[{"type":"journal_article","language":[{"iso":"eng"}],"abstract":[{"text":"Understanding the factors that have shaped the current distributions and diversity of species is a central and longstanding aim of evolutionary biology. The recent inclusion of genomic data into phylogeographic studies has dramatically improved our understanding in organisms where evolutionary relationships have been challenging to infer. We used whole-genome sequences to study the phylogeography of the intertidal snail Littorina saxatilis, which has successfully colonized and diversified across a broad range of coastal environments in the Northern Hemisphere amid repeated cycles of glaciation. Building on past studies based on short DNA sequences, we used genome-wide data to provide a clearer picture of the relationships among samples spanning most of the species natural range. Our results confirm the trans-Atlantic colonization of North America from Europe, and have allowed us to identify rough locations of glacial refugia and to infer likely routes of colonization within Europe. We also investigated the signals in different datasets to account for the effects of genomic architecture and non-neutral evolution, which provides new insights about diversification of four ecotypes of L. saxatilis (the crab, wave, barnacle, and brackish ecotypes) at different spatial scales. Overall, we provide a much clearer picture of the biogeography of L. saxatilis, providing a foundation for more detailed phylogenomic and demographic studies.","lang":"eng"}],"quality_controlled":"1","status":"public","date_updated":"2024-10-09T21:07:54Z","author":[{"first_name":"Sean","last_name":"Stankowski","id":"43161670-5719-11EA-8025-FABC3DDC885E","full_name":"Stankowski, Sean"},{"first_name":"Zuzanna B","last_name":"Zagrodzka","full_name":"Zagrodzka, Zuzanna B"},{"full_name":"Galindo, Juan","first_name":"Juan","last_name":"Galindo"},{"last_name":"Montaño-Rendón","first_name":"Mauricio","full_name":"Montaño-Rendón, Mauricio"},{"first_name":"Rui","last_name":"Faria","full_name":"Faria, Rui"},{"full_name":"Mikhailova, Natalia","last_name":"Mikhailova","first_name":"Natalia"},{"first_name":"April M H","last_name":"Blakeslee","full_name":"Blakeslee, April M H"},{"full_name":"Arnason, Einar","first_name":"Einar","last_name":"Arnason"},{"first_name":"Thomas","last_name":"Broquet","full_name":"Broquet, Thomas"},{"first_name":"Hernán E","last_name":"Morales","full_name":"Morales, Hernán E"},{"full_name":"Grahame, John W","last_name":"Grahame","first_name":"John W"},{"id":"3C147470-F248-11E8-B48F-1D18A9856A87","full_name":"Westram, Anja M","first_name":"Anja M","last_name":"Westram","orcid":"0000-0003-1050-4969"},{"last_name":"Johannesson","first_name":"Kerstin","full_name":"Johannesson, Kerstin"},{"last_name":"Butlin","first_name":"Roger K","full_name":"Butlin, Roger K"}],"intvolume":"         2","acknowledgement":"Isobel Eyres, Richard Turney, Graciela Sotelo, Jenny Larson, and Stéphane Loisel helped with the collection and processing of samples. Petri Kemppainen kindly provided samples from Trondheim Fjord. Mark Dunning helped with the development of bioinformatic pipelines. The analysis of genomic data was conducted on the University of Sheffield high-performance computing cluster, ShARC. Funding was provided by the Natural Environment Research Council (NERC) and the European Research Council (ERC). J.G. was funded by a Juntas Industriales y Navales (JIN) project (Ministerio de Ciencia, Innovación y Universidades, code RTI2018-101274-J-I00).","article_number":"kzad002","file_date_updated":"2024-01-23T08:10:00Z","publication_status":"published","year":"2023","publication":"Evolutionary Journal of the Linnean Society","date_created":"2024-01-18T07:54:10Z","oa_version":"Published Version","citation":{"mla":"Stankowski, Sean, et al. “Whole-Genome Phylogeography of the Intertidal Snail Littorina Saxatilis.” <i>Evolutionary Journal of the Linnean Society</i>, vol. 2, no. 1, kzad002, Oxford University Press, 2023, doi:<a href=\"https://doi.org/10.1093/evolinnean/kzad002\">10.1093/evolinnean/kzad002</a>.","chicago":"Stankowski, Sean, Zuzanna B Zagrodzka, Juan Galindo, Mauricio Montaño-Rendón, Rui Faria, Natalia Mikhailova, April M H Blakeslee, et al. “Whole-Genome Phylogeography of the Intertidal Snail Littorina Saxatilis.” <i>Evolutionary Journal of the Linnean Society</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/evolinnean/kzad002\">https://doi.org/10.1093/evolinnean/kzad002</a>.","apa":"Stankowski, S., Zagrodzka, Z. B., Galindo, J., Montaño-Rendón, M., Faria, R., Mikhailova, N., … Butlin, R. K. (2023). Whole-genome phylogeography of the intertidal snail Littorina saxatilis. <i>Evolutionary Journal of the Linnean Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/evolinnean/kzad002\">https://doi.org/10.1093/evolinnean/kzad002</a>","short":"S. Stankowski, Z.B. Zagrodzka, J. Galindo, M. Montaño-Rendón, R. Faria, N. Mikhailova, A.M.H. Blakeslee, E. Arnason, T. Broquet, H.E. Morales, J.W. Grahame, A.M. Westram, K. Johannesson, R.K. Butlin, Evolutionary Journal of the Linnean Society 2 (2023).","ista":"Stankowski S, Zagrodzka ZB, Galindo J, Montaño-Rendón M, Faria R, Mikhailova N, Blakeslee AMH, Arnason E, Broquet T, Morales HE, Grahame JW, Westram AM, Johannesson K, Butlin RK. 2023. Whole-genome phylogeography of the intertidal snail Littorina saxatilis. Evolutionary Journal of the Linnean Society. 2(1), kzad002.","ieee":"S. Stankowski <i>et al.</i>, “Whole-genome phylogeography of the intertidal snail Littorina saxatilis,” <i>Evolutionary Journal of the Linnean Society</i>, vol. 2, no. 1. Oxford University Press, 2023.","ama":"Stankowski S, Zagrodzka ZB, Galindo J, et al. Whole-genome phylogeography of the intertidal snail Littorina saxatilis. <i>Evolutionary Journal of the Linnean Society</i>. 2023;2(1). doi:<a href=\"https://doi.org/10.1093/evolinnean/kzad002\">10.1093/evolinnean/kzad002</a>"},"publisher":"Oxford University Press","ddc":["570"],"month":"08","date_published":"2023-08-17T00:00:00Z","license":"https://creativecommons.org/licenses/by-nc/4.0/","_id":"14833","title":"Whole-genome phylogeography of the intertidal snail Littorina saxatilis","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"NiBa"}],"fulldoi":"https://doi.org/10.1093/evolinnean/kzad002","publication_identifier":{"eissn":["2752-938X"]},"day":"17","issue":"1","corr_author":"1","tmp":{"image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)"},"file":[{"access_level":"open_access","success":1,"date_updated":"2024-01-23T08:10:00Z","relation":"main_file","content_type":"application/pdf","date_created":"2024-01-23T08:10:00Z","file_id":"14875","file_name":"2023_EvolJourLinneanSociety_Stankowski.pdf","file_size":3408944,"creator":"dernst","checksum":"ba6f9102d3a9fe6631c4fa398c5e4313"}],"doi":"10.1093/evolinnean/kzad002","oa":1,"has_accepted_license":"1","volume":2,"article_type":"original","article_processing_charge":"Yes"},{"date_published":"2023-05-02T00:00:00Z","month":"05","ddc":["540"],"publisher":"Wiley","oa_version":"Published Version","citation":{"ama":"Becker LM, Berbon M, Vallet A, et al. Der starre Kern und die flexible Oberfläche von Amyloidfibrillen – Magic‐Angle‐Spinning NMR Spektroskopie von aromatischen Resten. <i>Angewandte Chemie</i>. 2023;135(19). doi:<a href=\"https://doi.org/10.1002/ange.202219314\">10.1002/ange.202219314</a>","ieee":"L. M. Becker <i>et al.</i>, “Der starre Kern und die flexible Oberfläche von Amyloidfibrillen – Magic‐Angle‐Spinning NMR Spektroskopie von aromatischen Resten,” <i>Angewandte Chemie</i>, vol. 135, no. 19. Wiley, 2023.","ista":"Becker LM, Berbon M, Vallet A, Grelard A, Morvan E, Bardiaux B, Lichtenecker R, Ernst M, Loquet A, Schanda P. 2023. Der starre Kern und die flexible Oberfläche von Amyloidfibrillen – Magic‐Angle‐Spinning NMR Spektroskopie von aromatischen Resten. Angewandte Chemie. 135(19), e202219314.","apa":"Becker, L. M., Berbon, M., Vallet, A., Grelard, A., Morvan, E., Bardiaux, B., … Schanda, P. (2023). Der starre Kern und die flexible Oberfläche von Amyloidfibrillen – Magic‐Angle‐Spinning NMR Spektroskopie von aromatischen Resten. <i>Angewandte Chemie</i>. Wiley. <a href=\"https://doi.org/10.1002/ange.202219314\">https://doi.org/10.1002/ange.202219314</a>","chicago":"Becker, Lea Marie, Mélanie Berbon, Alicia Vallet, Axelle Grelard, Estelle Morvan, Benjamin Bardiaux, Roman Lichtenecker, Matthias Ernst, Antoine Loquet, and Paul Schanda. “Der starre Kern und die flexible Oberfläche von Amyloidfibrillen – Magic‐Angle‐Spinning NMR Spektroskopie von aromatischen Resten.” <i>Angewandte Chemie</i>. Wiley, 2023. <a href=\"https://doi.org/10.1002/ange.202219314\">https://doi.org/10.1002/ange.202219314</a>.","mla":"Becker, Lea Marie, et al. “Der starre Kern und die flexible Oberfläche von Amyloidfibrillen – Magic‐Angle‐Spinning NMR Spektroskopie von aromatischen Resten.” <i>Angewandte Chemie</i>, vol. 135, no. 19, e202219314, Wiley, 2023, doi:<a href=\"https://doi.org/10.1002/ange.202219314\">10.1002/ange.202219314</a>.","short":"L.M. Becker, M. Berbon, A. Vallet, A. Grelard, E. Morvan, B. Bardiaux, R. Lichtenecker, M. Ernst, A. Loquet, P. Schanda, Angewandte Chemie 135 (2023)."},"publication":"Angewandte Chemie","date_created":"2024-01-18T10:01:01Z","year":"2023","publication_status":"published","file_date_updated":"2024-01-23T08:57:01Z","acknowledgement":"Wir danken Albert A. Smith (Leipzig) für aufschlussreiche Diskussionen. Diese Arbeit wurde mit Mitteln des Europäischen Forschungsrats (StG-2012-311318 an P.S.) unterstützt und nutzte die Plattformen des Grenoble Instruct-ERIC Center (ISBG; UMS 3518 CNRS-CEA-UJF-EMBL) im Rahmen der Grenoble Partnership for Structural Biology (PSB) sowie die Einrichtungen und das Fachwissen der Biophysical and Structural Chemistry Platform (BPCS) am IECB, CNRS UAR3033, INSERM US001 und der Universität Bordeaux.","article_number":"e202219314","intvolume":"       135","author":[{"full_name":"Becker, Lea Marie","id":"36336939-eb97-11eb-a6c2-c83f1214ca79","last_name":"Becker","first_name":"Lea Marie","orcid":"0000-0002-6401-5151"},{"full_name":"Berbon, Mélanie","first_name":"Mélanie","last_name":"Berbon"},{"last_name":"Vallet","first_name":"Alicia","full_name":"Vallet, Alicia"},{"full_name":"Grelard, Axelle","last_name":"Grelard","first_name":"Axelle"},{"first_name":"Estelle","last_name":"Morvan","full_name":"Morvan, Estelle"},{"first_name":"Benjamin","last_name":"Bardiaux","full_name":"Bardiaux, Benjamin"},{"last_name":"Lichtenecker","first_name":"Roman","full_name":"Lichtenecker, Roman"},{"first_name":"Matthias","last_name":"Ernst","full_name":"Ernst, Matthias"},{"last_name":"Loquet","first_name":"Antoine","full_name":"Loquet, Antoine"},{"orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","full_name":"Schanda, Paul","first_name":"Paul","last_name":"Schanda"}],"date_updated":"2024-10-09T21:07:55Z","status":"public","quality_controlled":"1","abstract":[{"text":"Aromatische Seitenketten sind wichtige Indikatoren für die Plastizität von Proteinen und bilden oft entscheidende Kontakte bei Protein‐Protein‐Wechselwirkungen. Wir untersuchten aromatische Reste in den beiden strukturell homologen cross‐β Amyloidfibrillen HET‐s und HELLF mit Hilfe eines spezifischen Ansatzes zur Isotopenmarkierung und Festkörper NMR mit Drehung am magischen Winkel. Das dynamische Verhalten der aromatischen Reste Phe und Tyr deutet darauf hin, dass der hydrophobe Amyloidkern starr ist und keine Anzeichen von “atmenden Bewegungen” auf einer Zeitskala von Hunderten von Millisekunden zeigt. Aromatische Reste, die exponiert an der Fibrillenoberfläche sitzen, haben zwar eine starre Ringachse, weisen aber Ringflips auf verschiedenen Zeitskalen von Nanosekunden bis Mikrosekunden auf. Unser Ansatz bietet einen direkten Einblick in die Bewegungen des hydrophoben Kerns und