[{"article_number":"45","intvolume":"       111","language":[{"iso":"eng"}],"status":"public","publication_identifier":{"issn":["0377-9017"],"eissn":["1573-0530"]},"external_id":{"isi":["000637359300002"]},"oa_version":"Published Version","publisher":"Springer Nature","month":"04","author":[{"id":"cbddacee-2b11-11eb-a02e-a2e14d04e52d","first_name":"David Johannes","last_name":"Mitrouskas","full_name":"Mitrouskas, David Johannes"}],"article_type":"original","year":"2021","isi":1,"_id":"9333","date_published":"2021-04-05T00:00:00Z","citation":{"chicago":"Mitrouskas, David Johannes. “A Note on the Fröhlich Dynamics in the Strong Coupling Limit.” <i>Letters in Mathematical Physics</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/s11005-021-01380-7\">https://doi.org/10.1007/s11005-021-01380-7</a>.","apa":"Mitrouskas, D. J. (2021). A note on the Fröhlich dynamics in the strong coupling limit. <i>Letters in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11005-021-01380-7\">https://doi.org/10.1007/s11005-021-01380-7</a>","mla":"Mitrouskas, David Johannes. “A Note on the Fröhlich Dynamics in the Strong Coupling Limit.” <i>Letters in Mathematical Physics</i>, vol. 111, 45, Springer Nature, 2021, doi:<a href=\"https://doi.org/10.1007/s11005-021-01380-7\">10.1007/s11005-021-01380-7</a>.","ieee":"D. J. Mitrouskas, “A note on the Fröhlich dynamics in the strong coupling limit,” <i>Letters in Mathematical Physics</i>, vol. 111. Springer Nature, 2021.","ama":"Mitrouskas DJ. A note on the Fröhlich dynamics in the strong coupling limit. <i>Letters in Mathematical Physics</i>. 2021;111. doi:<a href=\"https://doi.org/10.1007/s11005-021-01380-7\">10.1007/s11005-021-01380-7</a>","ista":"Mitrouskas DJ. 2021. A note on the Fröhlich dynamics in the strong coupling limit. Letters in Mathematical Physics. 111, 45.","short":"D.J. Mitrouskas, Letters in Mathematical Physics 111 (2021)."},"article_processing_charge":"No","oa":1,"date_updated":"2026-04-02T13:58:00Z","date_created":"2021-04-18T22:01:41Z","volume":111,"type":"journal_article","quality_controlled":"1","scopus_import":"1","abstract":[{"lang":"eng","text":"We revise a previous result about the Fröhlich dynamics in the strong coupling limit obtained in Griesemer (Rev Math Phys 29(10):1750030, 2017). In the latter it was shown that the Fröhlich time evolution applied to the initial state φ0⊗ξα, where φ0 is the electron ground state of the Pekar energy functional and ξα the associated coherent state of the phonons, can be approximated by a global phase for times small compared to α2. In the present note we prove that a similar approximation holds for t=O(α2) if one includes a nontrivial effective dynamics for the phonons that is generated by an operator proportional to α−2 and quadratic in creation and annihilation operators. Our result implies that the electron ground state remains close to its initial state for times of order α2, while the phonon fluctuations around the coherent state ξα can be described by a time-dependent Bogoliubov transformation."}],"has_accepted_license":"1","ddc":["510"],"title":"A note on the Fröhlich dynamics in the strong coupling limit","publication":"Letters in Mathematical Physics","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","day":"05","acknowledgement":"I thank Marcel Griesemer for many interesting discussions about the Fröhlich polaron and also for valuable comments on this manuscript. Helpful discussions with Nikolai Leopold and Robert Seiringer are also gratefully acknowledged. This work was partially supported by the Deutsche Forschungsgemeinschaft (DFG) through the Research Training Group 1838: Spectral Theory and Dynamics of Quantum Systems. Open Access funding enabled and organized by Projekt DEAL.","file_date_updated":"2021-04-19T10:40:01Z","doi":"10.1007/s11005-021-01380-7","license":"https://creativecommons.org/licenses/by/4.0/","file":[{"file_size":438084,"file_id":"9341","relation":"main_file","success":1,"creator":"dernst","file_name":"2021_LettersMathPhysics_Mitrouskas.pdf","content_type":"application/pdf","date_created":"2021-04-19T10:40:01Z","checksum":"be56c0845a43c0c5c772ee0b5053f7d7","date_updated":"2021-04-19T10:40:01Z","access_level":"open_access"}],"department":[{"_id":"RoSe"}]},{"abstract":[{"lang":"eng","text":"Organ function depends on tissues adopting the correct architecture. However, insights into organ architecture are currently hampered by an absence of standardized quantitative 3D analysis. We aimed to develop a robust technology to visualize, digitalize, and segment the architecture of two tubular systems in 3D: double resin casting micro computed tomography (DUCT). As proof of principle, we applied DUCT to a mouse model for Alagille syndrome (Jag1Ndr/Ndr mice), characterized by intrahepatic bile duct paucity, that can spontaneously generate a biliary system in adulthood. DUCT identified increased central biliary branching and peripheral bile duct tortuosity as two compensatory processes occurring in distinct regions of Jag1Ndr/Ndr liver, leading to full reconstitution of wild-type biliary volume and phenotypic recovery. DUCT is thus a powerful new technology for 3D analysis, which can reveal novel phenotypes and provide a standardized method of defining liver architecture in mouse models."