksum":"8bd0fd9694be894a191857ddf27678f0","access_level":"open_access","date_updated":"2022-02-21T11:22:58Z","success":1,"date_created":"2022-02-21T11:22:58Z","file_id":"10783"}],"oa_version":"Published Version","month":"02","ddc":["510"],"file_date_updated":"2022-02-21T11:22:58Z","day":"05","citation":{"chicago":"Arguez, Nuroemuer Huelya. “Mirror Symmetry for the Tate Curve via Tropical and Log Corals.” <i>Journal of the London Mathematical Society</i>. London Mathematical Society, 2022. <a href=\"https://doi.org/10.1112/jlms.12515\">https://doi.org/10.1112/jlms.12515</a>.","mla":"Arguez, Nuroemuer Huelya. “Mirror Symmetry for the Tate Curve via Tropical and Log Corals.” <i>Journal of the London Mathematical Society</i>, vol. 105, no. 1, London Mathematical Society, 2022, pp. 343–411, doi:<a href=\"https://doi.org/10.1112/jlms.12515\">10.1112/jlms.12515</a>.","short":"N.H. Arguez, Journal of the London Mathematical Society 105 (2022) 343–411.","ista":"Arguez NH. 2022. Mirror symmetry for the Tate curve via tropical and log corals. Journal of the London Mathematical Society. 105(1), 343–411.","ama":"Arguez NH. Mirror symmetry for the Tate curve via tropical and log corals. <i>Journal of the London Mathematical Society</i>. 2022;105(1):343-411. doi:<a href=\"https://doi.org/10.1112/jlms.12515\">10.1112/jlms.12515</a>","ieee":"N. H. Arguez, “Mirror symmetry for the Tate curve via tropical and log corals,” <i>Journal of the London Mathematical Society</i>, vol. 105, no. 1. London Mathematical Society, pp. 343–411, 2022.","apa":"Arguez, N. H. (2022). Mirror symmetry for the Tate curve via tropical and log corals. <i>Journal of the London Mathematical Society</i>. London Mathematical Society. <a href=\"https://doi.org/10.1112/jlms.12515\">https://doi.org/10.1112/jlms.12515</a>"}},{"file":[{"relation":"main_file","creator":"dernst","file_size":2518111,"file_name":"2022_DiscreteCompGeometry_Biswas.pdf","date_updated":"2022-08-02T06:07:55Z","success":1,"content_type":"application/pdf","checksum":"9383d3b70561bacee905e335dc922680","access_level":"open_access","date_created":"2022-08-02T06:07:55Z","file_id":"11718"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","volume":67,"article_processing_charge":"Yes (via OA deal)","citation":{"ista":"Biswas R, Cultrera di Montesano S, Edelsbrunner H, Saghafian M. 2022. Continuous and discrete radius functions on Voronoi tessellations and Delaunay mosaics. Discrete and Computational Geometry. 67, 811–842.","ama":"Biswas R, Cultrera di Montesano S, Edelsbrunner H, Saghafian M. Continuous and discrete radius functions on Voronoi tessellations and Delaunay mosaics. <i>Discrete and Computational Geometry</i>. 2022;67:811-842. doi:<a href=\"https://doi.org/10.1007/s00454-022-00371-2\">10.1007/s00454-022-00371-2</a>","short":"R. Biswas, S. Cultrera di Montesano, H. Edelsbrunner, M. Saghafian, Discrete and Computational Geometry 67 (2022) 811–842.","apa":"Biswas, R., Cultrera di Montesano, S., Edelsbrunner, H., &#38; Saghafian, M. (2022). Continuous and discrete radius functions on Voronoi tessellations and Delaunay mosaics. <i>Discrete and Computational Geometry</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00454-022-00371-2\">https://doi.org/10.1007/s00454-022-00371-2</a>","ieee":"R. Biswas, S. Cultrera di Montesano, H. Edelsbrunner, and M. Saghafian, “Continuous and discrete radius functions on Voronoi tessellations and Delaunay mosaics,” <i>Discrete and Computational Geometry</i>, vol. 67. Springer Nature, pp. 811–842, 2022.","chicago":"Biswas, Ranita, Sebastiano Cultrera di Montesano, Herbert Edelsbrunner, and Morteza Saghafian. “Continuous and Discrete Radius Functions on Voronoi Tessellations and Delaunay Mosaics.” <i>Discrete and Computational Geometry</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s00454-022-00371-2\">https://doi.org/10.1007/s00454-022-00371-2</a>.","mla":"Biswas, Ranita, et al. “Continuous and Discrete Radius Functions on Voronoi Tessellations and Delaunay Mosaics.” <i>Discrete and Computational Geometry</i>, vol. 67, Springer Nature, 2022, pp. 811–42, doi:<a href=\"https://doi.org/10.1007/s00454-022-00371-2\">10.1007/s00454-022-00371-2</a>."},"day":"01","ddc":["510"],"month":"04","file_date_updated":"2022-08-02T06:07:55Z","oa_version":"Published Version","publication_identifier":{"eissn":["1432-0444"],"issn":["0179-5376"]},"acknowledgement":"Open access funding provided by the Institute of Science and Technology (IST Austria).","publication_status":"published","status":"public","title":"Continuous and discrete radius functions on Voronoi tessellations and Delaunay mosaics","author":[{"first_name":"Ranita","id":"3C2B033E-F248-11E8-B48F-1D18A9856A87","last_name":"Biswas","full_name":"Biswas, Ranita","orcid":"0000-0002-5372-7890"},{"last_name":"Cultrera Di Montesano","full_name":"Cultrera Di Montesano, Sebastiano","first_name":"Sebastiano","id":"34D2A09C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6249-0832"},{"first_name":"Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","last_name":"Edelsbrunner","full_name":"Edelsbrunner, Herbert","orcid":"0000-0002-9823-6833"},{"last_name":"Saghafian","full_name":"Saghafian, Morteza","first_name":"Morteza"}],"_id":"10773","abstract":[{"text":"The Voronoi tessellation in Rd is defined by locally minimizing the power distance to given weighted points. Symmetrically, the Delaunay mosaic can be defined by locally maximizing the negative power distance to other such points. We prove that the average of the two piecewise quadratic functions is piecewise linear, and that all three functions have the same critical points and values. Discretizing the two piecewise quadratic functions, we get the alpha shapes as sublevel sets of the discrete function on the Delaunay mosaic, and analogous shapes as superlevel sets of the discrete function on the Voronoi tessellation. For the same non-critical value, the corresponding shapes are disjoint, separated by a narrow channel that contains no critical points but the entire level set of the piecewise linear function.","lang":"eng"}],"doi":"10.1007/s00454-022-00371-2","publisher":"Springer Nature","intvolume":"        67","isi":1,"language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","department":[{"_id":"HeEd"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"isi":["000752175300002"]},"date_published":"2022-04-01T00:00:00Z","date_created":"2022-02-20T23:01:34Z","scopus_import":"1","publication":"Discrete and Computational Geometry","date_updated":"2023-08-02T14:31:25Z","page":"811-842","article_type":"original","oa":1,"year":"2022"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"ToHe"}],"date_created":"2022-02-20T23:01:34Z","scopus_import":"1","date_published":"2022-01-14T00:00:00Z","external_id":{"arxiv":["2105.02013"]},"publisher":"Springer Nature","intvolume":"     13182","main_file_link":[{"url":" https://doi.org/10.48550/arXiv.2105.02013","open_access":"1"}],"quality_controlled":"1","language":[{"iso":"eng"}],"type":"conference","oa":1,"year":"2022","alternative_title":["LNCS"],"date_updated":"2022-08-05T09:02:56Z","publication":"Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)","page":"1-19","month":"01","citation":{"chicago":"Bartocci, Ezio, Thomas Ferrere, Thomas A Henzinger, Dejan Nickovic, and Ana Oliveira Da Costa. “Flavors of Sequential Information Flow.” In <i>Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)</i>, 13182:1–19. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/978-3-030-94583-1_1\">https://doi.org/10.1007/978-3-030-94583-1_1</a>.","mla":"Bartocci, Ezio, et al. “Flavors of Sequential Information Flow.” <i>Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)</i>, vol. 13182, Springer Nature, 2022, pp. 1–19, doi:<a href=\"https://doi.org/10.1007/978-3-030-94583-1_1\">10.1007/978-3-030-94583-1_1</a>.","apa":"Bartocci, E., Ferrere, T., Henzinger, T. A., Nickovic, D., &#38; Da Costa, A. O. (2022). Flavors of sequential information flow. In <i>Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)</i> (Vol. 13182, pp. 1–19). Philadelphia, PA, United States: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-94583-1_1\">https://doi.org/10.1007/978-3-030-94583-1_1</a>","ieee":"E. Bartocci, T. Ferrere, T. A. Henzinger, D. Nickovic, and A. O. Da Costa, “Flavors of sequential information flow,” in <i>Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)</i>, Philadelphia, PA, United States, 2022, vol. 13182, pp. 1–19.","short":"E. Bartocci, T. Ferrere, T.A. Henzinger, D. Nickovic, A.O. Da Costa, in:, Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Springer Nature, 2022, pp. 1–19.","ama":"Bartocci E, Ferrere T, Henzinger TA, Nickovic D, Da Costa AO. Flavors of sequential information flow. In: <i>Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)</i>. Vol 13182. Springer Nature; 2022:1-19. doi:<a href=\"https://doi.org/10.1007/978-3-030-94583-1_1\">10.1007/978-3-030-94583-1_1</a>","ista":"Bartocci E, Ferrere T, Henzinger TA, Nickovic D, Da Costa AO. 2022. Flavors of sequential information flow. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). VMCAI: Verifcation, Model Checking, and Abstract Interpretation, LNCS, vol. 13182, 1–19."