ermöglicht eine bessere Bewertung der Konformationsheterogenität, die aus einem NMR‐Strukturensemble einer solchen Cross‐β‐Amyloidstruktur hervorgeht.","lang":"ger"}],"language":[{"iso":"ger"}],"type":"journal_article","article_processing_charge":"Yes (in subscription journal)","article_type":"original","volume":135,"has_accepted_license":"1","keyword":["General Medicine"],"doi":"10.1002/ange.202219314","oa":1,"file":[{"content_type":"application/pdf","file_id":"14876","date_created":"2024-01-23T08:57:01Z","file_name":"2023_AngewChem_Becker.pdf","file_size":1004676,"creator":"dernst","checksum":"98e68d370159f7be52a3d7c8a8ee1198","access_level":"open_access","success":1,"relation":"main_file","date_updated":"2024-01-23T08:57:01Z"}],"tmp":{"image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)"},"corr_author":"1","issue":"19","publication_identifier":{"eissn":["1521-3757"],"issn":["0044-8249"]},"day":"02","fulldoi":"https://doi.org/10.1002/ange.202219314","department":[{"_id":"PaSc"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Der starre Kern und die flexible Oberfläche von Amyloidfibrillen – Magic‐Angle‐Spinning NMR Spektroskopie von aromatischen Resten","_id":"14835"},{"month":"11","publisher":"Royal Society of Chemistry","date_published":"2023-11-01T00:00:00Z","editor":[{"last_name":"Hiller","first_name":"Sebastian","full_name":"Hiller, Sebastian"},{"first_name":"Maili","last_name":"Liu","full_name":"Liu, Maili"},{"full_name":"He, Lichun","last_name":"He","first_name":"Lichun"}],"citation":{"ama":"Sučec I, Schanda P. Preparing Chaperone–Client Protein Complexes for Biophysical and Structural Studies. In: Hiller S, Liu M, He L, eds. <i>Biophysics of Molecular Chaperones</i>. Vol 29. Royal Society of Chemistry; 2023:136-161. doi:<a href=\"https://doi.org/10.1039/bk9781839165986-00136\">10.1039/bk9781839165986-00136</a>","ieee":"I. Sučec and P. Schanda, “Preparing Chaperone–Client Protein Complexes for Biophysical and Structural Studies,” in <i>Biophysics of Molecular Chaperones</i>, vol. 29, S. Hiller, M. Liu, and L. He, Eds. Royal Society of Chemistry, 2023, pp. 136–161.","ista":"Sučec I, Schanda P. 2023.Preparing Chaperone–Client Protein Complexes for Biophysical and Structural Studies. In: Biophysics of Molecular Chaperones. New Developments in NMR, vol. 29, 136–161.","apa":"Sučec, I., &#38; Schanda, P. (2023). Preparing Chaperone–Client Protein Complexes for Biophysical and Structural Studies. In S. Hiller, M. Liu, &#38; L. He (Eds.), <i>Biophysics of Molecular Chaperones</i> (Vol. 29, pp. 136–161). Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/bk9781839165986-00136\">https://doi.org/10.1039/bk9781839165986-00136</a>","mla":"Sučec, I., and Paul Schanda. “Preparing Chaperone–Client Protein Complexes for Biophysical and Structural Studies.” <i>Biophysics of Molecular Chaperones</i>, edited by Sebastian Hiller et al., vol. 29, Royal Society of Chemistry, 2023, pp. 136–61, doi:<a href=\"https://doi.org/10.1039/bk9781839165986-00136\">10.1039/bk9781839165986-00136</a>.","chicago":"Sučec, I., and Paul Schanda. “Preparing Chaperone–Client Protein Complexes for Biophysical and Structural Studies.” In <i>Biophysics of Molecular Chaperones</i>, edited by Sebastian Hiller, Maili Liu, and Lichun He, 29:136–61. Royal Society of Chemistry, 2023. <a href=\"https://doi.org/10.1039/bk9781839165986-00136\">https://doi.org/10.1039/bk9781839165986-00136</a>.","short":"I. Sučec, P. Schanda, in:, S. Hiller, M. Liu, L. He (Eds.), Biophysics of Molecular Chaperones, Royal Society of Chemistry, 2023, pp. 136–161."},"oa_version":"Preprint","date_created":"2024-01-22T08:04:57Z","year":"2023","publication":"Biophysics of Molecular Chaperones","publication_status":"published","intvolume":"        29","author":[{"full_name":"Sučec, I.","last_name":"Sučec","first_name":"I."},{"last_name":"Schanda","first_name":"Paul","full_name":"Schanda, Paul","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","orcid":"0000-0002-9350-7606"}],"date_updated":"2024-10-09T21:07:57Z","quality_controlled":"1","status":"public","type":"book_chapter","abstract":[{"lang":"eng","text":"Understanding the mechanisms of chaperones at the atomic level generally requires producing chaperone–client complexes in vitro. This task comes with significant challenges, because one needs to find conditions in which the client protein is presented to the chaperone in a state that binds and at the same time avoid the pitfalls of protein aggregation that are often inherent to such states. The strategy differs significantly for different client proteins and chaperones, but there are common underlying principles. Here, we discuss these principles and deduce the strategies that can be successfully applied for different chaperone–client complexes. We review successful biochemical strategies applied to making the client protein “binding competent” and illustrate the different strategies with examples of recent biophysical and biochemical studies."}],"language":[{"iso":"eng"}],"article_processing_charge":"No","alternative_title":["New Developments in NMR"],"main_file_link":[{"url":"https://doi.org/10.26434/chemrxiv-2023-rpn28","open_access":"1"}],"volume":29,"oa":1,"doi":"10.1039/bk9781839165986-00136","corr_author":"1","day":"01","page":"136-161","publication_identifier":{"isbn":["9781839162824"],"eisbn":["9781839165993"]},"department":[{"_id":"PaSc"}],"fulldoi":"https://doi.org/10.1039/bk9781839165986-00136","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14847","title":"Preparing Chaperone–Client Protein Complexes for Biophysical and Structural Studies"},{"_id":"14848","type":"book_chapter","language":[{"iso":"eng"}],"title":"Probing Single Chaperone Substrates","abstract":[{"text":"Regulating protein states is considered the core function of chaperones. However, despite their importance to all major cellular processes, the conformational changes that chaperones impart on polypeptide chains are difficult to study directly due to their heterogeneous, dynamic, and multi-step nature. Here, we review recent advances towards this aim using single-molecule manipulation methods, which are rapidly revealing new mechanisms of conformational control and helping to define a different perspective on the chaperone function.","lang":"eng"}],"quality_controlled":"1","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"MiSi"}],"fulldoi":"https://doi.org/10.1039/bk9781839165986-00278","date_updated":"2024-01-23T12:01:53Z","author":[{"full_name":"Wruck, F.","first_name":"F.","last_name":"Wruck"},{"orcid":"0000-0001-6406-524X","last_name":"Avellaneda Sarrió","first_name":"Mario","full_name":"Avellaneda Sarrió, Mario","id":"DC4BA84C-56E6-11EA-AD5D-348C3DDC885E"},{"full_name":"Naqvi, M. M.","last_name":"Naqvi","first_name":"M. M."},{"full_name":"Koers, E. J.","last_name":"Koers","first_name":"E. J."},{"full_name":"Till, K.","first_name":"K.","last_name":"Till"},{"full_name":"Gross, L.","first_name":"L.","last_name":"Gross"},{"full_name":"Moayed, F.","last_name":"Moayed","first_name":"F."},{"last_name":"Roland","first_name":"A.","full_name":"Roland, A."},{"first_name":"L. W. H. J.","last_name":"Heling","full_name":"Heling, L. W. H. J."},{"last_name":"Mashaghi","first_name":"A.","full_name":"Mashaghi, A."},{"full_name":"Tans, S. J.","last_name":"Tans","first_name":"S. J."}],"publication_identifier":{"eisbn":["9781839165993"],"isbn":["9781839162824"]},"day":"01","page":"278-318","intvolume":"        29","doi":"10.1039/bk9781839165986-00278","publication_status":"published","publication":"Biophysics of Molecular Chaperones","date_created":"2024-01-22T08:07:02Z","year":"2023","volume":29,"editor":[{"first_name":"Sebastian","last_name":"Hiller","full_name":"Hiller, Sebastian"},{"full_name":"Liu, Maili","last_name":"Liu","first_name":"Maili"},{"full_name":"He, Lichun","last_name":"He","first_name":"Lichun"}],"oa_version":"None","citation":{"short":"F. Wruck, M. Avellaneda Sarrió, M.M. Naqvi, E.J. Koers, K. Till, L. Gross, F. Moayed, A. Roland, L.W.H.J. Heling, A. Mashaghi, S.J. Tans, in:, S. Hiller, M. Liu, L. He (Eds.), Biophysics of Molecular Chaperones, Royal Society of Chemistry, 2023, pp. 278–318.","apa":"Wruck, F., Avellaneda Sarrió, M., Naqvi, M. M., Koers, E. J., Till, K., Gross, L., … Tans, S. J. (2023). Probing Single Chaperone Substrates. In S. Hiller, M. Liu, &#38; L. He (Eds.), <i>Biophysics of Molecular Chaperones</i> (Vol. 29, pp. 278–318). Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/bk9781839165986-00278\">https://doi.org/10.1039/bk9781839165986-00278</a>","chicago":"Wruck, F., Mario Avellaneda Sarrió, M. M. Naqvi, E. J. Koers, K. Till, L. Gross, F. Moayed, et al. “Probing Single Chaperone Substrates.” In <i>Biophysics of Molecular Chaperones</i>, edited by Sebastian Hiller, Maili Liu, and Lichun He, 29:278–318. Royal Society of Chemistry, 2023. <a href=\"https://doi.org/10.1039/bk9781839165986-00278\">https://doi.org/10.1039/bk9781839165986-00278</a>.","mla":"Wruck, F., et al. “Probing Single Chaperone Substrates.” <i>Biophysics of Molecular Chaperones</i>, edited by Sebastian Hiller et al., vol. 29, Royal Society of Chemistry, 2023, pp. 278–318, doi:<a href=\"https://doi.org/10.1039/bk9781839165986-00278\">10.1039/bk9781839165986-00278</a>.","ama":"Wruck F, Avellaneda Sarrió M, Naqvi MM, et al. Probing Single Chaperone Substrates. In: Hiller S, Liu M, He L, eds. <i>Biophysics of Molecular Chaperones</i>. Vol 29. Royal Society of Chemistry; 2023:278-318. doi:<a href=\"https://doi.org/10.1039/bk9781839165986-00278\">10.1039/bk9781839165986-00278</a>","ieee":"F. Wruck <i>et al.</i>, “Probing Single Chaperone Substrates,” in <i>Biophysics of Molecular Chaperones</i>, vol. 29, S. Hiller, M. Liu, and L. He, Eds. Royal Society of Chemistry, 2023, pp. 278–318.","ista":"Wruck F, Avellaneda Sarrió M, Naqvi MM, Koers EJ, Till K, Gross L, Moayed F, Roland A, Heling LWHJ, Mashaghi A, Tans SJ. 2023.Probing Single Chaperone Substrates. In: Biophysics of Molecular Chaperones. New Developments in NMR, vol. 29, 278–318."},"publisher":"Royal Society of Chemistry","month":"11","date_published":"2023-11-01T00:00:00Z","alternative_title":["New Developments in NMR"],"article_processing_charge":"No"},{"arxiv":1,"publication_identifier":{"issn":["0091-1798"]},"page":"2192-2242","day":"01","department":[{"_id":"LaEr"}],"fulldoi":"https://doi.org/10.1214/23-aop1643","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","ec_funded":1,"_id":"14849","title":"On the rightmost eigenvalue of non-Hermitian random matrices","article_type":"original","external_id":{"isi":["001112165000004"],"arxiv":["2206.04448"]},"article_processing_charge":"No","volume":51,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2206.04448"}],"project":[{"_id":"62796744-2b32-11ec-9570-940b20777f1d","grant_number":"101020331","name":"Random matrices beyond Wigner-Dyson-Mehta","call_identifier":"H2020"}],"doi":"10.1214/23-aop1643","oa":1,"keyword":["Statistics","Probability and Uncertainty","Statistics and Probability"],"issue":"6","corr_author":"1","author":[{"full_name":"Cipolloni, Giorgio","id":"42198EFA-F248-11E8-B48F-1D18A9856A87","last_name":"Cipolloni","first_name":"Giorgio","orcid":"0000-0002-4901-7992"},{"orcid":"0000-0001-5366-9603","first_name":"László","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","full_name":"Erdös, László"},{"last_name":"Schröder","first_name":"Dominik J","full_name":"Schröder, Dominik J","id":"408ED176-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2904-1856"},{"full_name":"Xu, Yuanyuan","first_name":"Yuanyuan","last_name":"Xu"}],"scopus_import":"1","date_updated":"2025-09-09T14:23:34Z","quality_controlled":"1","status":"public","type":"journal_article","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"We establish a precise three-term asymptotic expansion, with an optimal estimate of the error term, for the rightmost eigenvalue of an n×n random matrix with independent identically distributed complex entries as n tends to infinity. All terms in the expansion are universal."