}],"has_accepted_license":"1","volume":10,"quality_controlled":"1","type":"journal_article","scopus_import":"1","ec_funded":1,"file":[{"file_size":9259690,"file_id":"9271","relation":"main_file","success":1,"creator":"dernst","date_created":"2021-03-22T08:50:33Z","date_updated":"2021-03-22T08:50:33Z","content_type":"application/pdf","checksum":"20ccf4dfe46c48cf986794c8bf4fd1cb","file_name":"2021_eLife_Hankeova.pdf","access_level":"open_access"}],"department":[{"_id":"EdHa"}],"file_date_updated":"2021-03-22T08:50:33Z","pmid":1,"doi":"10.7554/eLife.60916","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_status":"published","acknowledgement":"Work in ERA lab is supported by the Swedish Research Council, the Center of Innovative Medicine (CIMED) Grant, Karolinska Institutet, and the Heart and Lung Foundation, and\r\nthe Daniel Alagille Award from the European Association for the Study of the Liver. One project in ERA lab is funded by ModeRNA, unrelated to this project. The funders have no role in the design or interpretation of the work. SH has been supported by a KI-MU PhD student program, and by a Wera Ekstro¨m Foundation Scholarship. We are grateful for support from Tornspiran foundation to NVH. JK: This research was carried out under the project CEITEC 2020 (LQ1601) with financial support from the Ministry of Education, Youth and Sports of the Czech Republic under the National Sustainability Programme II and CzechNanoLab Research Infrastructure supported by MEYS CR (LM2018110) . UL: The financial support from the Swedish Research Council and ICMC (Integrated CardioMetabolic Center) is acknowledged. JJ: The work was supported by the Grant Agency of Masaryk University (project no. MUNI/A/1565/2018). We thank Kari Huppert and Stacey Huppert for their expertise and help regarding bile duct cannulation and their laboratory hospitality. We also thank Nadja Schultz and Charlotte L Mattsson for their help with common bile duct cannulation. We thank Daniel Holl for his help with trachea cannulation. We thank Nikos Papadogiannakis for his assistance with mild Alagille biopsy samples and discussion. We thank Karolinska Biomedicum Imaging Core, especially Shigeaki Kanatani for his help with image analysis. We thank Jan Masek and Carolina Gutierrez for their scientific input in manuscript writing. We thank Peter Ranefall and the BioImage Informatics (SciLife national facility) for their help writing parts of the MATLAB pipeline.\r\nThe TROMA-III antibody developed by Rolf Kemler was obtained from the Developmental Studies Hybridoma (DSHB) Bank developed under the auspices of NICHD and maintained by The University of Iowa, Department of Biological Sciences, Iowa City, IA52242. We thank Goncalo M Brito for all illustrations. This work was supported by the European Union (European Research Council Starting grant 851288 to E.H.).","day":"26","publication":"eLife","ddc":["570"],"title":"DUCT reveals architectural mechanisms contributing to bile duct recovery in a mouse model for alagille syndrome","external_id":{"pmid":["33635272"],"isi":["000625357100001"]},"language":[{"iso":"eng"}],"status":"public","publication_identifier":{"eissn":["2050-084X"]},"project":[{"call_identifier":"H2020","grant_number":"851288","_id":"05943252-7A3F-11EA-A408-12923DDC885E","name":"Design Principles of Branching Morphogenesis"}],"article_number":"e60916","intvolume":"        10","oa":1,"date_updated":"2026-04-02T14:00:00Z","date_created":"2021-03-14T23:01:34Z","_id":"9244","date_published":"2021-02-26T00:00:00Z","citation":{"ista":"Hankeova S, Salplachta J, Zikmund T, Kavkova M, Van Hul N, Brinek A, Smekalova V, Laznovsky J, Dawit F, Jaros J, Bryja V, Lendahl U, Ellis E, Nemeth A, Fischler B, Hannezo EB, Kaiser J, Andersson ER. 2021. DUCT reveals architectural mechanisms contributing to bile duct recovery in a mouse model for alagille syndrome. eLife. 10, e60916.","short":"S. Hankeova, J. Salplachta, T. Zikmund, M. Kavkova, N. Van Hul, A. Brinek, V. Smekalova, J. Laznovsky, F. Dawit, J. Jaros, V. Bryja, U. Lendahl, E. Ellis, A. Nemeth, B. Fischler, E.B. Hannezo, J. Kaiser, E.R. Andersson, ELife 10 (2021).","apa":"Hankeova, S., Salplachta, J., Zikmund, T., Kavkova, M., Van Hul, N., Brinek, A., … Andersson, E. R. (2021). DUCT reveals architectural mechanisms contributing to bile duct recovery in a mouse model for alagille syndrome. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.60916\">https://doi.org/10.7554/eLife.60916</a>","chicago":"Hankeova, Simona, Jakub Salplachta, Tomas Zikmund, Michaela Kavkova, Noémi Van Hul, Adam Brinek, Veronika Smekalova, et al. “DUCT Reveals Architectural Mechanisms Contributing to Bile Duct Recovery in a Mouse Model for Alagille Syndrome.” <i>ELife</i>. eLife Sciences Publications, 2021. <a href=\"https://doi.org/10.7554/eLife.60916\">https://doi.org/10.7554/eLife.60916</a>.","ama":"Hankeova S, Salplachta J, Zikmund T, et al. DUCT reveals architectural mechanisms contributing to bile duct recovery in a mouse model for alagille syndrome. <i>eLife</i>. 2021;10. doi:<a href=\"https://doi.org/10.7554/eLife.60916\">10.7554/eLife.60916</a>","ieee":"S. Hankeova <i>et al.