},"day":"14","oa_version":"Preprint","conference":{"end_date":"2022-01-18","location":"Philadelphia, PA, United States","start_date":"2022-01-16","name":"VMCAI: Verifcation, Model Checking, and Abstract Interpretation"},"arxiv":1,"article_processing_charge":"No","volume":13182,"_id":"10774","title":"Flavors of sequential information flow","author":[{"full_name":"Bartocci, Ezio","last_name":"Bartocci","first_name":"Ezio"},{"first_name":"Thomas","id":"40960E6E-F248-11E8-B48F-1D18A9856A87","last_name":"Ferrere","full_name":"Ferrere, Thomas","orcid":"0000-0001-5199-3143"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","full_name":"Henzinger, Thomas A","last_name":"Henzinger","orcid":"0000-0002-2985-7724"},{"id":"41BCEE5C-F248-11E8-B48F-1D18A9856A87","first_name":"Dejan","full_name":"Nickovic, Dejan","last_name":"Nickovic"},{"full_name":"Da Costa, Ana Oliveira","last_name":"Da Costa","first_name":"Ana Oliveira"}],"doi":"10.1007/978-3-030-94583-1_1","abstract":[{"text":"We study the problem of specifying sequential information-flow properties of systems. Information-flow properties are hyperproperties, as they compare different traces of a system. Sequential information-flow properties can express changes, over time, in the information-flow constraints. For example, information-flow constraints during an initialization phase of a system may be different from information-flow constraints that are required during the operation phase. We formalize several variants of interpreting sequential information-flow constraints, which arise from different assumptions about what can be observed of the system. For this purpose, we introduce a first-order logic, called Hypertrace Logic, with both trace and time quantifiers for specifying linear-time hyperproperties. We prove that HyperLTL, which corresponds to a fragment of Hypertrace Logic with restricted quantifier prefixes, cannot specify the majority of the studied variants of sequential information flow, including all variants in which the transition between sequential phases (such as initialization and operation) happens asynchronously. Our results rely on new equivalences between sets of traces that cannot be distinguished by certain classes of formulas from Hypertrace Logic. This presents a new approach to proving inexpressiveness results for HyperLTL.","lang":"eng"}],"project":[{"call_identifier":"FWF","name":"The Wittgenstein Prize","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425"}],"publication_identifier":{"issn":["03029743"],"isbn":["9783030945824"],"eissn":["16113349"]},"status":"public","acknowledgement":"This work was funded in part by the Wittgenstein Award Z211-N23 of the Austrian Science Fund (FWF) and by the FWF project W1255-N23.","publication_status":"published"},{"issue":"6","abstract":[{"lang":"eng","text":"List-decodability of Reed–Solomon codes has received a lot of attention, but the best-possible dependence between the parameters is still not well-understood. In this work, we focus on the case where the list-decoding radius is of the form r = 1-ε for ε tending to zero. Our main result states that there exist Reed–Solomon codes with rate Ω(ε) which are (1 - ε, O(1/ε))-list-decodable, meaning that any Hamming ball of radius 1-ε contains at most O(1/ε) codewords. This trade-off between rate and list-decoding radius is best-possible for any code with list size less than exponential in the block length. By achieving this trade-off between rate and list-decoding radius we improve a recent result of Guo, Li, Shangguan, Tamo, and Wootters, and resolve the main motivating question of their work. Moreover, while their result requires the field to be exponentially large in the block length, we only need the field size to be polynomially large (and in fact, almost-linear suffices). We deduce our main result from a more general theorem, in which we prove good list-decodability properties of random puncturings of any given code with very large distance."}],"doi":"10.1109/TIT.2022.3148779","author":[{"full_name":"Ferber, Asaf","last_name":"Ferber","first_name":"Asaf"},{"orcid":"0000-0002-4003-7567","full_name":"Kwan, Matthew Alan","last_name":"Kwan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","first_name":"Matthew Alan"},{"full_name":"Sauermann, Lisa","last_name":"Sauermann","first_name":"Lisa"}],"title":"List-decodability with large radius for Reed-Solomon codes","_id":"10775","publication_status":"published","acknowledgement":"Research supported by NSF Award DMS-1953990.","status":"public","publication_identifier":{"issn":["0018-9448"],"eissn":["1557-9654"]},"oa_version":"Preprint","day":"01","citation":{"ieee":"A. Ferber, M. A. Kwan, and L. Sauermann, “List-decodability with large radius for Reed-Solomon codes,” <i>IEEE Transactions on Information Theory</i>, vol. 68, no. 6. IEEE, pp. 3823–3828, 2022.","apa":"Ferber, A., Kwan, M. A., &#38; Sauermann, L. (2022). List-decodability with large radius for Reed-Solomon codes. <i>IEEE Transactions on Information Theory</i>. IEEE. <a href=\"https://doi.org/10.1109/TIT.2022.3148779\">https://doi.org/10.1109/TIT.2022.3148779</a>","ama":"Ferber A, Kwan MA, Sauermann L. List-decodability with large radius for Reed-Solomon codes. <i>IEEE Transactions on Information Theory</i>. 2022;68(6):3823-3828. doi:<a href=\"https://doi.org/10.1109/TIT.2022.3148779\">10.1109/TIT.2022.3148779</a>","ista":"Ferber A, Kwan MA, Sauermann L. 2022. List-decodability with large radius for Reed-Solomon codes. IEEE Transactions on Information Theory. 68(6), 3823–3828.","short":"A. Ferber, M.A. Kwan, L. Sauermann, IEEE Transactions on Information Theory 68 (2022) 3823–3828.","mla":"Ferber, Asaf, et al. “List-Decodability with Large Radius for Reed-Solomon Codes.” <i>IEEE Transactions on Information Theory</i>, vol. 68, no. 6, IEEE, 2022, pp. 3823–28, doi:<a href=\"https://doi.org/10.1109/TIT.2022.3148779\">10.1109/TIT.2022.3148779</a>.","chicago":"Ferber, Asaf, Matthew Alan Kwan, and Lisa Sauermann. “List-Decodability with Large Radius for Reed-Solomon Codes.” <i>IEEE Transactions on Information Theory</i>. IEEE, 2022. <a href=\"https://doi.org/10.1109/TIT.2022.3148779\">https://doi.org/10.1109/TIT.2022.3148779</a>."},"month":"06","volume":68,"article_processing_charge":"No","arxiv":1,"year":"2022","oa":1,"related_material":{"record":[{"status":"public","relation":"earlier_version","id":"11145"}]},"article_type":"original","page":"3823-3828","publication":"IEEE Transactions on Information Theory","date_updated":"2023-08-03T06:57:01Z","date_published":"2022-06-01T00:00:00Z","external_id":{"arxiv":["2012.10584"],"isi":["000799622500022"]},"scopus_import":"1","date_created":"2022-02-20T23:01:34Z","department":[{"_id":"MaKw"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"type":"journal_article","language":[{"iso":"eng"}],"quality_controlled":"1","intvolume":"        68","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2012.10584"}],"publisher":"IEEE"},{"date_updated":"2023-08-02T14:38:58Z","publication":"Discrete and Computational Geometry","page":"1133-1154","article_type":"original","oa":1,"year":"2022","publisher":"Springer Nature","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2003.13536"}],"intvolume":"        68","quality_controlled":"1","language":[{"iso":"eng"}],"type":"journal_article","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"UlWa"}],"date_created":"2022-02-20T23:01:35Z","scopus_import":"1","date_published":"2022-12-01T00:00:00Z","external_id":{"arxiv":["2003.13536"],"isi":["000750681500001"]},"publication_identifier":{"issn":["0179-5376"],"eissn":["1432-0444"]},"acknowledgement":"The work by Zuzana Patáková has been partially supported by Charles University Research Center Program No. UNCE/SCI/022, and part of it was done during her research stay at IST Austria. The work by Martin Tancer is supported by the GAČR Grant 19-04113Y and by the Charles University Projects PRIMUS/17/SCI/3 and UNCE/SCI/004.","status":"public","publication_status":"published","_id":"10776","title":"Barycentric cuts through a convex body","author":[{"orcid":"0000-0002-3975-1683","first_name":"Zuzana","id":"48B57058-F248-11E8-B48F-1D18A9856A87","last_name":"Patakova","full_name":"Patakova, Zuzana"},{"first_name":"Martin","full_name":"Tancer, Martin","last_name":"Tancer"},{"last_name":"Wagner","full_name":"Wagner, Uli","first_name":"Uli","id":"36690CA2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1494-0568"}],"doi":"10.1007/s00454-021-00364-7","abstract":[{"text":"Let K be a convex body in Rn (i.e., a compact convex set with nonempty interior). Given a point p in the interior of K, a hyperplane h passing through p is called barycentric if p is the barycenter of K∩h. In 1961, Grünbaum raised the question whether, for every K, there exists an interior point p through which there are at least n+1 distinct barycentric hyperplanes. Two years later, this was seemingly resolved affirmatively by showing that this is the case if p=p0 is the point of maximal depth in K. However, while working on a related question, we noticed that one of the auxiliary claims in the proof is incorrect. Here, we provide a counterexample; this re-opens Grünbaum’s question. It follows from known results that for n≥2, there are always at least three distinct barycentric cuts through the point p0∈K of maximal depth. Using tools related to Morse theory we are able to improve this bound: four distinct barycentric cuts through p0 are guaranteed if n≥3.","lang":"eng"}],"arxiv":1,"article_processing_charge":"No","volume":68,"month":"12","citation":{"mla":"Patakova, Zuzana, et al. “Barycentric Cuts through a Convex Body.” <i>Discrete and Computational Geometry</i>, vol. 68, Springer Nature, 2022, pp. 1133–54, doi:<a href=\"https://doi.org/10.1007/s00454-021-00364-7\">10.1007/s00454-021-00364-7</a>.","chicago":"Patakova, Zuzana, Martin Tancer, and Uli Wagner. “Barycentric Cuts through a Convex Body.” <i>Discrete and Computational Geometry</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s00454-021-00364-7\">https://doi.org/10.1007/s00454-021-00364-7</a>.","apa":"Patakova, Z., Tancer, M., &#38; Wagner, U. (2022). Barycentric cuts through a convex body. <i>Discrete and Computational Geometry</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00454-021-00364-7\">https://doi.org/10.1007/s00454-021-00364-7</a>","ieee":"Z. Patakova, M. Tancer, and U. Wagner, “Barycentric cuts through a convex body,” <i>Discrete and Computational Geometry</i>, vol. 68. Springer Nature, pp. 1133–1154, 2022.","short":"Z. Patakova, M. Tancer, U. Wagner, Discrete and Computational Geometry 68 (2022) 1133–1154.","ista":"Patakova Z, Tancer M, Wagner U. 2022. Barycentric cuts through a convex body. Discrete and Computational Geometry. 