}],"publisher":"Institute of Mathematical Statistics","month":"11","date_published":"2023-11-01T00:00:00Z","citation":{"ieee":"G. Cipolloni, L. Erdös, D. J. Schröder, and Y. Xu, “On the rightmost eigenvalue of non-Hermitian random matrices,” <i>The Annals of Probability</i>, vol. 51, no. 6. Institute of Mathematical Statistics, pp. 2192–2242, 2023.","ista":"Cipolloni G, Erdös L, Schröder DJ, Xu Y. 2023. On the rightmost eigenvalue of non-Hermitian random matrices. The Annals of Probability. 51(6), 2192–2242.","ama":"Cipolloni G, Erdös L, Schröder DJ, Xu Y. On the rightmost eigenvalue of non-Hermitian random matrices. <i>The Annals of Probability</i>. 2023;51(6):2192-2242. doi:<a href=\"https://doi.org/10.1214/23-aop1643\">10.1214/23-aop1643</a>","mla":"Cipolloni, Giorgio, et al. “On the Rightmost Eigenvalue of Non-Hermitian Random Matrices.” <i>The Annals of Probability</i>, vol. 51, no. 6, Institute of Mathematical Statistics, 2023, pp. 2192–242, doi:<a href=\"https://doi.org/10.1214/23-aop1643\">10.1214/23-aop1643</a>.","chicago":"Cipolloni, Giorgio, László Erdös, Dominik J Schröder, and Yuanyuan Xu. “On the Rightmost Eigenvalue of Non-Hermitian Random Matrices.” <i>The Annals of Probability</i>. Institute of Mathematical Statistics, 2023. <a href=\"https://doi.org/10.1214/23-aop1643\">https://doi.org/10.1214/23-aop1643</a>.","apa":"Cipolloni, G., Erdös, L., Schröder, D. J., &#38; Xu, Y. (2023). On the rightmost eigenvalue of non-Hermitian random matrices. <i>The Annals of Probability</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/23-aop1643\">https://doi.org/10.1214/23-aop1643</a>","short":"G. Cipolloni, L. Erdös, D.J. Schröder, Y. Xu, The Annals of Probability 51 (2023) 2192–2242."},"oa_version":"Preprint","publication_status":"published","year":"2023","date_created":"2024-01-22T08:08:41Z","publication":"The Annals of Probability","intvolume":"        51","isi":1,"acknowledgement":"The second and the fourth author were supported by the ERC Advanced Grant\r\n“RMTBeyond” No. 101020331. The third author was supported by Dr. Max Rössler, the\r\nWalter Haefner Foundation and the ETH Zürich Foundation."},{"author":[{"last_name":"Haerter","first_name":"Jan O.","full_name":"Haerter, Jan O."},{"last_name":"Muller","first_name":"Caroline J","full_name":"Muller, Caroline J","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","orcid":"0000-0001-5836-5350"}],"page":"179-193","publication_identifier":{"issn":["2328-8779"],"eisbn":["9781119700357"],"isbn":["9781119700319"]},"day":"15","department":[{"_id":"CaMu"}],"fulldoi":"https://doi.org/10.1002/9781119700357.ch8","date_updated":"2024-10-09T21:07:59Z","status":"public","quality_controlled":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14853","type":"book_chapter","title":"Mechanisms for the Self‐Organization of Tropical Deep Convection","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Organization – or departure from a random pattern – in tropical deep convection is heavily studied due to its immediate relevance to climate sensitivity and extremes. Low-latitude convection has motivated numerical model idealizations, where the Coriolis force is removed and boundary conditions are simplified spatially and temporally. One of the most stunning aspects of such idealized simulated cloud organization is the spontaneous clumping of convection that can occur without any predetermining external perturbation, such as inhomogeneous surface boundary conditions or large-scale waves. Whereas individual convective rain cells measure only few kilometers in horizontal diameter, the clusters they form can often span hundreds or even thousands of kilometers. Hence, organization may emerge from the very small scales but can show effects at the synoptic scale. We refer to such emergent organization as convective self-organization. Convective self-organization thus features characteristics of emergence, such as non-trivial system-scale pattern formation or hysteresis. We summarize observational evidence for large-scale organization and briefly recap classical idealized modeling studies that yield convective self-aggregation – emergent organization under strongly idealized boundary conditions. We then focus on developing research, where temporal variation, such as the diurnal cycle, or two-way interactive surface properties yield distinct organizational modes. Convectively generated cold pools and mesoscale convective systems, both ubiquitous in nature, are thereby found to potentially play key roles in promoting – rather than suppressing – sustained system-scale organization."}],"publisher":"Wiley","month":"12","alternative_title":["Geophysical Monograph Series"],"date_published":"2023-12-15T00:00:00Z","article_processing_charge":"No","editor":[{"full_name":"Sullivan, Sylvia","last_name":"Sullivan","first_name":"Sylvia"},{"first_name":"Corinna","last_name":"Hoose","full_name":"Hoose, Corinna"}],"oa_version":"None","citation":{"short":"J.O. Haerter, C.J. Muller, in:, S. Sullivan, C. Hoose (Eds.), Clouds and Their Climatic Impacts, Wiley, 2023, pp. 179–193.","chicago":"Haerter, Jan O., and Caroline J Muller. “Mechanisms for the Self‐Organization of Tropical Deep Convection.” In <i>Clouds and Their Climatic Impacts</i>, edited by Sylvia Sullivan and Corinna Hoose, 179–93. Wiley, 2023. <a href=\"https://doi.org/10.1002/9781119700357.ch8\">https://doi.org/10.1002/9781119700357.ch8</a>.","mla":"Haerter, Jan O., and Caroline J. Muller. “Mechanisms for the Self‐Organization of Tropical Deep Convection.” <i>Clouds and Their Climatic Impacts</i>, edited by Sylvia Sullivan and Corinna Hoose, Wiley, 2023, pp. 179–93, doi:<a href=\"https://doi.org/10.1002/9781119700357.ch8\">10.1002/9781119700357.ch8</a>.","apa":"Haerter, J. O., &#38; Muller, C. J. (2023). Mechanisms for the Self‐Organization of Tropical Deep Convection. In S. Sullivan &#38; C. Hoose (Eds.), <i>Clouds and Their Climatic Impacts</i> (pp. 179–193). Wiley. <a href=\"https://doi.org/10.1002/9781119700357.ch8\">https://doi.org/10.1002/9781119700357.ch8</a>","ieee":"J. O. Haerter and C. J. Muller, “Mechanisms for the Self‐Organization of Tropical Deep Convection,” in <i>Clouds and Their Climatic Impacts</i>, S. Sullivan and C. Hoose, Eds. Wiley, 2023, pp. 179–193.","ista":"Haerter JO, Muller CJ. 2023.Mechanisms for the Self‐Organization of Tropical Deep Convection. In: Clouds and Their Climatic Impacts. Geophysical Monograph Series, , 179–193.","ama":"Haerter JO, Muller CJ. Mechanisms for the Self‐Organization of Tropical Deep Convection. In: Sullivan S, Hoose C, eds. <i>Clouds and Their Climatic Impacts</i>. Wiley; 2023:179-193. doi:<a href=\"https://doi.org/10.1002/9781119700357.ch8\">10.1002/9781119700357.ch8</a>"},"doi":"10.1002/9781119700357.ch8","publication_status":"published","date_created":"2024-01-22T08:23:16Z","publication":"Clouds and Their Climatic Impacts","year":"2023","corr_author":"1"},{"page":"973-1008","day":"15","arxiv":1,"publication_identifier":{"issn":["2578-5893"],"eissn":["2578-5885"]},"fulldoi":"https://doi.org/10.2140/paa.2023.5.973","department":[{"_id":"RoSe"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Ubiquity of bound states for the strongly coupled polaron","_id":"14854","article_processing_charge":"No","external_id":{"arxiv":["2211.03606"]},"article_type":"original","volume":5,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2211.03606"}],"doi":"10.2140/paa.2023.5.973","oa":1,"keyword":["General Medicine"],"corr_author":"1","issue":"4","author":[{"last_name":"Mitrouskas","first_name":"David Johannes","full_name":"Mitrouskas, David Johannes","id":"cbddacee-2b11-11eb-a02e-a2e14d04e52d"},{"full_name":"Seiringer, Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","first_name":"Robert","orcid":"0000-0002-6781-0521"}],"scopus_import":"1","OA_type":"green","date_updated":"2025-04-23T14:21:39Z","quality_controlled":"1","status":"public","language":[{"iso":"eng"}],"abstract":[{"text":"We study the spectrum of the Fröhlich Hamiltonian for the polaron at fixed total momentum. We prove the existence of excited eigenvalues between the ground state energy and the essential spectrum at strong coupling. In fact, our main result shows that the number of excited energy bands diverges in the strong coupling limit. To prove this we derive upper bounds for the min-max values of the corresponding fiber Hamiltonians and compare them with the bottom of the essential spectrum, a lower bound on which was recently obtained by Brooks and Seiringer (Comm. Math. Phys. 404:1 (2023), 287–337). The upper bounds are given in terms of the ground state energy band shifted by momentum-independent excitation energies determined by an effective Hamiltonian of Bogoliubov type.","lang":"eng"}],"OA_place":"repository","type":"journal_article","date_published":"2023-12-15T00:00:00Z","publisher":"Mathematical Sciences Publishers","month":"12","citation":{"ama":"Mitrouskas DJ, Seiringer R. Ubiquity of bound states for the strongly coupled polaron. <i>Pure and Applied Analysis</i>. 2023;5(4):973-1008. doi:<a href=\"https://doi.org/10.2140/paa.2023.5.973\">10.2140/paa.2023.5.973</a>","ieee":"D. J. Mitrouskas and R. Seiringer, “Ubiquity of bound states for the strongly coupled polaron,” <i>Pure and Applied Analysis</i>, vol. 5, no. 4. Mathematical Sciences Publishers, pp. 973–1008, 2023.","ista":"Mitrouskas DJ, Seiringer R. 2023. Ubiquity of bound states for the strongly coupled polaron. Pure and Applied Analysis. 5(4), 973–1008.","short":"D.J. Mitrouskas, R. Seiringer, Pure and Applied Analysis 5 (2023) 973–1008.","apa":"Mitrouskas, D. J., &#38; Seiringer, R. (2023). Ubiquity of bound states for the strongly coupled polaron. <i>Pure and Applied Analysis</i>. Mathematical Sciences Publishers. <a href=\"https://doi.org/10.2140/paa.2023.5.973\">https://doi.org/10.2140/paa.2023.5.973</a>","chicago":"Mitrouskas, David Johannes, and Robert Seiringer. “Ubiquity of Bound States for the Strongly Coupled Polaron.” <i>Pure and Applied Analysis</i>. Mathematical Sciences Publishers, 2023. <a href=\"https://doi.org/10.2140/paa.2023.5.973\">https://doi.org/10.2140/paa.2023.5.973</a>.","mla":"Mitrouskas, David Johannes, and Robert Seiringer. “Ubiquity of Bound States for the Strongly Coupled Polaron.” <i>Pure and Applied Analysis</i>, vol. 5, no. 4, Mathematical Sciences Publishers, 2023, pp. 973–1008, doi:<a href=\"https://doi.org/10.2140/paa.2023.5.973\">10.2140/paa.2023.5.973</a>."},"oa_version":"Preprint","publication_status":"published","date_created":"2024-01-22T08:24:23Z","year":"2023","publication":"Pure and Applied Analysis","intvolume":"         5"},{"volume":62,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/anie.202304138"}],"article_processing_charge":"No","issue":"19","corr_author":"1","oa":1,"doi":"10.1002/anie.202304138","keyword":["General Chemistry","Catalysis"],"department":[{"_id":"PaSc"}],"fulldoi":"https://doi.org/10.1002/anie.202304138","day":"02","publication_identifier":{"eissn":["1521-3773"],"issn":["1433-7851"]},"_id":"14861","title":"Cover Picture: The rigid core and flexible surface of amyloid fibrils probed by Magic‐Angle‐Spinning NMR spectroscopy of aromatic residues","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Becker LM, Berbon M, Vallet A, Grelard A, Morvan E, Bardiaux B, Lichtenecker R, Ernst M, Loquet A, Schanda P. 2023. Cover Picture: The rigid core and flexible surface of amyloid fibrils probed by Magic‐Angle‐Spinning NMR spectroscopy of aromatic residues, Wiley,p.","ieee":"L. M. Becker <i>et al.