</i>, “DUCT reveals architectural mechanisms contributing to bile duct recovery in a mouse model for alagille syndrome,” <i>eLife</i>, vol. 10. eLife Sciences Publications, 2021.","mla":"Hankeova, Simona, et al. “DUCT Reveals Architectural Mechanisms Contributing to Bile Duct Recovery in a Mouse Model for Alagille Syndrome.” <i>ELife</i>, vol. 10, e60916, eLife Sciences Publications, 2021, doi:<a href=\"https://doi.org/10.7554/eLife.60916\">10.7554/eLife.60916</a>."},"article_processing_charge":"No","article_type":"original","year":"2021","isi":1,"oa_version":"Published Version","publisher":"eLife Sciences Publications","month":"02","author":[{"last_name":"Hankeova","first_name":"Simona","full_name":"Hankeova, Simona"},{"full_name":"Salplachta, Jakub","last_name":"Salplachta","first_name":"Jakub"},{"first_name":"Tomas","last_name":"Zikmund","full_name":"Zikmund, Tomas"},{"last_name":"Kavkova","first_name":"Michaela","full_name":"Kavkova, Michaela"},{"last_name":"Van Hul","first_name":"Noémi","full_name":"Van Hul, Noémi"},{"last_name":"Brinek","first_name":"Adam","full_name":"Brinek, Adam"},{"full_name":"Smekalova, Veronika","last_name":"Smekalova","first_name":"Veronika"},{"last_name":"Laznovsky","first_name":"Jakub","full_name":"Laznovsky, Jakub"},{"full_name":"Dawit, Feven","first_name":"Feven","last_name":"Dawit"},{"full_name":"Jaros, Josef","last_name":"Jaros","first_name":"Josef"},{"first_name":"Vítězslav","last_name":"Bryja","full_name":"Bryja, Vítězslav"},{"first_name":"Urban","last_name":"Lendahl","full_name":"Lendahl, Urban"},{"first_name":"Ewa","last_name":"Ellis","full_name":"Ellis, Ewa"},{"full_name":"Nemeth, Antal","last_name":"Nemeth","first_name":"Antal"},{"first_name":"Björn","last_name":"Fischler","full_name":"Fischler, Björn"},{"id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","first_name":"Edouard B","last_name":"Hannezo","full_name":"Hannezo, Edouard B","orcid":"0000-0001-6005-1561"},{"first_name":"Jozef","last_name":"Kaiser","full_name":"Kaiser, Jozef"},{"full_name":"Andersson, Emma Rachel","first_name":"Emma Rachel","last_name":"Andersson"}]},{"file_date_updated":"2021-04-06T10:39:08Z","pmid":1,"doi":"10.1083/jcb.202003052","file":[{"access_level":"open_access","checksum":"4739ffd90f2c7e05ac5b00f057c58aa2","content_type":"application/pdf","date_created":"2021-04-06T10:39:08Z","date_updated":"2021-04-06T10:39:08Z","file_name":"2021_JCB_Dobramysl.pdf","creator":"dernst","success":1,"relation":"main_file","file_id":"9310","file_size":9019720}],"department":[{"_id":"EdHa"}],"publication":"Journal of Cell Biology","ddc":["576"],"title":"Stochastic combinations of actin regulatory proteins are sufficient to drive filopodia formation","publication_status":"published","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"day":"19","acknowledgement":"This work was supported by European Research Council grant 281971, Wellcome Trust Research Career Development Fellowship WT095829AIA and Wellcome Trust Senior Research\r\nFellowship 219482/Z/19/Z to J.L. Gallop, a Wellcome Trust Senior Investigator Award 098357 to B.D. Simons, and an Austrian Science Fund grant (P31639) to E. Hannezo. We acknowledge\r\ncore funding by the Wellcome Trust (092096) and Cancer Research UK (C6946/A14492). U. Dobramysl was supported by a Wellcome Trust Junior Interdisciplinary Fellowship grant\r\n(105602/Z/14/Z) and a Herchel Smith Postdoctoral Fellowship. H. Shimo was supported by a Funai Foundation Overseas scholarship.","has_accepted_license":"1","abstract":[{"lang":"eng","text":"Assemblies of actin and its regulators underlie the dynamic morphology of all eukaryotic cells. To understand how actin regulatory proteins work together to generate actin-rich structures such as filopodia, we analyzed the localization of diverse actin regulators within filopodia in Drosophila embryos and in a complementary in vitro system of filopodia-like structures (FLSs). We found that the composition of the regulatory protein complex where actin is incorporated (the filopodial tip complex) is remarkably heterogeneous both in vivo and in vitro. Our data reveal that different pairs of proteins correlate with each other and with actin bundle length, suggesting the presence of functional subcomplexes. This is consistent with a theoretical framework where three or more redundant subcomplexes join the tip complex stochastically, with any two being sufficient to drive filopodia formation. We provide an explanation for the observed heterogeneity and suggest that a mechanism based on multiple components allows stereotypical filopodial dynamics to arise from diverse upstream signaling pathways."}],"volume":220,"scopus_import":"1","quality_controlled":"1","type":"journal_article","date_published":"2021-03-19T00:00:00Z","_id":"9306","article_processing_charge":"No","citation":{"ama":"Dobramysl U, Jarsch IK, Inoue Y, et al. Stochastic combinations of actin regulatory proteins are sufficient to drive filopodia formation. <i>Journal of Cell Biology</i>. 2021;220(4). doi:<a href=\"https://doi.org/10.1083/jcb.202003052\">10.1083/jcb.202003052</a>","ieee":"U. Dobramysl <i>et al.