68, 1133–1154.","ama":"Patakova Z, Tancer M, Wagner U. Barycentric cuts through a convex body. <i>Discrete and Computational Geometry</i>. 2022;68:1133-1154. doi:<a href=\"https://doi.org/10.1007/s00454-021-00364-7\">10.1007/s00454-021-00364-7</a>"},"day":"01","oa_version":"Preprint"},{"intvolume":"       377","publisher":"The Royal Society","quality_controlled":"1","type":"journal_article","language":[{"iso":"eng"}],"isi":1,"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","department":[{"_id":"GradSch"},{"_id":"NiBa"}],"scopus_import":"1","date_created":"2022-02-21T16:08:10Z","external_id":{"pmid":["35184588"],"isi":["000758140300001"]},"date_published":"2022-04-11T00:00:00Z","date_updated":"2025-05-26T09:05:09Z","publication":"Philosophical Transactions of the Royal Society B: Biological Sciences","article_type":"original","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"14711"}]},"oa":1,"keyword":["General Agricultural and Biological Sciences","General Biochemistry","Genetics and Molecular Biology"],"year":"2022","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"date_created":"2022-08-02T06:14:32Z","file_id":"11719","creator":"dernst","relation":"main_file","file_size":1349672,"file_name":"2022_PhilosophicalTransactionsRSB_Barton.pdf","checksum":"3b0243738f01bf3c07e0d7e8dc64f71d","content_type":"application/pdf","access_level":"open_access","date_updated":"2022-08-02T06:14:32Z","success":1}],"volume":377,"article_processing_charge":"No","has_accepted_license":"1","month":"04","pmid":1,"ddc":["570"],"file_date_updated":"2022-08-02T06:14:32Z","day":"11","citation":{"apa":"Barton, N. H., &#38; Olusanya, O. O. (2022). The response of a metapopulation to a changing environment. <i>Philosophical Transactions of the Royal Society B: Biological Sciences</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rstb.2021.0009\">https://doi.org/10.1098/rstb.2021.0009</a>","ieee":"N. H. Barton and O. O. Olusanya, “The response of a metapopulation to a changing environment,” <i>Philosophical Transactions of the Royal Society B: Biological Sciences</i>, vol. 377, no. 1848. The Royal Society, 2022.","ista":"Barton NH, Olusanya OO. 2022. The response of a metapopulation to a changing environment. Philosophical Transactions of the Royal Society B: Biological Sciences. 377(1848).","ama":"Barton NH, Olusanya OO. The response of a metapopulation to a changing environment. <i>Philosophical Transactions of the Royal Society B: Biological Sciences</i>. 2022;377(1848). doi:<a href=\"https://doi.org/10.1098/rstb.2021.0009\">10.1098/rstb.2021.0009</a>","short":"N.H. Barton, O.O. Olusanya, Philosophical Transactions of the Royal Society B: Biological Sciences 377 (2022).","mla":"Barton, Nicholas H., and Oluwafunmilola O. Olusanya. “The Response of a Metapopulation to a Changing Environment.” <i>Philosophical Transactions of the Royal Society B: Biological Sciences</i>, vol. 377, no. 1848, The Royal Society, 2022, doi:<a href=\"https://doi.org/10.1098/rstb.2021.0009\">10.1098/rstb.2021.0009</a>.","chicago":"Barton, Nicholas H, and Oluwafunmilola O Olusanya. “The Response of a Metapopulation to a Changing Environment.” <i>Philosophical Transactions of the Royal Society B: Biological Sciences</i>. The Royal Society, 2022. <a href=\"https://doi.org/10.1098/rstb.2021.0009\">https://doi.org/10.1098/rstb.2021.0009</a>."},"oa_version":"Published Version","project":[{"grant_number":"P32896","_id":"c08d3278-5a5b-11eb-8a69-fdb09b55f4b8","name":"Causes and consequences of population fragmentation"}],"publication_identifier":{"eissn":["1471-2970"],"issn":["0962-8436"]},"acknowledgement":"This research was partly funded by the Austrian Science Fund (FWF) [FWF P-32896B].","status":"public","publication_status":"published","_id":"10787","author":[{"orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas H"},{"orcid":"0000-0003-1971-8314","last_name":"Olusanya","full_name":"Olusanya, Oluwafunmilola O","first_name":"Oluwafunmilola O","id":"41AD96DC-F248-11E8-B48F-1D18A9856A87"}],"title":"The response of a metapopulation to a changing environment","doi":"10.1098/rstb.2021.0009","issue":"1848","abstract":[{"lang":"eng","text":"A species distributed across diverse environments may adapt to local conditions. We ask how quickly such a species changes its range in response to changed conditions. Szép et al. (Szép E, Sachdeva H, Barton NH. 2021 Polygenic local adaptation in metapopulations: a stochastic eco-evolutionary model. Evolution75, 1030–1045 (doi:10.1111/evo.14210)) used the infinite island model to find the stationary distribution of allele frequencies and deme sizes. We extend this to find how a metapopulation responds to changes in carrying capacity, selection strength, or migration rate when deme sizes are fixed. We further develop a ‘fixed-state’ approximation. Under this approximation, polymorphism is only possible for a narrow range of habitat proportions when selection is weak compared to drift, but for a much wider range otherwise. When rates of selection or migration relative to drift change in a single deme of the metapopulation, the population takes a time of order m−1 to reach the new equilibrium. However, even with many loci, there can be substantial fluctuations in net adaptation, because at each locus, alleles randomly get lost or fixed. Thus, in a finite metapopulation, variation may gradually be lost by chance, even if it would persist in an infinite metapopulation. When conditions change across the whole metapopulation, there can be rapid change, which is predicted well by the fixed-state approximation. This work helps towards an understanding of how metapopulations extend their range across diverse environments.\r\nThis article is part of the theme issue ‘Species’ ranges in the face of changing environments (Part II)’."}]},{"article_processing_charge":"No","type":"preprint","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2202.10909"}],"arxiv":1,"oa_version":"Preprint","date_created":"2022-02-23T09:04:43Z","external_id":{"arxiv":["2202.10909"]},"date_published":"2022-02-22T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"02","citation":{"mla":"Wilsch, Florian Alexander. “Integral Points of Bounded Height on a Certain Toric Variety.” <i>ArXiv</i>, 2202.10909, doi:<a href=\"https://doi.org/10.48550/arXiv.2202.10909\">10.48550/arXiv.2202.10909</a>.","chicago":"Wilsch, Florian Alexander. “Integral Points of Bounded Height on a Certain Toric Variety.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2202.10909\">https://doi.org/10.48550/arXiv.2202.10909</a>.","apa":"Wilsch, F. A. (n.d.). Integral points of bounded height on a certain toric variety. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2202.10909\">https://doi.org/10.48550/arXiv.2202.10909</a>","ieee":"F. A. Wilsch, “Integral points of bounded height on a certain toric variety,” <i>arXiv</i>. .","ama":"Wilsch FA. Integral points of bounded height on a certain toric variety. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2202.10909\">10.48550/arXiv.2202.10909</a>","ista":"Wilsch FA. Integral points of bounded height on a certain toric variety. arXiv, 2202.10909.","short":"F.A. Wilsch, ArXiv (n.d.)."},"department":[{"_id":"TiBr"}],"day":"22","article_number":"2202.10909","acknowledgement":"Part of this work was conducted as a guest at the Institut de Mathématiques de Jussieu–Paris Rive Gauche invited by Antoine Chambert-Loir and funded by DAAD.\r\nDuring this time, I had interesting and fruitful discussions on the interpretation of the result for\r\nthe toric variety discussed in Section 3 with Antoine Chambert-Loir. I wish to thank him for these\r\nopportunities and for his useful remarks on earlier versions of this article. This work was partly\r\nfunded by FWF grant P 32428-N35.","publication_status":"submitted","status":"public","project":[{"call_identifier":"FWF","name":"New frontiers of the Manin conjecture","_id":"26AEDAB2-B435-11E9-9278-68D0E5697425","grant_number":"P32428"}],"date_updated":"2023-05-03T07:46:35Z","publication":"arXiv","doi":"10.48550/arXiv.2202.10909","keyword":["Integral point","toric variety","Manin's conjecture"],"abstract":[{"lang":"eng","text":"We determine an asymptotic formula for the number of integral points of\r\nbounded height on a certain toric variety, which is incompatible with part of a\r\npreprint by Chambert-Loir and Tschinkel. We provide an alternative\r\ninterpretation of the asymptotic formula we get. To do so, we construct an\r\nanalogue of Peyre's constant $\\alpha$ and describe its relation to a new\r\nobstruction to the Zariski density of integral points in certain regions of\r\nvarieties."