</i>, <i>Cover Picture: The rigid core and flexible surface of amyloid fibrils probed by Magic‐Angle‐Spinning NMR spectroscopy of aromatic residues</i>, vol. 62, no. 19. Wiley, 2023.","ama":"Becker LM, Berbon M, Vallet A, et al. <i>Cover Picture: The Rigid Core and Flexible Surface of Amyloid Fibrils Probed by Magic‐Angle‐Spinning NMR Spectroscopy of Aromatic Residues</i>. Vol 62. Wiley; 2023. doi:<a href=\"https://doi.org/10.1002/anie.202304138\">10.1002/anie.202304138</a>","short":"L.M. Becker, M. Berbon, A. Vallet, A. Grelard, E. Morvan, B. Bardiaux, R. Lichtenecker, M. Ernst, A. Loquet, P. Schanda, Cover Picture: The Rigid Core and Flexible Surface of Amyloid Fibrils Probed by Magic‐Angle‐Spinning NMR Spectroscopy of Aromatic Residues, Wiley, 2023.","mla":"Becker, Lea Marie, et al. “Cover Picture: The Rigid Core and Flexible Surface of Amyloid Fibrils Probed by Magic‐Angle‐Spinning NMR Spectroscopy of Aromatic Residues.” <i>Angewandte Chemie International Edition</i>, vol. 62, no. 19, e202304138, Wiley, 2023, doi:<a href=\"https://doi.org/10.1002/anie.202304138\">10.1002/anie.202304138</a>.","chicago":"Becker, Lea Marie, Mélanie Berbon, Alicia Vallet, Axelle Grelard, Estelle Morvan, Benjamin Bardiaux, Roman Lichtenecker, Matthias Ernst, Antoine Loquet, and Paul Schanda. <i>Cover Picture: The Rigid Core and Flexible Surface of Amyloid Fibrils Probed by Magic‐Angle‐Spinning NMR Spectroscopy of Aromatic Residues</i>. <i>Angewandte Chemie International Edition</i>. Vol. 62. Wiley, 2023. <a href=\"https://doi.org/10.1002/anie.202304138\">https://doi.org/10.1002/anie.202304138</a>.","apa":"Becker, L. M., Berbon, M., Vallet, A., Grelard, A., Morvan, E., Bardiaux, B., … Schanda, P. (2023). <i>Cover Picture: The rigid core and flexible surface of amyloid fibrils probed by Magic‐Angle‐Spinning NMR spectroscopy of aromatic residues</i>. <i>Angewandte Chemie International Edition</i> (Vol. 62). Wiley. <a href=\"https://doi.org/10.1002/anie.202304138\">https://doi.org/10.1002/anie.202304138</a>"},"oa_version":"Published Version","publisher":"Wiley","month":"05","ddc":["540"],"date_published":"2023-05-02T00:00:00Z","intvolume":"        62","article_number":" e202304138","publication_status":"published","year":"2023","publication":"Angewandte Chemie International Edition","date_created":"2024-01-22T11:54:34Z","date_updated":"2026-06-18T17:41:09Z","author":[{"first_name":"Lea Marie","last_name":"Becker","id":"36336939-eb97-11eb-a6c2-c83f1214ca79","full_name":"Becker, Lea Marie","orcid":"0000-0002-6401-5151"},{"full_name":"Berbon, Mélanie","last_name":"Berbon","first_name":"Mélanie"},{"last_name":"Vallet","first_name":"Alicia","full_name":"Vallet, Alicia"},{"full_name":"Grelard, Axelle","last_name":"Grelard","first_name":"Axelle"},{"full_name":"Morvan, Estelle","first_name":"Estelle","last_name":"Morvan"},{"full_name":"Bardiaux, Benjamin","first_name":"Benjamin","last_name":"Bardiaux"},{"full_name":"Lichtenecker, Roman","first_name":"Roman","last_name":"Lichtenecker"},{"first_name":"Matthias","last_name":"Ernst","full_name":"Ernst, Matthias"},{"last_name":"Loquet","first_name":"Antoine","full_name":"Loquet, Antoine"},{"orcid":"0000-0002-9350-7606","first_name":"Paul","last_name":"Schanda","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","full_name":"Schanda, Paul"}],"type":"other_academic_publication","language":[{"iso":"eng"}],"related_material":{"link":[{"relation":"translation","url":"https://doi.org/10.1002/ange.202304138"}],"record":[{"status":"public","id":"12675","relation":"other"}]},"abstract":[{"lang":"eng","text":"Cover Page"}],"status":"public"},{"article_processing_charge":"No","has_accepted_license":"1","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"file":[{"checksum":"8d6ddbb359e584b156f991f00196d86b","creator":"dernst","file_name":"2023_EGU_Stoellner.pdf","file_size":419736,"date_created":"2024-01-23T13:00:26Z","file_id":"14880","content_type":"application/pdf","date_updated":"2024-01-23T13:00:26Z","relation":"main_file","success":1,"access_level":"open_access"}],"doi":"10.5194/egusphere-egu23-6166","project":[{"_id":"0aa60e99-070f-11eb-9043-a6de6bdc3afa","name":"Tribocharge: a multi-scale approach to an enduring problem in physics","grant_number":"949120","call_identifier":"H2020"}],"oa":1,"conference":{"end_date":"2023-04-28","start_date":"2023-04-23","location":"Vienna, Austria & Virtual","name":"EGU General Assembly"},"corr_author":"1","day":"23","department":[{"_id":"CaMu"},{"_id":"ScWa"}],"fulldoi":"https://doi.org/10.5194/egusphere-egu23-6166","ec_funded":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14864","title":"Measuring spontaneous charging of single aerosol particles","publisher":"European Geosciences Union","month":"04","ddc":["530"],"date_published":"2023-04-23T00:00:00Z","oa_version":"Published Version","citation":{"mla":"Stöllner, Andrea, et al. “Measuring Spontaneous Charging of Single Aerosol Particles.” <i>EGU General Assembly 2023</i>, 6166, European Geosciences Union, 2023, doi:<a href=\"https://doi.org/10.5194/egusphere-egu23-6166\">10.5194/egusphere-egu23-6166</a>.","chicago":"Stöllner, Andrea, Isaac C Lenton, Caroline J Muller, and Scott R Waitukaitis. “Measuring Spontaneous Charging of Single Aerosol Particles.” In <i>EGU General Assembly 2023</i>. European Geosciences Union, 2023. <a href=\"https://doi.org/10.5194/egusphere-egu23-6166\">https://doi.org/10.5194/egusphere-egu23-6166</a>.","apa":"Stöllner, A., Lenton, I. C., Muller, C. J., &#38; Waitukaitis, S. R. (2023). Measuring spontaneous charging of single aerosol particles. In <i>EGU General Assembly 2023</i>. Vienna, Austria &#38; Virtual: European Geosciences Union. <a href=\"https://doi.org/10.5194/egusphere-egu23-6166\">https://doi.org/10.5194/egusphere-egu23-6166</a>","short":"A. Stöllner, I.C. Lenton, C.J. Muller, S.R. Waitukaitis, in:, EGU General Assembly 2023, European Geosciences Union, 2023.","ista":"Stöllner A, Lenton IC, Muller CJ, Waitukaitis SR. 2023. Measuring spontaneous charging of single aerosol particles. EGU General Assembly 2023. EGU General Assembly, 6166.","ieee":"A. Stöllner, I. C. Lenton, C. J. Muller, and S. R. Waitukaitis, “Measuring spontaneous charging of single aerosol particles,” in <i>EGU General Assembly 2023</i>, Vienna, Austria &#38; Virtual, 2023.","ama":"Stöllner A, Lenton IC, Muller CJ, Waitukaitis SR. Measuring spontaneous charging of single aerosol particles. In: <i>EGU General Assembly 2023</i>. European Geosciences Union; 2023. doi:<a href=\"https://doi.org/10.5194/egusphere-egu23-6166\">10.5194/egusphere-egu23-6166</a>"},"publication_status":"published","publication":"EGU General Assembly 2023","date_created":"2024-01-22T12:09:07Z","year":"2023","article_number":"6166","acknowledgement":"This project has received funding from the European Research Council (ERC) under the European Union’s Starting Grant (No. 949120).","file_date_updated":"2024-01-23T13:00:26Z","author":[{"id":"4bdcf7f6-eb97-11eb-a6c2-9981bbdc3bed","full_name":"Stöllner, Andrea","first_name":"Andrea","last_name":"Stöllner","orcid":"0000-0002-0464-8440"},{"last_name":"Lenton","first_name":"Isaac C","full_name":"Lenton, Isaac C","id":"a550210f-223c-11ec-8182-e2d45e817efb","orcid":"0000-0002-5010-6984"},{"first_name":"Caroline J","last_name":"Muller","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","full_name":"Muller, Caroline J","orcid":"0000-0001-5836-5350"},{"orcid":"0000-0002-2299-3176","full_name":"Waitukaitis, Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","last_name":"Waitukaitis","first_name":"Scott R"}],"date_updated":"2025-04-14T07:54:10Z","status":"public","type":"conference_abstract","language":[{"iso":"eng"}]},{"citation":{"short":"Y.-L. Hwong, M. Colin, P. Aglas, C.J. Muller, S. Sherwood, in:, EGU General Assembly 2023, European Geosciences Union, 2023.","chicago":"Hwong, Yi-Ling, Maxime Colin, Philipp Aglas, Caroline J Muller, and Steven Sherwood. “Evaluating Memory Properties in Convection Schemes Using Idealised Tests.” In <i>EGU General Assembly 2023</i>. European Geosciences Union, 2023. <a href=\"https://doi.org/10.5194/egusphere-egu23-4968\">https://doi.org/10.5194/egusphere-egu23-4968</a>.","mla":"Hwong, Yi-Ling, et al. “Evaluating Memory Properties in Convection Schemes Using Idealised Tests.” <i>EGU General Assembly 2023</i>, EGU23-4968, European Geosciences Union, 2023, doi:<a href=\"https://doi.org/10.5194/egusphere-egu23-4968\">10.5194/egusphere-egu23-4968</a>.","apa":"Hwong, Y.-L., Colin, M., Aglas, P., Muller, C. J., &#38; Sherwood, S. (2023). Evaluating memory properties in convection schemes using idealised tests. In <i>EGU General Assembly 2023</i>. Vienna, Austria &#38; Virtual: European Geosciences Union. <a href=\"https://doi.org/10.5194/egusphere-egu23-4968\">https://doi.org/10.5194/egusphere-egu23-4968</a>","ieee":"Y.-L. Hwong, M. Colin, P. Aglas, C. J. Muller, and S. Sherwood, “Evaluating memory properties in convection schemes using idealised tests,” in <i>EGU General Assembly 2023</i>, Vienna, Austria &#38; Virtual, 2023.","ista":"Hwong Y-L, Colin M, Aglas P, Muller CJ, Sherwood S. 2023. Evaluating memory properties in convection schemes using idealised tests. EGU General Assembly 2023. EGU General Assembly, EGU23-4968.","ama":"Hwong Y-L, Colin M, Aglas P, Muller CJ, Sherwood S. Evaluating memory properties in convection schemes using idealised tests. In: <i>EGU General Assembly 2023</i>. European Geosciences Union; 2023. doi:<a href=\"https://doi.org/10.5194/egusphere-egu23-4968\">10.5194/egusphere-egu23-4968</a>"},"oa_version":"Published Version","date_published":"2023-04-23T00:00:00Z","publisher":"European Geosciences Union","ddc":["550"],"month":"04","file_date_updated":"2024-02-05T08:48:41Z","article_number":"EGU23-4968","publication_status":"published","publication":"EGU General Assembly 2023","year":"2023","date_created":"2024-01-22T12:10:32Z","date_updated":"2024-10-09T21:08:04Z","author":[{"last_name":"Hwong","first_name":"Yi-Ling","full_name":"Hwong, Yi-Ling","id":"1217aa61-4dd1-11ec-9ac3-f2ba3f17ee22","orcid":"0000-0001-9281-3479"},{"full_name":"Colin, Maxime","last_name":"Colin","first_name":"Maxime"},{"full_name":"Aglas, Philipp","id":"02eace56-97fc-11ee-b81a-f0939ca85a77","last_name":"Aglas","first_name":"Philipp"},{"last_name":"Muller","first_name":"Caroline J","full_name":"Muller, Caroline J","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","orcid":"0000-0001-5836-5350"},{"full_name":"Sherwood, Steven","first_name":"Steven","last_name":"Sherwood"}],"language":[{"iso":"eng"}],"type":"conference_abstract","status":"public","has_accepted_license":"1","article_processing_charge":"No","corr_author":"1","conference":{"location":"Vienna, Austria & Virtual","start_date":"2023-04-23","name":"EGU General Assembly","end_date":"2023-04-28"},"doi":"10.5194/egusphere-egu23-4968","oa":1,"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"file":[{"creator":"dernst","checksum":"628a27caff437855ab320be46b9e8dcc","file_name":"2023_EGU_Hwong.pdf","file_size":317541,"file_id":"14936","date_created":"2024-02-05T08:48:41Z","content_type":"application/pdf","date_updated":"2024-02-05T08:48:41Z","relation":"main_file","success":1,"access_level":"open_access"}],"fulldoi":"https://doi.org/10.5194/egusphere-egu23-4968","department":[{"_id":"CaMu"}],"day":"23","title":"Evaluating memory properties in convection schemes using idealised tests","_id":"14865","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"citation":{"short":"S. Abramian, C.J. Muller, C. Risi, in:, EGU General Assembly 2023, European Geosciences Union, 2023.","mla":"Abramian, Sophie, et al. “Extreme Precipitation in Tropical Squall Lines.” <i>EGU General Assembly 2023</i>, EGU23-15870, European Geosciences Union, 2023, doi:<a href=\"https://doi.org/10.5194/egusphere-egu23-15870\">10.5194/egusphere-egu23-15870</a>.","chicago":"Abramian, Sophie, Caroline J Muller, and Camille Risi. “Extreme Precipitation in Tropical Squall Lines.” In <i>EGU General Assembly 