</i>, “Stochastic combinations of actin regulatory proteins are sufficient to drive filopodia formation,” <i>Journal of Cell Biology</i>, vol. 220, no. 4. Rockefeller University Press, 2021.","mla":"Dobramysl, Ulrich, et al. “Stochastic Combinations of Actin Regulatory Proteins Are Sufficient to Drive Filopodia Formation.” <i>Journal of Cell Biology</i>, vol. 220, no. 4, e202003052, Rockefeller University Press, 2021, doi:<a href=\"https://doi.org/10.1083/jcb.202003052\">10.1083/jcb.202003052</a>.","apa":"Dobramysl, U., Jarsch, I. K., Inoue, Y., Shimo, H., Richier, B., Gadsby, J. R., … Gallop, J. L. (2021). Stochastic combinations of actin regulatory proteins are sufficient to drive filopodia formation. <i>Journal of Cell Biology</i>. Rockefeller University Press. <a href=\"https://doi.org/10.1083/jcb.202003052\">https://doi.org/10.1083/jcb.202003052</a>","chicago":"Dobramysl, Ulrich, Iris Katharina Jarsch, Yoshiko Inoue, Hanae Shimo, Benjamin Richier, Jonathan R. Gadsby, Julia Mason, et al. “Stochastic Combinations of Actin Regulatory Proteins Are Sufficient to Drive Filopodia Formation.” <i>Journal of Cell Biology</i>. Rockefeller University Press, 2021. <a href=\"https://doi.org/10.1083/jcb.202003052\">https://doi.org/10.1083/jcb.202003052</a>.","short":"U. Dobramysl, I.K. Jarsch, Y. Inoue, H. Shimo, B. Richier, J.R. Gadsby, J. Mason, A. Szałapak, P.S. Ioannou, G.P. Correia, A. Walrant, R. Butler, E.B. Hannezo, B.D. Simons, J.L. Gallop, Journal of Cell Biology 220 (2021).","ista":"Dobramysl U, Jarsch IK, Inoue Y, Shimo H, Richier B, Gadsby JR, Mason J, Szałapak A, Ioannou PS, Correia GP, Walrant A, Butler R, Hannezo EB, Simons BD, Gallop JL. 2021. Stochastic combinations of actin regulatory proteins are sufficient to drive filopodia formation. Journal of Cell Biology. 220(4), e202003052."},"date_updated":"2026-04-02T13:59:43Z","date_created":"2021-04-04T22:01:21Z","oa":1,"oa_version":"Published Version","publisher":"Rockefeller University Press","month":"03","author":[{"full_name":"Dobramysl, Ulrich","first_name":"Ulrich","last_name":"Dobramysl"},{"last_name":"Jarsch","first_name":"Iris Katharina","full_name":"Jarsch, Iris Katharina"},{"last_name":"Inoue","first_name":"Yoshiko","full_name":"Inoue, Yoshiko"},{"full_name":"Shimo, Hanae","first_name":"Hanae","last_name":"Shimo"},{"first_name":"Benjamin","last_name":"Richier","full_name":"Richier, Benjamin"},{"full_name":"Gadsby, Jonathan R.","last_name":"Gadsby","first_name":"Jonathan R."},{"last_name":"Mason","first_name":"Julia","full_name":"Mason, Julia"},{"last_name":"Szałapak","first_name":"Alicja","full_name":"Szałapak, Alicja"},{"first_name":"Pantelis Savvas","last_name":"Ioannou","full_name":"Ioannou, Pantelis Savvas"},{"full_name":"Correia, Guilherme Pereira","first_name":"Guilherme Pereira","last_name":"Correia"},{"full_name":"Walrant, Astrid","last_name":"Walrant","first_name":"Astrid"},{"full_name":"Butler, Richard","first_name":"Richard","last_name":"Butler"},{"orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B","last_name":"Hannezo","first_name":"Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Simons, Benjamin D.","last_name":"Simons","first_name":"Benjamin D."},{"first_name":"Jennifer L.","last_name":"Gallop","full_name":"Gallop, Jennifer L."}],"article_type":"original","year":"2021","isi":1,"publication_identifier":{"eissn":["1540-8140"]},"status":"public","language":[{"iso":"eng"}],"issue":"4","external_id":{"pmid":["33740033"],"isi":["000663160600002"]},"article_number":"e202003052","intvolume":"       220","project":[{"call_identifier":"FWF","grant_number":"P31639","_id":"268294B6-B435-11E9-9278-68D0E5697425","name":"Active mechano-chemical description of the cell cytoskeleton"}]},{"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"},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_status":"published","day":"19","acknowledgement":"We thank the Electron Microscopy Facilities at the Institute of Science and Technology Austria and at the Vienna Biocenter for providing access and training for the electron microscopes. This project has received funding from the European Union's Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement no. 665385 .","ddc":["570"],"publication":"iScience","title":"Cryo-EM grid optimization for membrane proteins","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","file":[{"file_size":7431411,"file_id":"9219","relation":"main_file","success":1,"creator":"dernst","file_name":"2021_iScience_Kampjut.pdf","content_type":"application/pdf","date_created":"2021-03-03T07:38:14Z","checksum":"50585447386fe5842f07ab9b3a66e7e9","date_updated":"2021-03-03T07:38:14Z","access_level":"open_access"}],"ec_funded":1,"department":[{"_id":"LeSa"}],"file_date_updated":"2021-03-03T07:38:14Z","pmid":1,"doi":"10.1016/j.isci.2021.102139","volume":24,"quality_controlled":"1","type":"journal_article","scopus_import":"1","abstract":[{"lang":"eng","text":"Cryo-EM grid preparation is an important bottleneck in protein structure determination, especially for membrane proteins, typically requiring screening of a large number of conditions. We systematically investigated the effects of buffer components, blotting conditions and grid types on the outcome of grid preparation of five different membrane protein samples. Aggregation was the most common type of problem which was addressed by changing detergents, salt concentration or reconstitution of proteins into nanodiscs or amphipols. We show that the optimal concentration of detergent is between 0.05 and 0.4% and that the presence of a low concentration of detergent with a high critical micellar concentration protects the proteins from denaturation at the air-water interface. Furthermore, we discuss the strategies for achieving an adequate ice thickness, particle coverage and orientation distribution on free ice and on support films. Our findings provide a clear roadmap for comprehensive screening of conditions for cryo-EM grid preparation of membrane proteins."