}],"year":"2022","_id":"10788","title":"Integral points of bounded height on a certain toric variety","oa":1,"author":[{"last_name":"Wilsch","full_name":"Wilsch, Florian Alexander","first_name":"Florian Alexander","id":"560601DA-8D36-11E9-A136-7AC1E5697425","orcid":"0000-0001-7302-8256"}]},{"project":[{"_id":"25D61E48-B435-11E9-9278-68D0E5697425","grant_number":"618444","name":"Molecular Mechanisms of Cerebral Cortex Development","call_identifier":"FP7"},{"name":"Molecular Mechanisms of Radial Neuronal Migration","grant_number":"24812","_id":"2625A13E-B435-11E9-9278-68D0E5697425"}],"publication_identifier":{"eissn":["2753-149X"]},"ec_funded":1,"status":"public","publication_status":"published","acknowledgement":"A.H.H. was a recipient of a DOC Fellowship (24812) of the Austrian Academy of Sciences. This work also received support from IST Austria institutional funds; the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007–2013) under REA grant agreement No 618444 to S.H.\r\nAPC funding was obtained by IST Austria institutional funds.\r\nWe thank A. Sommer and C. Czepe (VBCF GmbH, NGS Unit), L. Andersen, J. Sonntag and J. Renno for technical support and/or initial experiments; M. Sixt, J. Nimpf and all members of the Hippenmeyer lab for discussion. This research was supported by the Scientific Service Units of IST Austria through resources provided by the Imaging and Optics Facility, Lab Support Facility and Preclinical Facility.","_id":"10791","title":"Tissue-wide effects override cell-intrinsic gene function in radial neuron migration","author":[{"full_name":"Hansen, Andi H","last_name":"Hansen","id":"38853E16-F248-11E8-B48F-1D18A9856A87","first_name":"Andi H"},{"orcid":"0000-0002-7462-0048","id":"48EA0138-F248-11E8-B48F-1D18A9856A87","first_name":"Florian","full_name":"Pauler, Florian","last_name":"Pauler"},{"last_name":"Riedl","full_name":"Riedl, Michael","first_name":"Michael","id":"3BE60946-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4844-6311"},{"id":"36BCB99C-F248-11E8-B48F-1D18A9856A87","first_name":"Carmen","full_name":"Streicher, Carmen","last_name":"Streicher"},{"first_name":"Anna-Magdalena","id":"4B76FFD2-F248-11E8-B48F-1D18A9856A87","last_name":"Heger","full_name":"Heger, Anna-Magdalena"},{"orcid":"0000-0002-7903-3010","id":"2D6B7A9A-F248-11E8-B48F-1D18A9856A87","first_name":"Susanne","full_name":"Laukoter, Susanne","last_name":"Laukoter"},{"id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph M","full_name":"Sommer, Christoph M","last_name":"Sommer","orcid":"0000-0003-1216-9105"},{"last_name":"Nicolas","full_name":"Nicolas, Armel","first_name":"Armel","id":"2A103192-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0003-2057-2754","id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn","full_name":"Hof, Björn","last_name":"Hof"},{"last_name":"Tsai","full_name":"Tsai, Li Huei","first_name":"Li Huei"},{"full_name":"Rülicke, Thomas","last_name":"Rülicke","first_name":"Thomas"},{"orcid":"0000-0003-2279-1061","first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","last_name":"Hippenmeyer","full_name":"Hippenmeyer, Simon"}],"doi":"10.1093/oons/kvac009","abstract":[{"lang":"eng","text":"The mammalian neocortex is composed of diverse neuronal and glial cell classes that broadly arrange in six distinct laminae. Cortical layers emerge during development and defects in the developmental programs that orchestrate cortical lamination are associated with neurodevelopmental diseases. The developmental principle of cortical layer formation depends on concerted radial projection neuron migration, from their birthplace to their final target position. Radial migration occurs in defined sequential steps, regulated by a large array of signaling pathways. However, based on genetic loss-of-function experiments, most studies have thus far focused on the role of cell-autonomous gene function. Yet, cortical neuron migration in situ is a complex process and migrating neurons traverse along diverse cellular compartments and environments. The role of tissue-wide properties and genetic state in radial neuron migration is however not clear. Here we utilized mosaic analysis with double markers (MADM) technology to either sparsely or globally delete gene function, followed by quantitative single-cell phenotyping. The MADM-based gene ablation paradigms in combination with computational modeling demonstrated that global tissue-wide effects predominate cell-autonomous gene function albeit in a gene-specific manner. Our results thus suggest that the genetic landscape in a tissue critically affects the overall migration phenotype of individual cortical projection neurons. In a broader context, our findings imply that global tissue-wide effects represent an essential component of the underlying etiology associated with focal malformations of cortical development in particular, and neurological diseases in general."}],"issue":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"access_level":"open_access","content_type":"application/pdf","checksum":"822e76e056c07099d1fb27d1ece5941b","success":1,"date_updated":"2023-08-16T08:00:30Z","file_name":"2023_OxfordOpenNeuroscience_Hansen.pdf","relation":"main_file","creator":"dernst","file_size":4846551,"file_id":"14061","date_created":"2023-08-16T08:00:30Z"}],"article_processing_charge":"No","volume":1,"has_accepted_license":"1","ddc":["570"],"month":"07","file_date_updated":"2023-08-16T08:00:30Z","citation":{"apa":"Hansen, A. H., Pauler, F., Riedl, M., Streicher, C., Heger, A.-M., Laukoter, S., … Hippenmeyer, S. (2022). Tissue-wide effects override cell-intrinsic gene function in radial neuron migration. <i>Oxford Open Neuroscience</i>. Oxford Academic. <a href=\"https://doi.org/10.1093/oons/kvac009\">https://doi.org/10.1093/oons/kvac009</a>","ieee":"A. H. Hansen <i>et al.</i>, “Tissue-wide effects override cell-intrinsic gene function in radial neuron migration,” <i>Oxford Open Neuroscience</i>, vol. 1, no. 1. Oxford Academic, 2022.","short":"A.H. Hansen, F. Pauler, M. Riedl, C. Streicher, A.-M. Heger, S. Laukoter, C.M. Sommer, A. Nicolas, B. Hof, L.H. Tsai, T. Rülicke, S. Hippenmeyer, Oxford Open Neuroscience 1 (2022).","ama":"Hansen AH, Pauler F, Riedl M, et al. Tissue-wide effects override cell-intrinsic gene function in radial neuron migration. <i>Oxford Open Neuroscience</i>. 2022;1(1). doi:<a href=\"https://doi.org/10.1093/oons/kvac009\">10.1093/oons/kvac009</a>","ista":"Hansen AH, Pauler F, Riedl M, Streicher C, Heger A-M, Laukoter S, Sommer CM, Nicolas A, Hof B, Tsai LH, Rülicke T, Hippenmeyer S. 2022. Tissue-wide effects override cell-intrinsic gene function in radial neuron migration. Oxford Open Neuroscience. 1(1), kvac009.","mla":"Hansen, Andi H., et al. “Tissue-Wide Effects Override Cell-Intrinsic Gene Function in Radial Neuron Migration.” <i>Oxford Open Neuroscience</i>, vol. 1, no. 1, kvac009, Oxford Academic, 2022, doi:<a href=\"https://doi.org/10.1093/oons/kvac009\">10.1093/oons/kvac009</a>.","chicago":"Hansen, Andi H, Florian Pauler, Michael Riedl, Carmen Streicher, Anna-Magdalena Heger, Susanne Laukoter, Christoph M Sommer, et al. “Tissue-Wide Effects Override Cell-Intrinsic Gene Function in Radial Neuron Migration.” <i>Oxford Open Neuroscience</i>. Oxford Academic, 2022. <a href=\"https://doi.org/10.1093/oons/kvac009\">https://doi.org/10.1093/oons/kvac009</a>."},"day":"07","oa_version":"Published Version","date_updated":"2023-11-30T10:55:12Z","publication":"Oxford Open Neuroscience","article_number":"kvac009","article_type":"original","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"12726"},{"relation":"dissertation_contains","status":"public","id":"14530"}]},"oa":1,"year":"2022","publisher":"Oxford Academic","intvolume":"         1","language":[{"iso":"eng"}],"quality_controlled":"1","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"SiHi"},{"_id":"BjHo"},{"_id":"LifeSc"},{"_id":"EM-Fac"}],"date_created":"2022-02-25T07:52:11Z","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"PreCl"},{"_id":"Bio"}],"date_published":"2022-07-07T00:00:00Z"},{"citation":{"ama":"Schaaf Z, Tat L, Cannizzaro N, et al. WDFY3 cell autonomously controls neuronal migration. doi:<a href=\"https://doi.org/10.21203/rs.3.rs-1316167/v1\">10.21203/rs.3.rs-1316167/v1</a>","short":"Z. Schaaf, L. Tat, N. Cannizzaro, R. Green, T. Rülicke, S. Hippenmeyer, K. Zarbalis, (n.d.).","ista":"Schaaf Z, Tat L, Cannizzaro N, Green R, Rülicke T, Hippenmeyer S, Zarbalis K. WDFY3 cell autonomously controls neuronal migration. <a href=\"https://doi.org/10.21203/rs.3.rs-1316167/v1\">10.21203/rs.3.rs-1316167/v1</a>.","apa":"Schaaf, Z., Tat, L., Cannizzaro, N., Green, R., Rülicke, T., Hippenmeyer, S., &#38; Zarbalis, K. (n.d.). WDFY3 cell autonomously controls neuronal migration. Research Square. <a href=\"https://doi.org/10.21203/rs.3.rs-1316167/v1\">https://doi.org/10.21203/rs.3.rs-1316167/v1</a>","ieee":"Z. Schaaf <i>et al.