2023</i>. European Geosciences Union, 2023. <a href=\"https://doi.org/10.5194/egusphere-egu23-15870\">https://doi.org/10.5194/egusphere-egu23-15870</a>.","apa":"Abramian, S., Muller, C. J., &#38; Risi, C. (2023). Extreme precipitation in tropical squall lines. In <i>EGU General Assembly 2023</i>. Vienna, Austria &#38; Virtual: European Geosciences Union. <a href=\"https://doi.org/10.5194/egusphere-egu23-15870\">https://doi.org/10.5194/egusphere-egu23-15870</a>","ieee":"S. Abramian, C. J. Muller, and C. Risi, “Extreme precipitation in tropical squall lines,” in <i>EGU General Assembly 2023</i>, Vienna, Austria &#38; Virtual, 2023.","ista":"Abramian S, Muller CJ, Risi C. 2023. Extreme precipitation in tropical squall lines. EGU General Assembly 2023. EGU General Assembly, EGU23-15870.","ama":"Abramian S, Muller CJ, Risi C. Extreme precipitation in tropical squall lines. In: <i>EGU General Assembly 2023</i>. European Geosciences Union; 2023. doi:<a href=\"https://doi.org/10.5194/egusphere-egu23-15870\">10.5194/egusphere-egu23-15870</a>"},"oa_version":"Published Version","date_published":"2023-04-23T00:00:00Z","publisher":"European Geosciences Union","month":"04","ddc":["550"],"file_date_updated":"2024-02-05T08:10:43Z","article_number":"EGU23-15870","publication_status":"published","date_created":"2024-01-22T12:10:52Z","year":"2023","publication":"EGU General Assembly 2023","date_updated":"2024-10-09T21:08:04Z","author":[{"full_name":"Abramian, Sophie","last_name":"Abramian","first_name":"Sophie"},{"orcid":"0000-0001-5836-5350","last_name":"Muller","first_name":"Caroline J","full_name":"Muller, Caroline J","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b"},{"last_name":"Risi","first_name":"Camille","full_name":"Risi, Camille"}],"language":[{"iso":"eng"}],"type":"conference_abstract","status":"public","has_accepted_license":"1","article_processing_charge":"No","corr_author":"1","conference":{"name":"EGU General Assembly","start_date":"2023-04-23","location":"Vienna, Austria & Virtual","end_date":"2023-04-28"},"doi":"10.5194/egusphere-egu23-15870","oa":1,"file":[{"content_type":"application/pdf","date_created":"2024-02-05T08:10:43Z","file_id":"14935","file_name":"2023_EGU_Abramian.pdf","file_size":294690,"creator":"dernst","checksum":"8cd5bb8bf3d48ceefb395b6875819147","access_level":"open_access","success":1,"date_updated":"2024-02-05T08:10:43Z","relation":"main_file"}],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"fulldoi":"https://doi.org/10.5194/egusphere-egu23-15870","department":[{"_id":"CaMu"}],"day":"23","title":"Extreme precipitation in tropical squall lines","_id":"14866","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","date_published":"2023-09-01T00:00:00Z","ddc":["510"],"month":"09","publisher":"Masaryk University Press","citation":{"short":"M. Anastos, in:, Proceedings of the 12th European Conference on Combinatorics, Graph Theory and Applications, Masaryk University Press, 2023, pp. 36–41.","chicago":"Anastos, Michael. “Constructing Hamilton Cycles and Perfect Matchings Efficiently.” In <i>Proceedings of the 12th European Conference on Combinatorics, Graph Theory and Applications</i>, 36–41. Masaryk University Press, 2023. <a href=\"https://doi.org/10.5817/cz.muni.eurocomb23-005\">https://doi.org/10.5817/cz.muni.eurocomb23-005</a>.","mla":"Anastos, Michael. “Constructing Hamilton Cycles and Perfect Matchings Efficiently.” <i>Proceedings of the 12th European Conference on Combinatorics, Graph Theory and Applications</i>, Masaryk University Press, 2023, pp. 36–41, doi:<a href=\"https://doi.org/10.5817/cz.muni.eurocomb23-005\">10.5817/cz.muni.eurocomb23-005</a>.","apa":"Anastos, M. (2023). Constructing Hamilton cycles and perfect matchings efficiently. In <i>Proceedings of the 12th European Conference on Combinatorics, Graph Theory and Applications</i> (pp. 36–41). Prague, Czech Republic: Masaryk University Press. <a href=\"https://doi.org/10.5817/cz.muni.eurocomb23-005\">https://doi.org/10.5817/cz.muni.eurocomb23-005</a>","ista":"Anastos M. 2023. Constructing Hamilton cycles and perfect matchings efficiently. Proceedings of the 12th European Conference on Combinatorics, Graph Theory and Applications. EUROCOMB: European Conference on Combinatorics, Graph Theory and Applications, 36–41.","ieee":"M. Anastos, “Constructing Hamilton cycles and perfect matchings efficiently,” in <i>Proceedings of the 12th European Conference on Combinatorics, Graph Theory and Applications</i>, Prague, Czech Republic, 2023, pp. 36–41.","ama":"Anastos M. Constructing Hamilton cycles and perfect matchings efficiently. In: <i>Proceedings of the 12th European Conference on Combinatorics, Graph Theory and Applications</i>. Masaryk University Press; 2023:36-41. doi:<a href=\"https://doi.org/10.5817/cz.muni.eurocomb23-005\">10.5817/cz.muni.eurocomb23-005</a>"},"oa_version":"Published Version","year":"2023","publication":"Proceedings of the 12th European Conference on Combinatorics, Graph Theory and Applications","date_created":"2024-01-22T12:20:15Z","publication_status":"published","file_date_updated":"2024-01-24T09:34:43Z","acknowledgement":"This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 101034413.\r\n","isi":1,"author":[{"id":"0b2a4358-bb35-11ec-b7b9-e3279b593dbb","full_name":"Anastos, Michael","first_name":"Michael","last_name":"Anastos"}],"date_updated":"2025-09-09T14:24:21Z","quality_controlled":"1","status":"public","abstract":[{"lang":"eng","text":"<jats:p>Starting with the empty graph on $[n]$, at each round, a set of $K=K(n)$ edges is presented chosen uniformly at random from the ones that have not been presented yet. We are then asked to choose at most one of the presented edges and add it to the current graph. Our goal is to construct a Hamiltonian graph with $(1+o(1))n$ edges within as few rounds as possible. We show that in this process, one can build a Hamiltonian graph of size $(1+o(1))n$ in $(1+o(1))(1+(\\log n)/2K) n$ rounds w.h.p. The case $K=1$ implies that w.h.p. one can build a Hamiltonian graph by choosing $(1+o(1))n$ edges in an online fashion as they appear along the first $(0.5+o(1))n\\log n$ rounds of the random graph process. This answers a question of Frieze, Krivelevich and Michaeli. Observe that the number of rounds is asymptotically optimal as the first $0.5n\\log n$ edges do not span a Hamilton cycle w.h.p. The case $K=\\Theta(\\log n)$ implies that the Hamiltonicity threshold of the corresponding Achlioptas process is at most $(1+o(1))(1+(\\log n)/2K) n$. This matches the $(1-o(1))(1+(\\log n)/2K) n$ lower bound due to Krivelevich, Lubetzky and Sudakov and resolves the problem of determining the Hamiltonicity threshold of the Achlioptas process with $K=\\Theta(\\log n)$. We also show that in the above process one can construct a graph $G$ that spans a matching of size $\\lfloor V(G)/2) \\rfloor$ and $(0.5+o(1))n$ edges within $(1+o(1))(0.5+(\\log n)/2K) n$ rounds w.h.p. Our proof relies on a robust Hamiltonicity property of the strong $4$-core of the binomial random graph which we use as a black-box. This property allows it to absorb paths covering vertices outside the strong $4$-core into a cycle.</jats:p>"}],"language":[{"iso":"eng"}],"type":"conference","article_processing_charge":"No","external_id":{"arxiv":["2209.09860"],"isi":["001448447300005"]},"has_accepted_license":"1","oa":1,"project":[{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413","name":"IST-BRIDGE: International postdoctoral program","call_identifier":"H2020"}],"doi":"10.5817/cz.muni.eurocomb23-005","tmp":{"short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"file":[{"content_type":"application/pdf","file_id":"14881","date_created":"2024-01-24T09:34:43Z","file_size":464230,"file_name":"2023_Eurocomb_Anastos.pdf","checksum":"fb1d9a1e7389d90ec0e5e76934373cf8","creator":"dernst","access_level":"open_access","success":1,"relation":"main_file","date_updated":"2024-01-24T09:34:43Z"}],"corr_author":"1","conference":{"end_date":"2023-09-01","start_date":"2023-08-28","location":"Prague, Czech Republic","name":"EUROCOMB: European Conference on Combinatorics, Graph Theory and Applications"},"page":"36-41","publication_identifier":{"eissn":["2788-3116"]},"arxiv":1,"day":"01","fulldoi":"https://doi.org/10.5817/cz.muni.eurocomb23-005","department":[{"_id":"MaKw"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","ec_funded":1,"title":"Constructing Hamilton cycles and perfect matchings efficiently","_id":"14867"},{"day":"23","author":[{"first_name":"Swati","last_name":"Tyagi","full_name":"Tyagi, Swati"},{"last_name":"Capitanio","first_name":"Juliana S.","full_name":"Capitanio, Juliana S."},{"last_name":"Xu","first_name":"Jiawei","full_name":"Xu, Jiawei"},{"last_name":"Chen","first_name":"Fei","full_name":"Chen, Fei"},{"full_name":"Sharma, Rahul","first_name":"Rahul","last_name":"Sharma"},{"first_name":"Jialiang","last_name":"Huang","full_name":"Huang, Jialiang"},{"orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","full_name":"HETZER, Martin W","first_name":"Martin W","last_name":"HETZER"}],"department":[{"_id":"MaHe"}],"date_updated":"2024-07-31T11:56:25Z","fulldoi":"https://doi.org/10.7554/elife.87462","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","_id":"14868","abstract":[{"text":"The role of nuclear pore complexes (NPCs) in genome organization remains poorly characterized due to technical limitations in probing genome-wide protein-DNA interactions specific to the nuclear periphery. Here, we developed a new sensitive method, NPC-DamID, which combines in vitro reconstitution of nuclear import and DamID technology. The fixation-free method identifies chromatin interactions at the NPCs in intact nuclei from cells and tissues. We found that NPCs are preferentially associated with common and hierarchically arranged super-enhancers (SEs) across multiple cell types. We also uncovered phase-separated condensates at NPCs that compartmentalize and concentrate transcriptional coactivators and structural proteins at SE-regulated genes. Our results support NPCs as anchoring sites for SE regulatory hubs and cell-type-specific transcriptional control.","lang":"eng"}],"language":[{"iso":"eng"}],"title":"High-precision mapping of nuclear pore-chromatin interactions reveals new principles of genome organization at the nuclear envelope","article_type":"original","month":"06","publisher":"eLife Sciences Publications","date_published":"2023-06-23T00:00:00Z","article_processing_charge":"Yes","main_file_link":[{"open_access":"1","url":"https://doi.org/10.7554/eLife.87462.1"}],"citation":{"short":"S. Tyagi, J.S. Capitanio, J. Xu, F. Chen, R. Sharma, J. Huang, M. Hetzer, ELife (2023).","mla":"Tyagi, Swati, et al. “High-Precision Mapping of Nuclear Pore-Chromatin Interactions Reveals New Principles of Genome Organization at the Nuclear Envelope.” <i>ELife</i>, eLife Sciences Publications, 2023, doi:<a href=\"https://doi.org/10.7554/elife.87462\">10.7554/elife.87462</a>.","chicago":"Tyagi, Swati, Juliana S. Capitanio, Jiawei Xu, Fei Chen, Rahul Sharma, Jialiang Huang, and Martin Hetzer. “High-Precision Mapping of Nuclear Pore-Chromatin Interactions Reveals New Principles of Genome Organization at the Nuclear Envelope.” <i>ELife</i>. eLife Sciences Publications, 2023. <a href=\"https://doi.org/10.7554/elife.87462\">https://doi.org/10.7554/elife.87462</a>.","apa":"Tyagi, S., Capitanio, J. S., Xu, J., Chen, F., Sharma, R., Huang, J., &#38; Hetzer, M. (2023). High-precision mapping of nuclear pore-chromatin interactions reveals new principles of genome organization at the nuclear envelope. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/elife.87462\">https://doi.org/10.7554/elife.87462</a>","ista":"Tyagi S, Capitanio JS, Xu J, Chen F, Sharma R, Huang J, Hetzer M. 2023. High-precision mapping of nuclear pore-chromatin interactions reveals new principles of genome organization at the nuclear envelope. eLife.","ieee":"S. Tyagi <i>et al.