}],"has_accepted_license":"1","article_type":"original","isi":1,"year":"2021","month":"03","publisher":"Elsevier","oa_version":"Published Version","author":[{"full_name":"Kampjut, Domen","orcid":"0000-0002-6018-3422","id":"37233050-F248-11E8-B48F-1D18A9856A87","first_name":"Domen","last_name":"Kampjut"},{"last_name":"Steiner","id":"3BB67EB0-F248-11E8-B48F-1D18A9856A87","first_name":"Julia","full_name":"Steiner, Julia","orcid":"0000-0003-0493-3775"},{"first_name":"Leonid A","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","last_name":"Sazanov","orcid":"0000-0002-0977-7989","full_name":"Sazanov, Leonid A"}],"oa":1,"date_created":"2021-02-28T23:01:24Z","date_updated":"2026-04-02T14:00:19Z","acknowledged_ssus":[{"_id":"EM-Fac"}],"_id":"9205","date_published":"2021-03-19T00:00:00Z","article_processing_charge":"No","citation":{"chicago":"Kampjut, Domen, Julia Steiner, and Leonid A Sazanov. “Cryo-EM Grid Optimization for Membrane Proteins.” <i>IScience</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.isci.2021.102139\">https://doi.org/10.1016/j.isci.2021.102139</a>.","apa":"Kampjut, D., Steiner, J., &#38; Sazanov, L. A. (2021). Cryo-EM grid optimization for membrane proteins. <i>IScience</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.isci.2021.102139\">https://doi.org/10.1016/j.isci.2021.102139</a>","mla":"Kampjut, Domen, et al. “Cryo-EM Grid Optimization for Membrane Proteins.” <i>IScience</i>, vol. 24, no. 3, 102139, Elsevier, 2021, doi:<a href=\"https://doi.org/10.1016/j.isci.2021.102139\">10.1016/j.isci.2021.102139</a>.","ieee":"D. Kampjut, J. Steiner, and L. A. Sazanov, “Cryo-EM grid optimization for membrane proteins,” <i>iScience</i>, vol. 24, no. 3. Elsevier, 2021.","ama":"Kampjut D, Steiner J, Sazanov LA. Cryo-EM grid optimization for membrane proteins. <i>iScience</i>. 2021;24(3). doi:<a href=\"https://doi.org/10.1016/j.isci.2021.102139\">10.1016/j.isci.2021.102139</a>","ista":"Kampjut D, Steiner J, Sazanov LA. 2021. Cryo-EM grid optimization for membrane proteins. iScience. 24(3), 102139.","short":"D. Kampjut, J. Steiner, L.A. Sazanov, IScience 24 (2021)."},"project":[{"name":"International IST Doctoral Program","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"article_number":"102139","intvolume":"        24","external_id":{"pmid":["33665558"],"isi":["000631646000012"]},"issue":"3","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["2589-0042"]},"status":"public"},{"abstract":[{"text":"Polaritons with directional in-plane propagation and ultralow losses in van der Waals (vdW) crystals promise unprecedented manipulation of light at the nanoscale. However, these polaritons present a crucial limitation: their directional propagation is intrinsically determined by the crystal structure of the host material, imposing forbidden directions of propagation. Here, we demonstrate that directional polaritons (in-plane hyperbolic phonon polaritons) in a vdW crystal (α-phase molybdenum trioxide) can be directed along forbidden directions by inducing an optical topological transition, which emerges when the slab is placed on a substrate with a given negative permittivity (4H–silicon carbide). By visualizing the transition in real space, we observe exotic polaritonic states between mutually orthogonal hyperbolic regimes, which unveil the topological origin of the transition: a gap opening in the dispersion. This work provides insights into optical topological transitions in vdW crystals, which introduce a route to direct light at the nanoscale.","lang":"eng"}],"has_accepted_license":"1","volume":7,"quality_controlled":"1","type":"journal_article","scopus_import":"1","pmid":1,"file_date_updated":"2021-04-19T11:17:29Z","doi":"10.1126/sciadv.abf2690","license":"https://creativecommons.org/licenses/by-nc/4.0/","file":[{"file_size":717489,"file_id":"9343","relation":"main_file","creator":"dernst","success":1,"content_type":"application/pdf","file_name":"2021_ScienceAdv_Duan.pdf","date_created":"2021-04-19T11:17:29Z","date_updated":"2021-04-19T11:17:29Z","checksum":"4b383d4a1d484a71bbc64ecf401bbdbb","access_level":"open_access"}],"department":[{"_id":"NanoFab"}],"publication":"Science Advances","ddc":["530"],"title":"Enabling propagation of anisotropic polaritons along forbidden directions via a topological transition","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png"},"publication_status":"published","day":"02","acknowledgement":"G.