</i>, “WDFY3 cell autonomously controls neuronal migration.” Research Square.","mla":"Schaaf, Zachary, et al. <i>WDFY3 Cell Autonomously Controls Neuronal Migration</i>. Research Square, doi:<a href=\"https://doi.org/10.21203/rs.3.rs-1316167/v1\">10.21203/rs.3.rs-1316167/v1</a>.","chicago":"Schaaf, Zachary, Lyvin Tat, Noemi Cannizzaro, Ralph Green, Thomas Rülicke, Simon Hippenmeyer, and K Zarbalis. “WDFY3 Cell Autonomously Controls Neuronal Migration.” Research Square, n.d. <a href=\"https://doi.org/10.21203/rs.3.rs-1316167/v1\">https://doi.org/10.21203/rs.3.rs-1316167/v1</a>."},"department":[{"_id":"SiHi"}],"day":"16","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"02","pmid":1,"external_id":{"pmid":["PPR454733"]},"date_published":"2022-02-16T00:00:00Z","oa_version":"Preprint","date_created":"2022-02-25T07:53:26Z","publisher":"Research Square","main_file_link":[{"open_access":"1","url":"https://doi.org/10.21203/rs.3.rs-1316167/v1"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"article_processing_charge":"No","language":[{"iso":"eng"}],"type":"preprint","title":"WDFY3 cell autonomously controls neuronal migration","oa":1,"author":[{"first_name":"Zachary","full_name":"Schaaf, Zachary","last_name":"Schaaf"},{"last_name":"Tat","full_name":"Tat, Lyvin","first_name":"Lyvin"},{"first_name":"Noemi","full_name":"Cannizzaro, Noemi","last_name":"Cannizzaro"},{"full_name":"Green, Ralph","last_name":"Green","first_name":"Ralph"},{"first_name":"Thomas","last_name":"Rülicke","full_name":"Rülicke, Thomas"},{"orcid":"0000-0003-2279-1061","full_name":"Hippenmeyer, Simon","last_name":"Hippenmeyer","id":"37B36620-F248-11E8-B48F-1D18A9856A87","first_name":"Simon"},{"full_name":"Zarbalis, K","last_name":"Zarbalis","first_name":"K"}],"_id":"10792","abstract":[{"text":"Background\r\nProper cerebral cortical development depends on the tightly orchestrated migration of newly born neurons from the inner ventricular and subventricular zones to the outer cortical plate. Any disturbance in this process during prenatal stages may lead to neuronal migration disorders (NMDs), which can vary in extent from focal to global. Furthermore, NMDs show a substantial comorbidity with other neurodevelopmental disorders, notably autism spectrum disorders (ASDs). Our previous work demonstrated focal neuronal migration defects in mice carrying loss-of-function alleles of the recognized autism risk gene WDFY3. However, the cellular origins of these defects in Wdfy3 mutant mice remain elusive and uncovering it will provide critical insight into WDFY3-dependent disease pathology .\r\nMethods\r\nHere, in an effort to untangle the origins of NMDs in Wdfy3lacZ mice, we employed mosaic analysis with double markers (MADM). MADM technology enabled us to genetically distinctly track and phenotypically analyze mutant and wild type cells concomitantly in vivo using immunofluorescent techniques.\r\nResults\r\nWe revealed a cell autonomous requirement of WDFY3 for accurate laminar positioning of cortical projection neurons and elimination of mispositioned cells during early postnatal life. In addition, we identified significant deviations in dendritic arborization, as well as synaptic density and morphology between wild type, heterozygous, and homozygous Wdfy3 mutant neurons in Wdfy3-MADM reporter mice at postnatal stages. Limitations While Wdfy3 mutant mice have provided valuable insight into prenatal aspects of ASD pathology that remain inaccessible to investigation in humans, like most animal models, they do not a perfectly replicate all aspects of human ASD biology. The lack of human data makes it indeterminate whether morphological deviations described here apply to ASD patients.\r\nConclusions\r\nOur genetic approach revealed several cell autonomous requirements of Wdfy3 in neuronal development that could underly the pathogenic mechanisms of WDFY3-related ASD conditions. The results are also consistent with findings in other ASD animal models and patients and suggest an important role for Wdfy3 in regulating neuronal function and interconnectivity in postnatal life.","lang":"eng"}],"year":"2022","doi":"10.21203/rs.3.rs-1316167/v1","publication_identifier":{"eissn":["2693-5015"]},"date_updated":"2023-10-17T13:06:52Z","status":"public","publication_status":"submitted","page":"30"},{"abstract":[{"lang":"eng","text":"We consider symmetric partial exclusion and inclusion processes in a general graph in contact with reservoirs, where we allow both for edge disorder and well-chosen site disorder. We extend the classical dualities to this context and then we derive new orthogonal polynomial dualities. From the classical dualities, we derive the uniqueness of the non-equilibrium steady state and obtain correlation inequalities. Starting from the orthogonal polynomial dualities, we show universal properties of n-point correlation functions in the non-equilibrium steady state for systems with at most two different reservoir parameters, such as a chain with reservoirs at left and right ends."},{"lang":"fre","text":"Nous considérons des processus d’exclusion partielle, et des processus d’inclusion sur un graphe général en contact avec des réservoirs. Nous autorisons la présence de inhomogenéités sur les arrêts ainsi que sur les sommets du graph. Nous généralisons les “dualités classiques” dans ce contexte et nous démontrons des nouvelles dualités orthogonales. À partir des dualités classiques, nous démontrons l’unicité de l’état stationnaire non-équilibre, ainsi que des inégalités de corrélation. À partir des dualités orthogonales nous démontrons des propriétés universelles des fonctions de corrélation à n points dans l’état stationnaire non-équilibre pour des systèmes avec deux paramètres de réservoirs inégaux, comme par exemple une chaîne avec des réservoirs à droite et à gauche."}],"issue":"1","doi":"10.1214/21-AIHP1163","title":"Orthogonal polynomial duality of boundary driven particle systems and non-equilibrium correlations","author":[{"first_name":"Simone","full_name":"Floreani, Simone","last_name":"Floreani"},{"first_name":"Frank","full_name":"Redig, Frank","last_name":"Redig"},{"full_name":"Sau, Federico","last_name":"Sau","id":"E1836206-9F16-11E9-8814-AEFDE5697425","first_name":"Federico"}],"_id":"10797","status":"public","publication_status":"published","acknowledgement":"The authors would like to thank Gioia Carinci and Cristian Giardinà for useful discussions. F.R. and S.F. thank Jean-René Chazottes for a stay at CPHT (Institut Polytechnique de Paris), in the realm of Chaire d’Alembert (Paris-Saclay University), where part of this work was performed. S.F. acknowledges Simona Villa for her support in creating the picture. S.F. acknowledges financial support from NWO via the grant TOP1.17.019. F.S. acknowledges financial support from the European Union’s Horizon 2020 research and innovation programme under the Marie-Skłodowska-Curie grant agreement No. 754411.","ec_funded":1,"publication_identifier":{"issn":["0246-0203"]},"project":[{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"oa_version":"Preprint","citation":{"apa":"Floreani, S., Redig, F., &#38; Sau, F. (2022). Orthogonal polynomial duality of boundary driven particle systems and non-equilibrium correlations. <i>Annales de l’institut Henri Poincare (B) Probability and Statistics</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/21-AIHP1163\">https://doi.org/10.1214/21-AIHP1163</a>","ieee":"S. Floreani, F. Redig, and F. Sau, “Orthogonal polynomial duality of boundary driven particle systems and non-equilibrium correlations,” <i>Annales de l’institut Henri Poincare (B) Probability and Statistics</i>, vol. 58, no. 1. Institute of Mathematical Statistics, pp. 220–247, 2022.","ista":"Floreani S, Redig F, Sau F. 2022. Orthogonal polynomial duality of boundary driven particle systems and non-equilibrium correlations. Annales de l’institut Henri Poincare (B) Probability and Statistics. 58(1), 220–247.","ama":"Floreani S, Redig F, Sau F. Orthogonal polynomial duality of boundary driven particle systems and non-equilibrium correlations. <i>Annales de l’institut Henri Poincare (B) Probability and Statistics</i>. 2022;58(1):220-247. doi:<a href=\"https://doi.org/10.1214/21-AIHP1163\">10.1214/21-AIHP1163</a>","short":"S. Floreani, F. Redig, F. Sau, Annales de l’institut Henri Poincare (B) Probability and Statistics 58 (2022) 220–247.","chicago":"Floreani, Simone, Frank Redig, and Federico Sau. “Orthogonal Polynomial Duality of Boundary Driven Particle Systems and Non-Equilibrium Correlations.” <i>Annales de l’institut Henri Poincare (B) Probability and Statistics</i>. Institute of Mathematical Statistics, 2022. <a href=\"https://doi.org/10.1214/21-AIHP1163\">https://doi.org/10.1214/21-AIHP1163</a>.","mla":"Floreani, Simone, et al. “Orthogonal Polynomial Duality of Boundary Driven Particle Systems and Non-Equilibrium Correlations.” <i>Annales de l’institut Henri Poincare (B) Probability and Statistics</i>, vol. 58, no. 1, Institute of Mathematical Statistics, 2022, pp. 220–47, doi:<a href=\"https://doi.org/10.1214/21-AIHP1163\">10.1214/21-AIHP1163</a>."