</i>, “High-precision mapping of nuclear pore-chromatin interactions reveals new principles of genome organization at the nuclear envelope,” <i>eLife</i>. eLife Sciences Publications, 2023.","ama":"Tyagi S, Capitanio JS, Xu J, et al. High-precision mapping of nuclear pore-chromatin interactions reveals new principles of genome organization at the nuclear envelope. <i>eLife</i>. 2023. doi:<a href=\"https://doi.org/10.7554/elife.87462\">10.7554/elife.87462</a>"},"oa_version":"Submitted Version","year":"2023","date_created":"2024-01-22T12:21:56Z","publication":"eLife","publication_status":"epub_ahead","oa":1,"doi":"10.7554/elife.87462","acknowledgement":"This work was supported by M.H.’s NIH R01 grants (NS096786, GM126829) and Salk Cancer Center Support Grant P30 CA014195. M.H. also received financial support from the W.M. Keck Foundation and the NOMIS Foundation. Further, M.H. received support from the AHA-Allen Initiative in Brain Health and Cognitive Impairment award made jointly through the American Heart Association and The Paul G. Allen Frontiers Group (19PABH134610000).\r\n\r\nS.T. and J.C. were supported by Salk’s Women & Science Awards. S.T. also received financial support from the Hewitt Foundation fellowship, and J.C. is a Paul F. Glenn Biology of Aging fellow. J.H. was supported by the National Natural Science Foundation of China (31871317 and 32070635).\r\n\r\nWe thank Roberta Schulte for assistance with in vitro transport assays, for comments that greatly improved the manuscript, and for helping refine the figures presented in this work. We thank Shefali Krishna for creating the diagram for the NPC-DamID method, for her input on super-resolution microscopy analysis, and her insightful comments on this manuscript. We thank all members of the Hetzer lab for helpful discussions of these research ideas and their thoughtful comments on this manuscript. We are also grateful to Salk’s core facilities for their assistance. Specifically, we thank the Next Generation Sequencing Core (NGS) for sequencing our DamID and RNA NGS libraries, the Advanced Biophotonics Core for assistance with super-resolution microscopy, and the Razavi Newman Integrative Genomics and Bioinformatics Core (IGC) for their input on analysis methods for DamID experiments.","corr_author":"1"},{"department":[{"_id":"JoFi"}],"fulldoi":"https://doi.org/10.1364/ls.2023.lm1f.3","date_updated":"2024-10-09T21:07:59Z","author":[{"orcid":"0000-0001-6264-2162","id":"47D26E34-F248-11E8-B48F-1D18A9856A87","full_name":"Sahu, Rishabh","first_name":"Rishabh","last_name":"Sahu"},{"last_name":"Qiu","first_name":"Liu","full_name":"Qiu, Liu"},{"id":"29705398-F248-11E8-B48F-1D18A9856A87","full_name":"Hease, William J","first_name":"William J","last_name":"Hease","orcid":"0000-0001-9868-2166"},{"orcid":"0000-0003-1397-7876","last_name":"Arnold","first_name":"Georg M","full_name":"Arnold, Georg M","id":"3770C838-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Minoguchi, Yuri","first_name":"Yuri","last_name":"Minoguchi"},{"first_name":"Peter","last_name":"Rabl","full_name":"Rabl, Peter"},{"full_name":"Fink, Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","last_name":"Fink","first_name":"Johannes M","orcid":"0000-0001-8112-028X"}],"day":"01","publication_identifier":{"isbn":["9781957171296"]},"_id":"14872","type":"conference","language":[{"iso":"eng"}],"title":"Entangling microwaves and telecom wavelength light","abstract":[{"text":"We entangled microwave and optical photons for the first time as verified by a measured two-mode vacuum squeezing of 0.7 dB. This electro-optic entanglement is the key resource needed to connect cryogenic quantum circuits.","lang":"eng"}],"quality_controlled":"1","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ieee":"R. Sahu <i>et al.</i>, “Entangling microwaves and telecom wavelength light,” in <i>Frontiers in Optics + Laser Science 2023</i>, Tacoma, WA, United States, 2023.","ista":"Sahu R, Qiu L, Hease WJ, Arnold GM, Minoguchi Y, Rabl P, Fink JM. 2023. Entangling microwaves and telecom wavelength light. Frontiers in Optics + Laser Science 2023. Laser Science, LM1F.3.","ama":"Sahu R, Qiu L, Hease WJ, et al. Entangling microwaves and telecom wavelength light. In: <i>Frontiers in Optics + Laser Science 2023</i>. Optica Publishing Group; 2023. doi:<a href=\"https://doi.org/10.1364/ls.2023.lm1f.3\">10.1364/ls.2023.lm1f.3</a>","short":"R. Sahu, L. Qiu, W.J. Hease, G.M. Arnold, Y. Minoguchi, P. Rabl, J.M. Fink, in:, Frontiers in Optics + Laser Science 2023, Optica Publishing Group, 2023.","mla":"Sahu, Rishabh, et al. “Entangling Microwaves and Telecom Wavelength Light.” <i>Frontiers in Optics + Laser Science 2023</i>, LM1F.3, Optica Publishing Group, 2023, doi:<a href=\"https://doi.org/10.1364/ls.2023.lm1f.3\">10.1364/ls.2023.lm1f.3</a>.","chicago":"Sahu, Rishabh, Liu Qiu, William J Hease, Georg M Arnold, Yuri Minoguchi, Peter Rabl, and Johannes M Fink. “Entangling Microwaves and Telecom Wavelength Light.” In <i>Frontiers in Optics + Laser Science 2023</i>. Optica Publishing Group, 2023. <a href=\"https://doi.org/10.1364/ls.2023.lm1f.3\">https://doi.org/10.1364/ls.2023.lm1f.3</a>.","apa":"Sahu, R., Qiu, L., Hease, W. J., Arnold, G. M., Minoguchi, Y., Rabl, P., &#38; Fink, J. M. (2023). Entangling microwaves and telecom wavelength light. In <i>Frontiers in Optics + Laser Science 2023</i>. Tacoma, WA, United States: Optica Publishing Group. <a href=\"https://doi.org/10.1364/ls.2023.lm1f.3\">https://doi.org/10.1364/ls.2023.lm1f.3</a>"},"oa_version":"None","publisher":"Optica Publishing Group","month":"10","article_processing_charge":"No","date_published":"2023-10-01T00:00:00Z","article_number":"LM1F.3","conference":{"location":"Tacoma, WA, United States","start_date":"2023-10-09","name":"Laser Science","end_date":"2023-10-12"},"corr_author":"1","publication_status":"published","doi":"10.1364/ls.2023.lm1f.3","publication":"Frontiers in Optics + Laser Science 2023","year":"2023","date_created":"2024-01-22T12:29:41Z"},{"file":[{"access_level":"open_access","success":1,"relation":"main_file","date_updated":"2024-02-05T10:19:35Z","content_type":"application/pdf","file_id":"14940","date_created":"2024-02-05T10:19:35Z","file_size":917076,"file_name":"2023_TheoretiCS_Banerjee.pdf","creator":"dernst","checksum":"2972d531122a6f15727b396110fb3f5c"}],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"project":[{"_id":"62781420-2b32-11ec-9570-8d9b63373d4d","name":"Vigilant Algorithmic Monitoring of Software","grant_number":"101020093","call_identifier":"H2020"}],"doi":"10.46298/theoretics.23.4","oa":1,"corr_author":"1","article_type":"original","external_id":{"arxiv":["2202.07480"]},"article_processing_charge":"Yes","volume":2,"has_accepted_license":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ec_funded":1,"_id":"14920","title":"Fast symbolic algorithms for mega-regular games under strong transition fairness","day":"24","arxiv":1,"publication_identifier":{"issn":["2751-4838"]},"department":[{"_id":"ToHe"}],"fulldoi":"https://doi.org/10.46298/theoretics.23.4","year":"2023","publication":"TheoretiCS","date_created":"2024-01-31T13:40:49Z","publication_status":"published","acknowledgement":"A previous version of this paper has appeared in TACAS 2022. Authors ordered alphabetically. T. Banerjee was interning with MPI-SWS when this research was conducted. R. Majumdar and A.-K. Schmuck are partially supported by DFG project 389792660 TRR 248–CPEC. A.-K. Schmuck is additionally funded through DFG project (SCHM 3541/1-1). K. Mallik is supported by the ERC project ERC-2020-AdG 101020093.","article_number":"4","intvolume":"         2","file_date_updated":"2024-02-05T10:19:35Z","ddc":["000"],"month":"02","publisher":"EPI Sciences","date_published":"2023-02-24T00:00:00Z","oa_version":"Published Version","citation":{"ieee":"T. Banerjee, R. Majumdar, K. Mallik, A.-K. Schmuck, and S. Soudjani, “Fast symbolic algorithms for mega-regular games under strong transition fairness,” <i>TheoretiCS</i>, vol. 2. EPI Sciences, 2023.","ista":"Banerjee T, Majumdar R, Mallik K, Schmuck A-K, Soudjani S. 2023. Fast symbolic algorithms for mega-regular games under strong transition fairness. TheoretiCS. 2, 4.","ama":"Banerjee T, Majumdar R, Mallik K, Schmuck A-K, Soudjani S. Fast symbolic algorithms for mega-regular games under strong transition fairness. <i>TheoretiCS</i>. 2023;2. doi:<a href=\"https://doi.org/10.46298/theoretics.23.4\">10.46298/theoretics.23.4</a>","chicago":"Banerjee, Tamajit, Rupak Majumdar, Kaushik Mallik, Anne-Kathrin Schmuck, and Sadegh Soudjani. “Fast Symbolic Algorithms for Mega-Regular Games under Strong Transition Fairness.” <i>TheoretiCS</i>. EPI Sciences, 2023. <a href=\"https://doi.org/10.46298/theoretics.23.4\">https://doi.org/10.46298/theoretics.23.4</a>.","mla":"Banerjee, Tamajit, et al. “Fast Symbolic Algorithms for Mega-Regular Games under Strong Transition Fairness.” <i>TheoretiCS</i>, vol. 2, 4, EPI Sciences, 2023, doi:<a href=\"https://doi.org/10.46298/theoretics.23.4\">10.46298/theoretics.23.4</a>.","apa":"Banerjee, T., Majumdar, R., Mallik, K., Schmuck, A.-K., &#38; Soudjani, S. (2023). Fast symbolic algorithms for mega-regular games under strong transition fairness. <i>TheoretiCS</i>. EPI Sciences. <a href=\"https://doi.org/10.46298/theoretics.23.4\">https://doi.org/10.46298/theoretics.23.4</a>","short":"T. Banerjee, R. Majumdar, K. Mallik, A.-K. Schmuck, S. Soudjani, TheoretiCS 2 (2023)."},"quality_controlled":"1","status":"public","type":"journal_article","abstract":[{"text":"We consider fixpoint algorithms for two-player games on graphs with $\\omega$-regular winning conditions, where the environment is constrained by a strong transition fairness assumption. Strong transition fairness is a widely occurring special case of strong fairness, which requires that any execution is strongly fair with respect to a specified set of live edges: whenever the\r\nsource vertex of a live edge is visited infinitely often along a play, the edge itself is traversed infinitely often along the play as well. We show that, surprisingly, strong transition fairness retains the algorithmic characteristics of the fixpoint algorithms for $\\omega$-regular games -- the new algorithms have the same alternation depth as the classical algorithms but invoke a new type of predecessor operator. For Rabin games with $k$ pairs, the complexity of the new algorithm is $O(n^{k+2}k!)$ symbolic steps, which is independent of the number of live edges in the strong transition fairness assumption. Further, we show that GR(1) specifications with strong transition fairness assumptions can be solved with a 3-nested fixpoint algorithm, same as the usual algorithm. In contrast, strong fairness necessarily requires increasing the alternation depth depending on the number of fairness assumptions. We get symbolic algorithms for (generalized) Rabin, parity and GR(1) objectives under strong transition fairness assumptions as well as a direct symbolic algorithm for qualitative winning in stochastic\r\n$\\omega$-regular games that runs in $O(n^{k+2}k!)