Á.-P. and J.T.-G. acknowledge support through the Severo Ochoa Program from the government of the Principality of Asturias (grant nos. PA20-PF-BP19-053 and PA-18-PF-BP17-126, respectively). K.V.V. and V.S.V. acknowledge the Ministry of Science and Higher Education of the Russian Federation (no. 0714-2020-0002). J. M.-S. acknowledges financial support through the Ramón y Cajal Program from the government of Spain and FSE (RYC2018-026196-I). A.Y.N. acknowledges the Spanish Ministry of Science, Innovation and Universities (national project no. MAT201788358-C3-3-R), and the Basque Department of Education (PIBA-2020-1-0014). P.A.-G. acknowledges support from the European Research Council under starting grant no. 715496, 2DNANOPTICA. ","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["2375-2548"]},"status":"public","external_id":{"pmid":["33811076"],"isi":["000636455600027"]},"issue":"14","article_number":"eabf2690","intvolume":"         7","_id":"9334","date_published":"2021-04-02T00:00:00Z","article_processing_charge":"No","citation":{"apa":"Duan, J., Álvarez-Pérez, G., Voronin, K. V., Prieto Gonzalez, I., Taboada-Gutiérrez, J., Volkov, V. S., … Alonso-González, P. (2021). Enabling propagation of anisotropic polaritons along forbidden directions via a topological transition. <i>Science Advances</i>. AAAS. <a href=\"https://doi.org/10.1126/sciadv.abf2690\">https://doi.org/10.1126/sciadv.abf2690</a>","chicago":"Duan, J., G. Álvarez-Pérez, K. V. Voronin, Ivan Prieto Gonzalez, J. Taboada-Gutiérrez, V. S. Volkov, J. Martín-Sánchez, A. Y. Nikitin, and P. Alonso-González. “Enabling Propagation of Anisotropic Polaritons along Forbidden Directions via a Topological Transition.” <i>Science Advances</i>. AAAS, 2021. <a href=\"https://doi.org/10.1126/sciadv.abf2690\">https://doi.org/10.1126/sciadv.abf2690</a>.","ama":"Duan J, Álvarez-Pérez G, Voronin KV, et al. Enabling propagation of anisotropic polaritons along forbidden directions via a topological transition. <i>Science Advances</i>. 2021;7(14). doi:<a href=\"https://doi.org/10.1126/sciadv.abf2690\">10.1126/sciadv.abf2690</a>","mla":"Duan, J., et al. “Enabling Propagation of Anisotropic Polaritons along Forbidden Directions via a Topological Transition.” <i>Science Advances</i>, vol. 7, no. 14, eabf2690, AAAS, 2021, doi:<a href=\"https://doi.org/10.1126/sciadv.abf2690\">10.1126/sciadv.abf2690</a>.","ieee":"J. Duan <i>et al.</i>, “Enabling propagation of anisotropic polaritons along forbidden directions via a topological transition,” <i>Science Advances</i>, vol. 7, no. 14. AAAS, 2021.","ista":"Duan J, Álvarez-Pérez G, Voronin KV, Prieto Gonzalez I, Taboada-Gutiérrez J, Volkov VS, Martín-Sánchez J, Nikitin AY, Alonso-González P. 2021. Enabling propagation of anisotropic polaritons along forbidden directions via a topological transition. Science Advances. 7(14), eabf2690.","short":"J. Duan, G. Álvarez-Pérez, K.V. Voronin, I. Prieto Gonzalez, J. Taboada-Gutiérrez, V.S. Volkov, J. Martín-Sánchez, A.Y. Nikitin, P. Alonso-González, Science Advances 7 (2021)."},"oa":1,"date_updated":"2026-04-02T13:58:21Z","date_created":"2021-04-18T22:01:42Z","month":"04","oa_version":"Published Version","publisher":"AAAS","author":[{"full_name":"Duan, J.","last_name":"Duan","first_name":"J."},{"first_name":"G.","last_name":"Álvarez-Pérez","full_name":"Álvarez-Pérez, G."},{"full_name":"Voronin, K. V.","last_name":"Voronin","first_name":"K. V."},{"first_name":"Ivan","id":"2A307FE2-F248-11E8-B48F-1D18A9856A87","last_name":"Prieto Gonzalez","orcid":"0000-0002-7370-5357","full_name":"Prieto Gonzalez, Ivan"},{"full_name":"Taboada-Gutiérrez, J.","first_name":"J.","last_name":"Taboada-Gutiérrez"},{"first_name":"V. S.","last_name":"Volkov","full_name":"Volkov, V. S."},{"first_name":"J.","last_name":"Martín-Sánchez","full_name":"Martín-Sánchez, J."},{"last_name":"Nikitin","first_name":"A. Y.","full_name":"Nikitin, A. Y."},{"full_name":"Alonso-González, P.","last_name":"Alonso-González","first_name":"P."}],"article_type":"original","year":"2021","isi":1},{"date_updated":"2026-04-02T14:00:37Z","date_created":"2021-05-23T22:01:44Z","oa":1,"citation":{"ista":"Cipolloni G, Erdös L, Schröder DJ. 2021. Fluctuation around the circular law for random matrices with real entries. Electronic Journal of Probability. 26, 24.","short":"G. Cipolloni, L. Erdös, D.J. Schröder, Electronic Journal of Probability 26 (2021).","apa":"Cipolloni, G., Erdös, L., &#38; Schröder, D. J. (2021). Fluctuation around the circular law for random matrices with real entries. <i>Electronic Journal of Probability</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/21-EJP591\">https://doi.org/10.1214/21-EJP591</a>","chicago":"Cipolloni, Giorgio, László Erdös, and Dominik J Schröder. “Fluctuation around the Circular Law for Random Matrices with Real Entries.” <i>Electronic Journal of Probability</i>. Institute of Mathematical Statistics, 2021. <a href=\"https://doi.org/10.1214/21-EJP591\">https://doi.org/10.1214/21-EJP591</a>.","ama":"Cipolloni G, Erdös L, Schröder DJ. Fluctuation around the circular law for random matrices with real entries. <i>Electronic Journal of Probability</i>. 