},"day":"01","month":"02","article_processing_charge":"No","volume":58,"arxiv":1,"year":"2022","oa":1,"page":"220-247","article_type":"original","publication":"Annales de l'institut Henri Poincare (B) Probability and Statistics","date_updated":"2023-10-17T12:49:43Z","external_id":{"isi":["000752489300010"],"arxiv":["2007.08272"]},"date_published":"2022-02-01T00:00:00Z","date_created":"2022-02-27T23:01:50Z","scopus_import":"1","department":[{"_id":"JaMa"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","isi":1,"quality_controlled":"1","language":[{"iso":"eng"}],"type":"journal_article","publisher":"Institute of Mathematical Statistics","main_file_link":[{"url":"https://arxiv.org/abs/2007.08272","open_access":"1"}],"intvolume":"        58"},{"year":"2022","alternative_title":["ISTA Thesis"],"keyword":["robustness","fairness","machine learning","PAC learning","adversarial learning"],"oa":1,"related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"8724"},{"status":"public","relation":"part_of_dissertation","id":"10803"},{"id":"10802","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"6590"}]},"page":"176","date_updated":"2023-10-17T12:31:54Z","date_published":"2022-03-08T00:00:00Z","date_created":"2022-02-28T13:03:49Z","department":[{"_id":"GradSch"},{"_id":"ChLa"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","language":[{"iso":"eng"}],"type":"dissertation","publisher":"Institute of Science and Technology Austria","abstract":[{"text":"Because of the increasing popularity of machine learning methods, it is becoming important to understand the impact of learned components on automated decision-making systems and to guarantee that their consequences are beneficial to society. In other words, it is necessary to ensure that machine learning is sufficiently trustworthy to be used in real-world applications. This thesis studies two properties of machine learning models that are highly desirable for the\r\nsake of reliability: robustness and fairness. In the first part of the thesis we study the robustness of learning algorithms to training data corruption. Previous work has shown that machine learning models are vulnerable to a range\r\nof training set issues, varying from label noise through systematic biases to worst-case data manipulations. This is an especially relevant problem from a present perspective, since modern machine learning methods are particularly data hungry and therefore practitioners often have to rely on data collected from various external sources, e.g. from the Internet, from app users or via crowdsourcing. Naturally, such sources vary greatly in the quality and reliability of the\r\ndata they provide. With these considerations in mind, we study the problem of designing machine learning algorithms that are robust to corruptions in data coming from multiple sources. We show that, in contrast to the case of a single dataset with outliers, successful learning within this model is possible both theoretically and practically, even under worst-case data corruptions. The second part of this thesis deals with fairness-aware machine learning. There are multiple areas where machine learning models have shown promising results, but where careful considerations are required, in order to avoid discrimanative decisions taken by such learned components. Ensuring fairness can be particularly challenging, because real-world training datasets are expected to contain various forms of historical bias that may affect the learning process. In this thesis we show that data corruption can indeed render the problem of achieving fairness impossible, by tightly characterizing the theoretical limits of fair learning under worst-case data manipulations. However, assuming access to clean data, we also show how fairness-aware learning can be made practical in contexts beyond binary classification, in particular in the challenging learning to rank setting.","lang":"eng"}],"doi":"10.15479/at:ista:10799","title":"Robustness and fairness in machine learning","supervisor":[{"orcid":"0000-0001-8622-7887","full_name":"Lampert, Christoph","last_name":"Lampert","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph"}],"author":[{"first_name":"Nikola H","id":"4B9D76E4-F248-11E8-B48F-1D18A9856A87","last_name":"Konstantinov","full_name":"Konstantinov, Nikola H"}],"_id":"10799","status":"public","publication_status":"published","ec_funded":1,"publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-015-2"]},"project":[{"name":"International IST Doctoral Program","call_identifier":"H2020","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"oa_version":"Published Version","citation":{"chicago":"Konstantinov, Nikola H. “Robustness and Fairness in Machine Learning.” Institute of Science and Technology Austria, 2022. <a href=\"https://doi.org/10.15479/at:ista:10799\">https://doi.org/10.15479/at:ista:10799</a>.","mla":"Konstantinov, Nikola H. <i>Robustness and Fairness in Machine Learning</i>. Institute of Science and Technology Austria, 2022, doi:<a href=\"https://doi.org/10.15479/at:ista:10799\">10.15479/at:ista:10799</a>.","ieee":"N. H. Konstantinov, “Robustness and fairness in machine learning,” Institute of Science and Technology Austria, 2022.","apa":"Konstantinov, N. H. (2022). <i>Robustness and fairness in machine learning</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:10799\">https://doi.org/10.15479/at:ista:10799</a>","ista":"Konstantinov NH. 2022. Robustness and fairness in machine learning. Institute of Science and Technology Austria.","ama":"Konstantinov NH. Robustness and fairness in machine learning. 2022. doi:<a href=\"https://doi.org/10.15479/at:ista:10799\">10.15479/at:ista:10799</a>","short":"N.H. Konstantinov, Robustness and Fairness in Machine Learning, Institute of Science and Technology Austria, 2022."},"day":"08","month":"03","file_date_updated":"2022-03-10T12:11:48Z","ddc":["000"],"has_accepted_license":"1","article_processing_charge":"No","degree_awarded":"PhD","file":[{"relation":"main_file","file_size":4204905,"creator":"nkonstan","file_name":"thesis.pdf","content_type":"application/pdf","checksum":"626bc523ae8822d20e635d0e2d95182e","access_level":"open_access","date_updated":"2022-03-06T11:42:54Z","success":1,"date_created":"2022-03-06T11:42:54Z","file_id":"10823"},{"content_type":"application/x-zip-compressed","checksum":"e2ca2b88350ac8ea1515b948885cbcb1","access_level":"closed","date_updated":"2022-03-10T12:11:48Z","relation":"source_file","file_size":22841103,"creator":"nkonstan","file_name":"thesis.zip","date_created":"2022-03-06T11:42:57Z","file_id":"10824"}]},{"oa":1,"year":"2022","keyword":["Fairness","robustness","data poisoning","trustworthy machine learning","PAC learning"],"publication":"Journal of Machine Learning Research","date_updated":"2023-09-26T10:44:37Z","related_material":{"record":[{"id":"10799","status":"public","relation":"dissertation_contains"},{"relation":"shorter_version","status":"public","id":"13241"}]},"page":"1-60","article_type":"original","department":[{"_id":"ChLa"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2022-05-01T00:00:00Z","external_id":{"arxiv":["2102.06004"]},"date_created":"2022-02-28T14:05:42Z","scopus_import":"1","publisher":"ML Research Press","intvolume":"        23","type":"journal_article","language":[{"iso":"eng"}],"quality_controlled":"1","title":"Fairness-aware PAC learning from corrupted data","author":[{"first_name":"Nikola H","id":"4B9D76E4-F248-11E8-B48F-1D18A9856A87","last_name":"Konstantinov","full_name":"Konstantinov, Nikola H"},{"id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph","full_name":"Lampert, Christoph","last_name":"Lampert","orcid":"0000-0002-4561-241X"}],"_id":"10802","abstract":[{"lang":"eng","text":"Addressing fairness concerns about machine learning models is a crucial step towards their long-term adoption in real-world automated systems. While many approaches have been developed for training fair models from data, little is known about the robustness of these methods to data corruption. In this work we consider fairness-aware learning under worst-case data manipulations. We show that an adversary can in some situations force any learner to return an overly biased classifier, regardless of the sample size and with or without degrading\r\naccuracy, and that the strength of the excess bias increases for learning problems with underrepresented protected groups in the data. We also prove that our hardness results are tight up to constant factors. To this end, we study two natural learning algorithms that optimize for both accuracy and fairness and show that these algorithms enjoy guarantees that are order-optimal in terms of the corruption ratio and the protected groups frequencies in the large data\r\nlimit."}],"publication_identifier":{"eissn":["1533-7928"],"issn":["1532-4435"]},"acknowledgement":"The authors thank Eugenia Iofinova and Bernd Prach for providing feedback on early versions of this paper. This publication was made possible by an ETH AI Center postdoctoral fellowship to Nikola Konstantinov.","publication_status":"published","status":"public","citation":{"ama":"Konstantinov NH, Lampert C. Fairness-aware PAC learning from corrupted data. <i>Journal of Machine Learning Research</i>. 2022;23:1-60.","ista":"Konstantinov NH, Lampert C. 2022. Fairness-aware PAC learning from corrupted data. Journal of Machine Learning Research. 23, 1–60.","short":"N.H. Konstantinov, C. Lampert, Journal of Machine Learning Research 23 (2022) 1–60.","ieee":"N. H. Konstantinov and C. Lampert, “Fairness-aware PAC learning from corrupted data,” <i>Journal of Machine Learning Research</i>, vol. 23. ML Research Press, pp. 1–60, 2022.","apa":"Konstantinov, N. H., &#38; Lampert, C. (2022). Fairness-aware PAC learning from corrupted data. <i>Journal of Machine Learning Research</i>. ML Research Press.","mla":"Konstantinov, Nikola H., and Christoph Lampert. “Fairness-Aware PAC Learning from Corrupted Data.” <i>Journal of Machine Learning Research</i>, vol. 23, ML Research Press, 2022, pp. 1–60.","chicago":"Konstantinov, Nikola H, and Christoph Lampert. “Fairness-Aware PAC Learning from Corrupted Data.” <i>Journal of Machine Learning Research</i>. ML Research Press, 2022."