$ symbolic steps, improving the state of the art. Finally, we have implemented a BDD-based synthesis engine based on our algorithm. We show on a set of synthetic and real benchmarks that our algorithm is scalable, parallelizable, and outperforms previous algorithms by orders of magnitude.","lang":"eng"}],"language":[{"iso":"eng"}],"author":[{"last_name":"Banerjee","first_name":"Tamajit","full_name":"Banerjee, Tamajit"},{"first_name":"Rupak","last_name":"Majumdar","full_name":"Majumdar, Rupak"},{"last_name":"Mallik","first_name":"Kaushik","full_name":"Mallik, Kaushik","id":"0834ff3c-6d72-11ec-94e0-b5b0a4fb8598","orcid":"0000-0001-9864-7475"},{"last_name":"Schmuck","first_name":"Anne-Kathrin","full_name":"Schmuck, Anne-Kathrin"},{"first_name":"Sadegh","last_name":"Soudjani","full_name":"Soudjani, Sadegh"}],"date_updated":"2025-04-14T07:55:57Z"},{"corr_author":"1","conference":{"name":"ISIT: International Symposium on Information Theory","location":"Taipei, Taiwan","start_date":"2023-06-25","end_date":"2023-06-30"},"oa":1,"doi":"10.1109/isit54713.2023.10206671","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2302.03306"}],"article_processing_charge":"No","external_id":{"arxiv":["2302.03306"]},"title":"Mismatched estimation of non-symmetric rank-one matrices corrupted by structured noise","_id":"14923","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.1109/isit54713.2023.10206671","department":[{"_id":"MaMo"}],"publication_identifier":{"isbn":["9781665475549"],"eissn":["2157-8117"]},"arxiv":1,"page":"1178-1183","day":"30","date_created":"2024-02-02T11:20:39Z","publication":"Proceedings of 2023 IEEE International Symposium on Information Theory","year":"2023","publication_status":"published","citation":{"ama":"Fu T, Liu Y, Barbier J, Mondelli M, Liang S, Hou T. Mismatched estimation of non-symmetric rank-one matrices corrupted by structured noise. In: <i>Proceedings of 2023 IEEE International Symposium on Information Theory</i>. IEEE; 2023:1178-1183. doi:<a href=\"https://doi.org/10.1109/isit54713.2023.10206671\">10.1109/isit54713.2023.10206671</a>","ieee":"T. Fu, Y. Liu, J. Barbier, M. Mondelli, S. Liang, and T. Hou, “Mismatched estimation of non-symmetric rank-one matrices corrupted by structured noise,” in <i>Proceedings of 2023 IEEE International Symposium on Information Theory</i>, Taipei, Taiwan, 2023, pp. 1178–1183.","ista":"Fu T, Liu Y, Barbier J, Mondelli M, Liang S, Hou T. 2023. Mismatched estimation of non-symmetric rank-one matrices corrupted by structured noise. Proceedings of 2023 IEEE International Symposium on Information Theory. ISIT: International Symposium on Information Theory, 1178–1183.","apa":"Fu, T., Liu, Y., Barbier, J., Mondelli, M., Liang, S., &#38; Hou, T. (2023). Mismatched estimation of non-symmetric rank-one matrices corrupted by structured noise. In <i>Proceedings of 2023 IEEE International Symposium on Information Theory</i> (pp. 1178–1183). Taipei, Taiwan: IEEE. <a href=\"https://doi.org/10.1109/isit54713.2023.10206671\">https://doi.org/10.1109/isit54713.2023.10206671</a>","mla":"Fu, Teng, et al. “Mismatched Estimation of Non-Symmetric Rank-One Matrices Corrupted by Structured Noise.” <i>Proceedings of 2023 IEEE International Symposium on Information Theory</i>, IEEE, 2023, pp. 1178–83, doi:<a href=\"https://doi.org/10.1109/isit54713.2023.10206671\">10.1109/isit54713.2023.10206671</a>.","chicago":"Fu, Teng, YuHao Liu, Jean Barbier, Marco Mondelli, ShanSuo Liang, and TianQi Hou. “Mismatched Estimation of Non-Symmetric Rank-One Matrices Corrupted by Structured Noise.” In <i>Proceedings of 2023 IEEE International Symposium on Information Theory</i>, 1178–83. IEEE, 2023. <a href=\"https://doi.org/10.1109/isit54713.2023.10206671\">https://doi.org/10.1109/isit54713.2023.10206671</a>.","short":"T. Fu, Y. Liu, J. Barbier, M. Mondelli, S. Liang, T. Hou, in:, Proceedings of 2023 IEEE International Symposium on Information Theory, IEEE, 2023, pp. 1178–1183."},"oa_version":"Preprint","date_published":"2023-06-30T00:00:00Z","month":"06","publisher":"IEEE","abstract":[{"lang":"eng","text":"We study the performance of a Bayesian statistician who estimates a rank-one signal corrupted by non-symmetric rotationally invariant noise with a generic distribution of singular values. As the signal-to-noise ratio and the noise structure are unknown, a Gaussian setup is incorrectly assumed. We derive the exact analytic expression for the error of the mismatched Bayes estimator and also provide the analysis of an approximate message passing (AMP) algorithm. The first result exploits the asymptotic behavior of spherical integrals for rectangular matrices and of low-rank matrix perturbations; the second one relies on the design and analysis of an auxiliary AMP. The numerical experiments show that there is a performance gap between the AMP and Bayes estimators, which is due to the incorrect estimation of the signal norm."}],"language":[{"iso":"eng"}],"type":"conference","status":"public","quality_controlled":"1","date_updated":"2025-07-10T11:51:04Z","scopus_import":"1","author":[{"last_name":"Fu","first_name":"Teng","full_name":"Fu, Teng"},{"last_name":"Liu","first_name":"YuHao","full_name":"Liu, YuHao"},{"first_name":"Jean","last_name":"Barbier","full_name":"Barbier, Jean"},{"id":"27EB676C-8706-11E9-9510-7717E6697425","full_name":"Mondelli, Marco","first_name":"Marco","last_name":"Mondelli","orcid":"0000-0002-3242-7020"},{"last_name":"Liang","first_name":"ShanSuo","full_name":"Liang, ShanSuo"},{"full_name":"Hou, TianQi","last_name":"Hou","first_name":"TianQi"}]},{"acknowledgement":"D. Wu and M. Mondelli are partially supported by the 2019 Lopez-Loreta Prize. V. Kungurtsev was supported by the OP VVV project CZ.02.1.01/0.0/0.0/16_019/0000765 \"Research Center for Informatics\".","year":"2023","date_created":"2024-02-02T11:21:56Z","publication":"Transactions on Machine Learning Research","publication_status":"published","oa_version":"Published Version","citation":{"ama":"Wu D, Kungurtsev V, Mondelli M. Mean-field analysis for heavy ball methods: Dropout-stability, connectivity, and global convergence. In: <i>Transactions on Machine Learning Research</i>. ML Research Press; 2023.","ieee":"D. Wu, V. Kungurtsev, and M. Mondelli, “Mean-field analysis for heavy ball methods: Dropout-stability, connectivity, and global convergence,” in <i>Transactions on Machine Learning Research</i>, 2023.","ista":"Wu D, Kungurtsev V, Mondelli M. 2023. Mean-field analysis for heavy ball methods: Dropout-stability, connectivity, and global convergence. Transactions on Machine Learning Research. , TMLR, .","apa":"Wu, D., Kungurtsev, V., &#38; Mondelli, M. (2023). Mean-field analysis for heavy ball methods: Dropout-stability, connectivity, and global convergence. In <i>Transactions on Machine Learning Research</i>. ML Research Press.","mla":"Wu, Diyuan, et al. “Mean-Field Analysis for Heavy Ball Methods: Dropout-Stability, Connectivity, and Global Convergence.” <i>Transactions on Machine Learning Research</i>, ML Research Press, 2023.","chicago":"Wu, Diyuan, Vyacheslav Kungurtsev, and Marco Mondelli. “Mean-Field Analysis for Heavy Ball Methods: Dropout-Stability, Connectivity, and Global Convergence.” In <i>Transactions on Machine Learning Research</i>. ML Research Press, 2023.","short":"D. Wu, V. Kungurtsev, M. Mondelli, in:, Transactions on Machine Learning Research, ML Research Press, 2023."},"ddc":["000"],"month":"02","publisher":"ML Research Press","date_published":"2023-02-28T00:00:00Z","type":"conference","abstract":[{"lang":"eng","text":"The stochastic heavy ball method (SHB), also known as stochastic gradient descent (SGD) with Polyak's momentum, is widely used in training neural networks. However, despite the remarkable success of such algorithm in practice, its theoretical characterization remains limited. In this paper, we focus on neural networks with two and three layers and provide a rigorous understanding of the properties of the solutions found by SHB: \\emph{(i)} stability after dropping out part of the neurons, \\emph{(ii)} connectivity along a low-loss path, and \\emph{(iii)} convergence to the global optimum.\r\nTo achieve this goal, we take a mean-field view and relate the SHB dynamics to a certain partial differential equation in the limit of large network widths. This mean-field perspective has inspired a recent line of work focusing on SGD while, in contrast, our paper considers an algorithm with momentum. More specifically, after proving existence and uniqueness of the limit differential equations, we show convergence to the global optimum and give a quantitative bound between the mean-field limit and the SHB dynamics of a finite-width network. Armed with this last bound, we are able to establish the dropout-stability and connectivity of SHB solutions."}],"language":[{"iso":"eng"}],"status":"public","quality_controlled":"1","date_updated":"2026-06-18T17:41:36Z","author":[{"full_name":"Wu, Diyuan","id":"1a5914c2-896a-11ed-bdf8-fb80621a0635","last_name":"Wu","first_name":"Diyuan"},{"last_name":"Kungurtsev","first_name":"Vyacheslav","full_name":"Kungurtsev, Vyacheslav"},{"orcid":"0000-0002-3242-7020","first_name":"Marco","last_name":"Mondelli","id":"27EB676C-8706-11E9-9510-7717E6697425","full_name":"Mondelli, Marco"}],"corr_author":"1","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"oa":1,"project":[{"name":"Prix Lopez-Loretta 2019 - Marco Mondelli","_id":"059876FA-7A3F-11EA-A408-12923DDC885E"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2210.06819"}],"has_accepted_license":"1","external_id":{"arxiv":["2210.06819"]},"alternative_title":["TMLR"],"article_processing_charge":"No","_id":"14924","title":"Mean-field analysis for heavy ball methods: Dropout-stability, connectivity, and global convergence","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"MaMo"}],"arxiv":1,"day":"28"},{"publication_status":"published","publication":"Journal of Machine Learning Research","date_created":"2024-02-07T14:57:39Z","year":"2023","file_date_updated":"2024-02-07T14:57:32Z","acknowledgement":"The authors would like to thank Varad Gunjal and Vishaal Udandarao. MFB thanks the International Max Planck Research School for Intelligent Systems (IMPRS-IS).","date_published":"2023-12-10T00:00:00Z","publisher":"ML Research Press","ddc":["000"],"month":"12","citation":{"apa":"Burg, M., Wenzel, F., Zietlow, D., Horn, M., Makansi, O., Locatello, F., &#38; Russell, C. (2023). Image retrieval outperforms diffusion models on data augmentation. <i>Journal of Machine Learning Research</i>. ML Research Press.","mla":"Burg, Max, et al. “Image Retrieval Outperforms Diffusion Models on Data Augmentation.” <i>Journal of Machine Learning Research</i>, ML Research Press, 2023.","chicago":"Burg, Max, Florian Wenzel, Dominik Zietlow, Max Horn, Osama Makansi, Francesco Locatello, and Chris Russell. “Image Retrieval Outperforms Diffusion Models on Data Augmentation.” <i>Journal of Machine Learning Research</i>. ML Research Press, 2023.","short":"M. Burg, F. Wenzel, D. Zietlow, M. Horn, O. Makansi, F. Locatello, C. Russell, Journal of Machine Learning Research (2023).","ama":"Burg M, Wenzel F, Zietlow D, et al. Image retrieval outperforms diffusion models on data augmentation. <i>Journal of Machine Learning Research</i>. 2023.","ieee":"M. Burg <i>et al.</i>, “Image retrieval outperforms diffusion models on data augmentation,” <i>Journal of Machine Learning Research</i>. ML Research Press, 2023.","ista":"Burg M, Wenzel F, Zietlow D, Horn M, Makansi O, Locatello F, Russell C. 2023. Image retrieval outperforms diffusion models on data augmentation. Journal of Machine Learning Research."