2021;26. doi:<a href=\"https://doi.org/10.1214/21-EJP591\">10.1214/21-EJP591</a>","ieee":"G. Cipolloni, L. Erdös, and D. J. Schröder, “Fluctuation around the circular law for random matrices with real entries,” <i>Electronic Journal of Probability</i>, vol. 26. Institute of Mathematical Statistics, 2021.","mla":"Cipolloni, Giorgio, et al. “Fluctuation around the Circular Law for Random Matrices with Real Entries.” <i>Electronic Journal of Probability</i>, vol. 26, 24, Institute of Mathematical Statistics, 2021, doi:<a href=\"https://doi.org/10.1214/21-EJP591\">10.1214/21-EJP591</a>."},"article_processing_charge":"No","date_published":"2021-03-23T00:00:00Z","_id":"9412","year":"2021","isi":1,"author":[{"orcid":"0000-0002-4901-7992","full_name":"Cipolloni, Giorgio","last_name":"Cipolloni","first_name":"Giorgio","id":"42198EFA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","first_name":"László","full_name":"Erdös, László","orcid":"0000-0001-5366-9603"},{"first_name":"Dominik J","id":"408ED176-F248-11E8-B48F-1D18A9856A87","last_name":"Schröder","orcid":"0000-0002-2904-1856","full_name":"Schröder, Dominik J"}],"publisher":"Institute of Mathematical Statistics","month":"03","oa_version":"Published Version","external_id":{"isi":["000641855600001"],"arxiv":["2002.02438"]},"status":"public","publication_identifier":{"eissn":["1083-6489"]},"language":[{"iso":"eng"}],"project":[{"call_identifier":"H2020","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385"}],"intvolume":"        26","arxiv":1,"article_number":"24","department":[{"_id":"LaEr"}],"file":[{"relation":"main_file","file_id":"9423","file_size":865148,"access_level":"open_access","file_name":"2021_EJP_Cipolloni.pdf","content_type":"application/pdf","date_created":"2021-05-25T13:24:19Z","checksum":"864ab003ad4cffea783f65aa8c2ba69f","date_updated":"2021-05-25T13:24:19Z","creator":"kschuh","success":1}],"ec_funded":1,"doi":"10.1214/21-EJP591","file_date_updated":"2021-05-25T13:24:19Z","day":"23","publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","title":"Fluctuation around the circular law for random matrices with real entries","ddc":["510"],"publication":"Electronic Journal of Probability","has_accepted_license":"1","abstract":[{"lang":"eng","text":"We extend our recent result [22] on the central limit theorem for the linear eigenvalue statistics of non-Hermitian matrices X with independent, identically distributed complex entries to the real symmetry class. We find that the expectation and variance substantially differ from their complex counterparts, reflecting (i) the special spectral symmetry of real matrices onto the real axis; and (ii) the fact that real i.i.d. matrices have many real eigenvalues. Our result generalizes the previously known special cases where either the test function is analytic [49] or the first four moments of the matrix elements match the real Gaussian [59, 44]. The key element of the proof is the analysis of several weakly dependent Dyson Brownian motions (DBMs). The conceptual novelty of the real case compared with [22] is that the correlation structure of the stochastic differentials in each individual DBM is non-trivial, potentially even jeopardising its well-posedness."}],"scopus_import":"1","quality_controlled":"1","type":"journal_article","volume":26},{"scopus_import":"1","type":"journal_article","quality_controlled":"1","volume":6,"has_accepted_license":"1","abstract":[{"text":"The multimeric matrix (M) protein of clinically relevant paramyxoviruses orchestrates assembly and budding activity of viral particles at the plasma membrane (PM). We identified within the canine distemper virus (CDV) M protein two microdomains, potentially assuming α-helix structures, which are essential for membrane budding activity. Remarkably, while two rationally designed microdomain M mutants (E89R, microdomain 1 and L239D, microdomain 2) preserved proper folding, dimerization, interaction with the nucleocapsid protein, localization at and deformation of the PM, the virus-like particle formation, as well as production of infectious virions (as monitored using a membrane budding-complementation system), were, in sharp contrast, strongly impaired. Of major importance, raster image correlation spectroscopy (RICS) revealed that both microdomains contributed to finely tune M protein mobility specifically at the PM. Collectively, our data highlighted the cornerstone membrane budding-priming activity of two spatially discrete M microdomains, potentially by coordinating the assembly of productive higher oligomers at the PM.","lang":"eng"}],"acknowledgement":"This work was supported by the Swiss National Science Foundation (referencenumber 310030_173185 to P. P.).","day":"14","publication_status":"published","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication":"mSphere","title":"Oligomerization and cell egress controlled by two microdomains of canine distemper virus matrix protein","ddc":["570"],"department":[{"_id":"Bio"}],"file":[{"access_level":"open_access","content_type":"application/pdf","file_name":"2021_mSphere_Gast.pdf","date_updated":"2021-05-04T12:41:38Z","checksum":"310748d140c8838335c1314431095898","date_created":"2021-05-04T12:41:38Z","creator":"kschuh","success":1,"relation":"main_file","file_id":"9370","file_size":3379349}],"doi":"10.1128/mSphere.01024-20","file_date_updated":"2021-05-04T12:41:38Z","pmid":1,"intvolume":"         