},"day":"01","month":"05","ddc":["004"],"file_date_updated":"2022-07-12T15:08:28Z","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"arxiv":1,"file":[{"date_created":"2022-07-12T15:08:28Z","file_id":"11570","content_type":"application/pdf","checksum":"9cac897b54a0ddf3a553a2c33e88cfda","access_level":"open_access","date_updated":"2022-07-12T15:08:28Z","success":1,"relation":"main_file","creator":"kschuh","file_size":551862,"file_name":"2022_JournalMachineLearningResearch_Konstantinov.pdf"}],"has_accepted_license":"1","article_processing_charge":"No","volume":23},{"author":[{"orcid":"0000-0001-9480-5261","id":"68E56E44-62B0-11EA-B963-444F3DDC885E","first_name":"Roderich","full_name":"Römhild, Roderich","last_name":"Römhild"},{"first_name":"Mark Tobias","id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87","last_name":"Bollenbach","full_name":"Bollenbach, Mark Tobias","orcid":"0000-0003-4398-476X"},{"first_name":"Dan I.","last_name":"Andersson","full_name":"Andersson, Dan I."}],"title":"The physiology and genetics of bacterial responses to antibiotic combinations","_id":"10812","abstract":[{"lang":"eng","text":"Several promising strategies based on combining or cycling different antibiotics have been proposed to increase efficacy and counteract resistance evolution, but we still lack a deep understanding of the physiological responses and genetic mechanisms that underlie antibiotic interactions and the clinical applicability of these strategies. In antibiotic-exposed bacteria, the combined effects of physiological stress responses and emerging resistance mutations (occurring at different time scales) generate complex and often unpredictable dynamics. In this Review, we present our current understanding of bacterial cell physiology and genetics of responses to antibiotics. We emphasize recently discovered mechanisms of synergistic and antagonistic drug interactions, hysteresis in temporal interactions between antibiotics that arise from microbial physiology and interactions between antibiotics and resistance mutations that can cause collateral sensitivity or cross-resistance. We discuss possible connections between the different phenomena and indicate relevant research directions. A better and more unified understanding of drug and genetic interactions is likely to advance antibiotic therapy."}],"doi":"10.1038/s41579-022-00700-5","publication_identifier":{"eissn":["1740-1534"],"issn":["1740-1526"]},"acknowledgement":"The authors thank B. Kavčič and H. Schulenburg for constructive feedback on the manuscript.","status":"public","publication_status":"published","day":"01","citation":{"short":"R. Römhild, M.T. Bollenbach, D.I. Andersson, Nature Reviews Microbiology 20 (2022) 478–490.","ama":"Römhild R, Bollenbach MT, Andersson DI. The physiology and genetics of bacterial responses to antibiotic combinations. <i>Nature Reviews Microbiology</i>. 2022;20:478-490. doi:<a href=\"https://doi.org/10.1038/s41579-022-00700-5\">10.1038/s41579-022-00700-5</a>","ista":"Römhild R, Bollenbach MT, Andersson DI. 2022. The physiology and genetics of bacterial responses to antibiotic combinations. Nature Reviews Microbiology. 20, 478–490.","apa":"Römhild, R., Bollenbach, M. T., &#38; Andersson, D. I. (2022). The physiology and genetics of bacterial responses to antibiotic combinations. <i>Nature Reviews Microbiology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41579-022-00700-5\">https://doi.org/10.1038/s41579-022-00700-5</a>","ieee":"R. Römhild, M. T. Bollenbach, and D. I. Andersson, “The physiology and genetics of bacterial responses to antibiotic combinations,” <i>Nature Reviews Microbiology</i>, vol. 20. Springer Nature, pp. 478–490, 2022.","mla":"Römhild, Roderich, et al. “The Physiology and Genetics of Bacterial Responses to Antibiotic Combinations.” <i>Nature Reviews Microbiology</i>, vol. 20, Springer Nature, 2022, pp. 478–90, doi:<a href=\"https://doi.org/10.1038/s41579-022-00700-5\">10.1038/s41579-022-00700-5</a>.","chicago":"Römhild, Roderich, Mark Tobias Bollenbach, and Dan I. Andersson. “The Physiology and Genetics of Bacterial Responses to Antibiotic Combinations.” <i>Nature Reviews Microbiology</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1038/s41579-022-00700-5\">https://doi.org/10.1038/s41579-022-00700-5</a>."},"pmid":1,"month":"08","oa_version":"None","article_processing_charge":"No","volume":20,"year":"2022","keyword":["General Immunology and Microbiology","Microbiology","Infectious Diseases"],"publication":"Nature Reviews Microbiology","date_updated":"2023-08-02T14:41:44Z","article_type":"review","page":"478-490","department":[{"_id":"CaGu"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"isi":["000763891900001"],"pmid":["35241807"]},"date_published":"2022-08-01T00:00:00Z","scopus_import":"1","date_created":"2022-03-04T04:33:49Z","intvolume":"        20","publisher":"Springer Nature","isi":1,"quality_controlled":"1","type":"journal_article","language":[{"iso":"eng"}]},{"date_updated":"2023-10-17T13:06:28Z","publication":"Nature Catalysis","article_type":"original","page":"193-201","related_material":{"record":[{"id":"9978","relation":"earlier_version","status":"public"}]},"oa":1,"keyword":["Process Chemistry and Technology","Biochemistry","Bioengineering","Catalysis"],"year":"2022","intvolume":"         5","main_file_link":[{"url":"https://doi.org/10.21203/rs.3.rs-750965/v1","open_access":"1"}],"publisher":"Springer Nature","type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"StFr"}],"scopus_import":"1","date_created":"2022-03-04T07:50:10Z","date_published":"2022-03-03T00:00:00Z","external_id":{"isi":["000763879400001"]},"publication_identifier":{"issn":["2520-1158"]},"publication_status":"published","acknowledgement":"This work was financially supported by the National Natural Science Foundation of China (grant nos. 51773092, 21975124, 11874254, 51802187 and U2030206). It was further supported by Fujian science & technology innovation laboratory for energy devices of China (21C-LAB), Key Research Project of Zhejiang Laboratory (grant no. 2021PE0AC02) and the Cultivation Program for the Excellent Doctoral Dissertation of Nanjing Tech University. S.A.F. is indebted to IST Austria for support.","status":"public","_id":"10813","author":[{"full_name":"Cao, Deqing","last_name":"Cao","first_name":"Deqing"},{"first_name":"Xiaoxiao","full_name":"Shen, Xiaoxiao","last_name":"Shen"},{"first_name":"Aiping","full_name":"Wang, Aiping","last_name":"Wang"},{"full_name":"Yu, Fengjiao","last_name":"Yu","first_name":"Fengjiao"},{"last_name":"Wu","full_name":"Wu, Yuping","first_name":"Yuping"},{"first_name":"Siqi","last_name":"Shi","full_name":"Shi, Siqi"},{"orcid":"0000-0003-2902-5319","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","first_name":"Stefan Alexander","full_name":"Freunberger, Stefan Alexander","last_name":"Freunberger"},{"last_name":"Chen","full_name":"Chen, Yuhui","first_name":"Yuhui"}],"title":"Threshold potentials for fast kinetics during mediated redox catalysis of insulators in Li–O2 and Li–S batteries","doi":"10.1038/s41929-022-00752-z","abstract":[{"text":"Redox mediators could catalyse otherwise slow and energy-inefficient cycling of Li–S and Li–O2 batteries by shuttling electrons or holes between the electrode and the solid insulating storage materials. For mediators to work efficiently they need to oxidize the solid with fast kinetics but with the lowest possible overpotential. However, the dependence of kinetics and overpotential is unclear, which hinders informed improvement. Here, we find that when the redox potentials of mediators are tuned via, for example, Li+ concentration in the electrolyte, they exhibit distinct threshold potentials, where the kinetics accelerate several-fold within a range as small as 10 mV. This phenomenon is independent of types of mediator and electrolyte. The acceleration originates from the overpotentials required to activate fast Li+/e− extraction and the following chemical step at specific abundant surface facets. Efficient redox catalysis at insulating solids therefore requires careful consideration of the surface conditions of the storage materials and electrolyte-dependent redox potentials, which may be tuned by salt concentrations or solvents.","lang":"eng"}],"article_processing_charge":"No","volume":5,"month":"03","day":"03","citation":{"mla":"Cao, Deqing, et al. “Threshold Potentials for Fast Kinetics during Mediated Redox Catalysis of Insulators in Li–O2 and Li–S Batteries.” <i>Nature Catalysis</i>, vol. 5, Springer Nature, 2022, pp. 193–201, doi:<a href=\"https://doi.org/10.1038/s41929-022-00752-z\">10.1038/s41929-022-00752-z</a>.","chicago":"Cao, Deqing, Xiaoxiao Shen, Aiping Wang, Fengjiao Yu, Yuping Wu, Siqi Shi, Stefan Alexander Freunberger, and Yuhui Chen. “Threshold Potentials for Fast Kinetics during Mediated Redox Catalysis of Insulators in Li–O2 and Li–S Batteries.” <i>Nature Catalysis</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1038/s41929-022-00752-z\">https://doi.org/10.1038/s41929-022-00752-z</a>.","short":"D. Cao, X. Shen, A. Wang, F. Yu, Y. Wu, S. Shi, S.A. Freunberger, Y. Chen, Nature Catalysis 5 (2022) 193–201.","ista":"Cao D, Shen X, Wang A, Yu F, Wu Y, Shi S, Freunberger SA, Chen Y. 2022. Threshold potentials for fast kinetics during mediated redox catalysis of insulators in Li–O2 and Li–S batteries. Nature Catalysis. 