},"oa_version":"Published Version","status":"public","quality_controlled":"1","language":[{"iso":"eng"}],"abstract":[{"text":"Many approaches have been proposed to use diffusion models to augment training datasets for downstream tasks, such as classification. However, diffusion models are themselves trained on large datasets, often with noisy annotations, and it remains an open question to which extent these models contribute to downstream classification performance. In particular, it remains unclear if they generalize enough to improve over directly using the additional data of their pre-training process for augmentation. We systematically evaluate a range of existing methods to generate images from diffusion models and study new extensions to assess their benefit for data augmentation. Personalizing diffusion models towards the target data outperforms simpler prompting strategies. However, using the pre-training data of the diffusion model alone, via a simple nearest-neighbor retrieval procedure, leads to even stronger downstream performance. Our study explores the potential of diffusion models in generating new training data, and surprisingly finds that these sophisticated models are not yet able to beat a simple and strong image retrieval baseline on simple downstream vision tasks.","lang":"eng"}],"type":"journal_article","author":[{"first_name":"Max","last_name":"Burg","full_name":"Burg, Max"},{"last_name":"Wenzel","first_name":"Florian","full_name":"Wenzel, Florian"},{"first_name":"Dominik","last_name":"Zietlow","full_name":"Zietlow, Dominik"},{"last_name":"Horn","first_name":"Max","full_name":"Horn, Max"},{"first_name":"Osama","last_name":"Makansi","full_name":"Makansi, Osama"},{"id":"26cfd52f-2483-11ee-8040-88983bcc06d4","full_name":"Locatello, Francesco","first_name":"Francesco","last_name":"Locatello","orcid":"0000-0002-4850-0683"},{"last_name":"Russell","first_name":"Chris","full_name":"Russell, Chris"}],"date_updated":"2024-02-12T08:30:21Z","oa":1,"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"file":[{"access_level":"open_access","date_updated":"2024-02-07T14:57:32Z","relation":"main_file","content_type":"application/pdf","date_created":"2024-02-07T14:57:32Z","file_id":"14950","file_size":27325153,"file_name":"Burg_et_al_2023_Image_retrieval_outperforms.pdf","creator":"ptazenko","checksum":"af87ddea7908923426365347b9c87ba7"}],"alternative_title":["TMLR"],"article_processing_charge":"No","article_type":"original","has_accepted_license":"1","main_file_link":[{"url":"https://openreview.net/forum?id=xflYdGZMpv","open_access":"1"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Image retrieval outperforms diffusion models on data augmentation","_id":"14949","day":"10","publication_identifier":{"eissn":["2835-8856"]},"department":[{"_id":"FrLo"}]},{"conference":{"end_date":"2023-12-15","name":"CRL: Causal Representation Learning Workshop at NeurIPS","start_date":"2023-12-15","location":"New Orleans, LA, United States"},"oa":1,"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"file":[{"file_id":"14982","date_created":"2024-02-13T08:50:53Z","content_type":"application/pdf","checksum":"484efc27bda75ed6666044989695d9b6","creator":"dernst","file_name":"2023_CRL_Xu.pdf","file_size":552357,"access_level":"open_access","date_updated":"2024-02-13T08:50:53Z","relation":"main_file","success":1}],"has_accepted_license":"1","main_file_link":[{"url":"https://openreview.net/forum?id=Whr6uobelR","open_access":"1"}],"article_processing_charge":"No","title":"A sparsity principle for partially observable causal representation learning","_id":"14958","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"FrLo"}],"day":"05","file_date_updated":"2024-02-13T08:50:53Z","acknowledgement":"This work was initiated at the Second Bellairs Workshop on Causality held at the Bellairs Research Institute, January 6–13, 2022; we thank all workshop participants for providing a stimulating research environment. The research of DX and SM was supported by the Air Force Office of Scientific Research under award number FA8655-22-1-7155. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the United States Air Force. We also thank SURF for the support in using the Dutch National Supercomputer Snellius. DY was supported by an Amazon fellowship and the International Max Planck Research School for Intelligent Systems (IMPRS-IS). Work done outside of Amazon. SL was supported by an IVADO excellence PhD scholarship and by Samsung Electronics Co., Ldt. JvK acknowledges support from the German Federal Ministry of Education and Research (BMBF)\r\nthrough the Tübingen AI Center (FKZ: 01IS18039B).\r\n","article_number":"54","publication_status":"published","year":"2023","date_created":"2024-02-07T15:17:51Z","publication":"Causal Representation Learning Workshop at NeurIPS 2023","citation":{"apa":"Xu, D., Yao, D., Lachapelle, S., Taslakian, P., von Kügelgen, J., Locatello, F., &#38; Magliacane, S. (2023). A sparsity principle for partially observable causal representation learning. In <i>Causal Representation Learning Workshop at NeurIPS 2023</i>. New Orleans, LA, United States: OpenReview.","chicago":"Xu, Danru, Dingling Yao, Sebastien Lachapelle, Perouz Taslakian, Julius von Kügelgen, Francesco Locatello, and Sara Magliacane. “A Sparsity Principle for Partially Observable Causal Representation Learning.” In <i>Causal Representation Learning Workshop at NeurIPS 2023</i>. OpenReview, 2023.","mla":"Xu, Danru, et al. “A Sparsity Principle for Partially Observable Causal Representation Learning.” <i>Causal Representation Learning Workshop at NeurIPS 2023</i>, 54, OpenReview, 2023.","short":"D. Xu, D. Yao, S. Lachapelle, P. Taslakian, J. von Kügelgen, F. Locatello, S. Magliacane, in:, Causal Representation Learning Workshop at NeurIPS 2023, OpenReview, 2023.","ama":"Xu D, Yao D, Lachapelle S, et al. A sparsity principle for partially observable causal representation learning. In: <i>Causal Representation Learning Workshop at NeurIPS 2023</i>. OpenReview; 2023.","ista":"Xu D, Yao D, Lachapelle S, Taslakian P, von Kügelgen J, Locatello F, Magliacane S. 2023. A sparsity principle for partially observable causal representation learning. Causal Representation Learning Workshop at NeurIPS 2023. CRL: Causal Representation Learning Workshop at NeurIPS, 54.","ieee":"D. Xu <i>et al.</i>, “A sparsity principle for partially observable causal representation learning,” in <i>Causal Representation Learning Workshop at NeurIPS 2023</i>, New Orleans, LA, United States, 2023."},"oa_version":"Published Version","date_published":"2023-12-05T00:00:00Z","publisher":"OpenReview","month":"12","ddc":["000"],"language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Causal representation learning (CRL) aims at identifying high-level causal variables from low-level data, e.g. images. Current methods usually assume that all causal variables are captured in the high-dimensional observations. In this work, we focus on learning causal representations from data under partial observability, i.e., when some of the causal variables are not observed in the measurements, and the set of masked variables changes across the different samples. We introduce some initial theoretical results for identifying causal variables under partial observability by exploiting a sparsity regularizer, focusing in particular on the linear and piecewise linear mixing function case. We provide a theorem that allows us to identify the causal variables up to permutation and element-wise linear transformations in the linear case and a lemma that allows us to identify causal variables up to linear transformation in the piecewise case. Finally, we provide a conjecture that would allow us to identify the causal variables up to permutation and element-wise linear transformations also in the piecewise linear case. We test the theorem and conjecture on simulated data, showing the effectiveness of our method."}],"OA_place":"repository","type":"conference","status":"public","quality_controlled":"1","OA_type":"green","date_updated":"2025-02-04T12:37:34Z","author":[{"full_name":"Xu, Danru","last_name":"Xu","first_name":"Danru"},{"last_name":"Yao","first_name":"Dingling","full_name":"Yao, Dingling","id":"d3e02e50-48a8-11ee-8f62-c108061797fa"},{"full_name":"Lachapelle, Sebastien","first_name":"Sebastien","last_name":"Lachapelle"},{"first_name":"Perouz","last_name":"Taslakian","full_name":"Taslakian, Perouz"},{"first_name":"Julius","last_name":"von Kügelgen","full_name":"von Kügelgen, Julius"},{"orcid":"0000-0002-4850-0683","last_name":"Locatello","first_name":"Francesco","full_name":"Locatello, Francesco","id":"26cfd52f-2483-11ee-8040-88983bcc06d4"},{"last_name":"Magliacane","first_name":"Sara","full_name":"Magliacane, Sara"}]},{"fulldoi":"https://doi.org/10.48550/arXiv.2310.14246","date_updated":"2024-10-09T21:08:10Z","department":[{"_id":"FrLo"}],"author":[{"last_name":"Montagna","first_name":"Francesco","full_name":"Montagna, Francesco"},{"full_name":"Noceti, Nicoletta","first_name":"Nicoletta","last_name":"Noceti"},{"first_name":"Lorenzo","last_name":"Rosasco","full_name":"Rosasco, Lorenzo"},{"id":"26cfd52f-2483-11ee-8040-88983bcc06d4","full_name":"Locatello, Francesco","first_name":"Francesco","last_name":"Locatello","orcid":"0000-0002-4850-0683"}],"arxiv":1,"day":"22","language":[{"iso":"eng"}],"title":"Shortcuts for causal discovery of nonlinear models by score matching","abstract":[{"lang":"eng","text":"The use of simulated data in the field of causal discovery is ubiquitous due to the scarcity of annotated real data. Recently, Reisach et al., 2021 highlighted the emergence of patterns in simulated linear data, which displays increasing marginal variance in the casual direction. As an ablation in their experiments, Montagna et al., 2023 found that similar patterns may emerge in\r\nnonlinear models for the variance of the score vector $\\nabla \\log p_{\\mathbf{X}}$, and introduced the ScoreSort algorithm. In this work, we formally define and characterize this score-sortability pattern of nonlinear additive noise models. We find that it defines a class of identifiable (bivariate) causal models overlapping with nonlinear additive noise models. We\r\ntheoretically demonstrate the advantages of ScoreSort in terms of statistical efficiency compared to prior state-of-the-art score matching-based methods and empirically show the score-sortability of the most common synthetic benchmarks in the literature. Our findings remark (1) the lack of diversity in the data as an important limitation in the evaluation of nonlinear causal discovery approaches, (2) the importance of thoroughly testing different settings within a problem class, and (3) the importance of analyzing statistical properties in\r\ncausal discovery, where research is often limited to defining identifiability conditions of the model. "}],"_id":"14961","type":"preprint","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","citation":{"ama":"Montagna F, Noceti N, Rosasco L, Locatello F. Shortcuts for causal discovery of nonlinear models by score matching. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2310.14246\">10.48550/arXiv.2310.14246</a>","ista":"Montagna F, Noceti N, Rosasco L, Locatello F. Shortcuts for causal discovery of nonlinear models by score matching. arXiv, 2310.14246.","ieee":"F. Montagna, N. Noceti, L. Rosasco, and F. Locatello, “Shortcuts for causal discovery of nonlinear models by score matching,” <i>arXiv</i>. .","short":"F. Montagna, N. Noceti, L. Rosasco, F. Locatello, ArXiv (n.d.).","apa":"Montagna, F., Noceti, N., Rosasco, L., &#38; Locatello, F. (n.d.). Shortcuts for causal discovery of nonlinear models by score matching. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2310.14246\">https://doi.org/10.48550/arXiv.2310.14246</a>","chicago":"Montagna, Francesco, Nicoletta Noceti, Lorenzo Rosasco, and Francesco Locatello. “Shortcuts for Causal Discovery of Nonlinear Models by Score Matching.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2310.14246\">https://doi.org/10.48550/arXiv.2310.14246</a>.","mla":"Montagna, Francesco, et al. “Shortcuts for Causal Discovery of Nonlinear Models by Score Matching.” <i>ArXiv</i>, 2310.14246, doi:<a href=\"https://doi.org/10.48550/arXiv.2310.14246\">10.48550/arXiv.2310.14246</a>."},"oa_version":"Preprint","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2310.14246"}],"date_published":"2023-10-22T00:00:00Z","article_processing_charge":"No","month":"10","external_id":{"arxiv":["2310.14246"]},"corr_author":"1","article_number":"2310.14246","oa":1,"publication_status":"submitted","doi":"10.48550/arXiv.2310.14246","date_created":"2024-02-08T15:31:46Z","publication":"arXiv","year":"2023"}]