5, 193–201.","ama":"Cao D, Shen X, Wang A, et al. Threshold potentials for fast kinetics during mediated redox catalysis of insulators in Li–O2 and Li–S batteries. <i>Nature Catalysis</i>. 2022;5:193-201. doi:<a href=\"https://doi.org/10.1038/s41929-022-00752-z\">10.1038/s41929-022-00752-z</a>","ieee":"D. Cao <i>et al.</i>, “Threshold potentials for fast kinetics during mediated redox catalysis of insulators in Li–O2 and Li–S batteries,” <i>Nature Catalysis</i>, vol. 5. Springer Nature, pp. 193–201, 2022.","apa":"Cao, D., Shen, X., Wang, A., Yu, F., Wu, Y., Shi, S., … Chen, Y. (2022). Threshold potentials for fast kinetics during mediated redox catalysis of insulators in Li–O2 and Li–S batteries. <i>Nature Catalysis</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41929-022-00752-z\">https://doi.org/10.1038/s41929-022-00752-z</a>"},"oa_version":"Preprint"},{"department":[{"_id":"GaNo"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_published":"2022-01-01T00:00:00Z","external_id":{"pmid":["34661306"],"isi":["000708025800001"]},"date_created":"2022-03-04T08:53:37Z","scopus_import":"1","publisher":"Wiley","intvolume":"        70","isi":1,"type":"journal_article","language":[{"iso":"eng"}],"quality_controlled":"1","oa":1,"year":"2022","keyword":["Cellular and Molecular Neuroscience","Neurology"],"publication":"Glia","date_updated":"2023-09-05T16:01:23Z","page":"173-195","article_type":"original","citation":{"mla":"Basilico, Bernadette, et al. “Microglia Control Glutamatergic Synapses in the Adult Mouse Hippocampus.” <i>Glia</i>, vol. 70, no. 1, Wiley, 2022, pp. 173–95, doi:<a href=\"https://doi.org/10.1002/glia.24101\">10.1002/glia.24101</a>.","chicago":"Basilico, Bernadette, Laura Ferrucci, Patrizia Ratano, Maria T. Golia, Alfonso Grimaldi, Maria Rosito, Valentina Ferretti, et al. “Microglia Control Glutamatergic Synapses in the Adult Mouse Hippocampus.” <i>Glia</i>. Wiley, 2022. <a href=\"https://doi.org/10.1002/glia.24101\">https://doi.org/10.1002/glia.24101</a>.","ama":"Basilico B, Ferrucci L, Ratano P, et al. Microglia control glutamatergic synapses in the adult mouse hippocampus. <i>Glia</i>. 2022;70(1):173-195. doi:<a href=\"https://doi.org/10.1002/glia.24101\">10.1002/glia.24101</a>","ista":"Basilico B, Ferrucci L, Ratano P, Golia MT, Grimaldi A, Rosito M, Ferretti V, Reverte I, Sanchini C, Marrone MC, Giubettini M, De Turris V, Salerno D, Garofalo S, St‐Pierre M, Carrier M, Renzi M, Pagani F, Modi B, Raspa M, Scavizzi F, Gross CT, Marinelli S, Tremblay M, Caprioli D, Maggi L, Limatola C, Di Angelantonio S, Ragozzino D. 2022. Microglia control glutamatergic synapses in the adult mouse hippocampus. Glia. 70(1), 173–195.","short":"B. Basilico, L. Ferrucci, P. Ratano, M.T. Golia, A. Grimaldi, M. Rosito, V. Ferretti, I. Reverte, C. Sanchini, M.C. Marrone, M. Giubettini, V. De Turris, D. Salerno, S. Garofalo, M. St‐Pierre, M. Carrier, M. Renzi, F. Pagani, B. Modi, M. Raspa, F. Scavizzi, C.T. Gross, S. Marinelli, M. Tremblay, D. Caprioli, L. Maggi, C. Limatola, S. Di Angelantonio, D. Ragozzino, Glia 70 (2022) 173–195.","ieee":"B. Basilico <i>et al.</i>, “Microglia control glutamatergic synapses in the adult mouse hippocampus,” <i>Glia</i>, vol. 70, no. 1. Wiley, pp. 173–195, 2022.","apa":"Basilico, B., Ferrucci, L., Ratano, P., Golia, M. T., Grimaldi, A., Rosito, M., … Ragozzino, D. (2022). Microglia control glutamatergic synapses in the adult mouse hippocampus. <i>Glia</i>. Wiley. <a href=\"https://doi.org/10.1002/glia.24101\">https://doi.org/10.1002/glia.24101</a>"},"day":"01","ddc":["570"],"file_date_updated":"2022-03-04T08:55:27Z","month":"01","pmid":1,"license":"https://creativecommons.org/licenses/by-nc/4.0/","oa_version":"Published Version","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)"},"file":[{"file_id":"10819","date_created":"2022-03-04T08:55:27Z","file_name":"2021_Glia_Basilico.pdf","file_size":5340294,"creator":"dernst","relation":"main_file","access_level":"open_access","checksum":"f10a897290e66c0a062e04ba91db6c17","content_type":"application/pdf","success":1,"date_updated":"2022-03-04T08:55:27Z"}],"has_accepted_license":"1","article_processing_charge":"No","volume":70,"title":"Microglia control glutamatergic synapses in the adult mouse hippocampus","author":[{"orcid":"0000-0003-1843-3173","id":"36035796-5ACA-11E9-A75E-7AF2E5697425","first_name":"Bernadette","full_name":"Basilico, Bernadette","last_name":"Basilico"},{"full_name":"Ferrucci, Laura","last_name":"Ferrucci","first_name":"Laura"},{"first_name":"Patrizia","last_name":"Ratano","full_name":"Ratano, Patrizia"},{"last_name":"Golia","full_name":"Golia, Maria T.","first_name":"Maria T."},{"last_name":"Grimaldi","full_name":"Grimaldi, Alfonso","first_name":"Alfonso"},{"last_name":"Rosito","full_name":"Rosito, Maria","first_name":"Maria"},{"last_name":"Ferretti","full_name":"Ferretti, Valentina","first_name":"Valentina"},{"last_name":"Reverte","full_name":"Reverte, Ingrid","first_name":"Ingrid"},{"last_name":"Sanchini","full_name":"Sanchini, Caterina","first_name":"Caterina"},{"full_name":"Marrone, Maria C.","last_name":"Marrone","first_name":"Maria C."},{"first_name":"Maria","full_name":"Giubettini, Maria","last_name":"Giubettini"},{"first_name":"Valeria","last_name":"De Turris","full_name":"De Turris, Valeria"},{"first_name":"Debora","last_name":"Salerno","full_name":"Salerno, Debora"},{"first_name":"Stefano","full_name":"Garofalo, Stefano","last_name":"Garofalo"},{"last_name":"St‐Pierre","full_name":"St‐Pierre, Marie‐Kim","first_name":"Marie‐Kim"},{"first_name":"Micael","last_name":"Carrier","full_name":"Carrier, Micael"},{"first_name":"Massimiliano","full_name":"Renzi, Massimiliano","last_name":"Renzi"},{"last_name":"Pagani","full_name":"Pagani, Francesca","first_name":"Francesca"},{"first_name":"Brijesh","last_name":"Modi","full_name":"Modi, Brijesh"},{"last_name":"Raspa","full_name":"Raspa, Marcello","first_name":"Marcello"},{"first_name":"Ferdinando","last_name":"Scavizzi","full_name":"Scavizzi, Ferdinando"},{"first_name":"Cornelius T.","full_name":"Gross, Cornelius T.","last_name":"Gross"},{"full_name":"Marinelli, Silvia","last_name":"Marinelli","first_name":"Silvia"},{"full_name":"Tremblay, Marie‐Ève","last_name":"Tremblay","first_name":"Marie‐Ève"},{"full_name":"Caprioli, Daniele","last_name":"Caprioli","first_name":"Daniele"},{"first_name":"Laura","last_name":"Maggi","full_name":"Maggi, Laura"},{"full_name":"Limatola, Cristina","last_name":"Limatola","first_name":"Cristina"},{"last_name":"Di Angelantonio","full_name":"Di Angelantonio, Silvia","first_name":"Silvia"},{"first_name":"Davide","last_name":"Ragozzino","full_name":"Ragozzino, Davide"}],"_id":"10818","abstract":[{"lang":"eng","text":"Microglia cells are active players in regulating synaptic development and plasticity in the brain. However, how they influence the normal functioning of synapses is largely unknown. In this study, we characterized the effects of pharmacological microglia depletion, achieved by administration of PLX5622, on hippocampal CA3-CA1 synapses of adult wild type mice. Following microglial depletion, we observed a reduction of spontaneous and evoked glutamatergic activity associated with a decrease of dendritic spine density. We also observed the appearance of immature synaptic features and higher levels of plasticity. Microglia depleted mice showed a deficit in the acquisition of the Novel Object Recognition task. These events were accompanied by hippocampal astrogliosis, although in the absence ofneuroinflammatory condition. PLX-induced synaptic changes were absent in Cx3cr1−/− mice, highlighting the role of CX3CL1/CX3CR1 axis in microglia control of synaptic functioning. Remarkably, microglia repopulation after PLX5622 withdrawal was associated with the recovery of hippocampal synapses and learning functions. Altogether, these data demonstrate that microglia contribute to normal synaptic functioning in the adult brain and that their removal induces reversible changes in organization and activity of glutamatergic synapses."}],"issue":"1","doi":"10.1002/glia.24101","publication_identifier":{"eissn":["1098-1136"],"issn":["0894-1491"]},"acknowledgement":"The work was supported by a grant from MIUR (PRIN 2017HPTFFC_003) to Davide Ragozzino and in part by funds to Silvia Di Angelantonio (CrestOptics-IIT JointLab for Advanced Microscopy) and Daniele Caprioli (Istituto Pasteur-Fondazione Cenci Bolognetti). Bernadette Basilico, and Laura Ferrucci were supported by the PhD program in Clinical-Experimental Neuroscience and Psychiatry, Sapienza University, Rome; Caterina Sanchini was supported by the PhD program in Life Science, Sapienza University, Rome and by the Italian Institute of Technology, Rome. The authors thank Alessandro Felici, Claudia Valeri, Arsenio Armagno, and Senthilkumar Deivasigamani for help with animal husbandry and transgenic colonies management. They also wish to thank Piotr Bregestovski and Michal Schwartz for helpful discussions and criticism. PLX5622 was provided under Materials Transfer Agreement by Plexxikon Inc. (Berkeley, CA). Open Access Funding provided by Universita degli Studi di Roma La Sapienza within the CRUI-CARE Agreement.","publication_status":"published","status":"public"}]