6","article_number":"e01024-20","issue":"2","external_id":{"isi":["000663823400025"],"pmid":["33853875"]},"status":"public","publication_identifier":{"eissn":["2379-5042"]},"language":[{"iso":"eng"}],"isi":1,"year":"2021","author":[{"full_name":"Gast, Matthieu","last_name":"Gast","first_name":"Matthieu"},{"full_name":"Kadzioch, Nicole P.","first_name":"Nicole P.","last_name":"Kadzioch"},{"full_name":"Milius, Doreen","last_name":"Milius","first_name":"Doreen","id":"384050BC-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Francesco","last_name":"Origgi","full_name":"Origgi, Francesco"},{"full_name":"Plattet, Philippe","last_name":"Plattet","first_name":"Philippe"}],"month":"04","oa_version":"Published Version","publisher":"American Society for Microbiology","date_created":"2021-05-02T22:01:28Z","date_updated":"2026-04-02T13:58:38Z","oa":1,"article_processing_charge":"No","citation":{"short":"M. Gast, N.P. Kadzioch, D. Milius, F. Origgi, P. Plattet, MSphere 6 (2021).","ista":"Gast M, Kadzioch NP, Milius D, Origgi F, Plattet P. 2021. Oligomerization and cell egress controlled by two microdomains of canine distemper virus matrix protein. mSphere. 6(2), e01024-20.","mla":"Gast, Matthieu, et al. “Oligomerization and Cell Egress Controlled by Two Microdomains of Canine Distemper Virus Matrix Protein.” <i>MSphere</i>, vol. 6, no. 2, e01024-20, American Society for Microbiology, 2021, doi:<a href=\"https://doi.org/10.1128/mSphere.01024-20\">10.1128/mSphere.01024-20</a>.","ieee":"M. Gast, N. P. Kadzioch, D. Milius, F. Origgi, and P. Plattet, “Oligomerization and cell egress controlled by two microdomains of canine distemper virus matrix protein,” <i>mSphere</i>, vol. 6, no. 2. American Society for Microbiology, 2021.","ama":"Gast M, Kadzioch NP, Milius D, Origgi F, Plattet P. Oligomerization and cell egress controlled by two microdomains of canine distemper virus matrix protein. <i>mSphere</i>. 2021;6(2). doi:<a href=\"https://doi.org/10.1128/mSphere.01024-20\">10.1128/mSphere.01024-20</a>","chicago":"Gast, Matthieu, Nicole P. Kadzioch, Doreen Milius, Francesco Origgi, and Philippe Plattet. “Oligomerization and Cell Egress Controlled by Two Microdomains of Canine Distemper Virus Matrix Protein.” <i>MSphere</i>. American Society for Microbiology, 2021. <a href=\"https://doi.org/10.1128/mSphere.01024-20\">https://doi.org/10.1128/mSphere.01024-20</a>.","apa":"Gast, M., Kadzioch, N. P., Milius, D., Origgi, F., &#38; Plattet, P. (2021). Oligomerization and cell egress controlled by two microdomains of canine distemper virus matrix protein. <i>MSphere</i>. American Society for Microbiology. <a href=\"https://doi.org/10.1128/mSphere.01024-20\">https://doi.org/10.1128/mSphere.01024-20</a>"},"date_published":"2021-04-14T00:00:00Z","_id":"9361"},{"oa":1,"date_created":"2021-05-02T22:01:28Z","date_updated":"2026-04-02T13:58:56Z","article_processing_charge":"No","citation":{"ama":"Chalk MJ, Tkačik G, Marre O. Inferring the function performed by a recurrent neural network. <i>PLoS ONE</i>. 2021;16(4). doi:<a href=\"https://doi.org/10.1371/journal.pone.0248940\">10.1371/journal.pone.0248940</a>","mla":"Chalk, Matthew J., et al. “Inferring the Function Performed by a Recurrent Neural Network.” <i>PLoS ONE</i>, vol. 16, no. 4, e0248940, Public Library of Science, 2021, doi:<a href=\"https://doi.org/10.1371/journal.pone.0248940\">10.1371/journal.pone.0248940</a>.","ieee":"M. J. Chalk, G. Tkačik, and O. Marre, “Inferring the function performed by a recurrent neural network,” <i>PLoS ONE</i>, vol. 16, no. 4. Public Library of Science, 2021.","apa":"Chalk, M. J., Tkačik, G., &#38; Marre, O. (2021). Inferring the function performed by a recurrent neural network. <i>PLoS ONE</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0248940\">https://doi.org/10.1371/journal.pone.0248940</a>","chicago":"Chalk, Matthew J, Gašper Tkačik, and Olivier Marre. “Inferring the Function Performed by a Recurrent Neural Network.” <i>PLoS ONE</i>. Public Library of Science, 2021. <a href=\"https://doi.org/10.1371/journal.pone.0248940\">https://doi.org/10.1371/journal.pone.0248940</a>.","short":"M.J. Chalk, G. Tkačik, O. Marre, PLoS ONE 16 (2021).","ista":"Chalk MJ, Tkačik G, Marre O. 2021. Inferring the function performed by a recurrent neural network. PLoS ONE. 16(4), e0248940."},"_id":"9362","date_published":"2021-04-15T00:00:00Z","isi":1,"year":"2021","article_type":"original","author":[{"full_name":"Chalk, Matthew J","orcid":"0000-0001-7782-4436","last_name":"Chalk","id":"2BAAC544-F248-11E8-B48F-1D18A9856A87","first_name":"Matthew J"},{"orcid":"0000-0002-6699-1455","full_name":"Tkačik, Gašper","first_name":"Gašper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","last_name":"Tkačik"},{"full_name":"Marre, Olivier","first_name":"Olivier","last_name":"Marre"}],"publisher":"Public Library of Science","oa_version":"Published Version","month":"04","external_id":{"isi":["000641474900072"],"pmid":["33857170"]},"issue":"4","language":[{"iso":"eng"}],"status":"public","publication_identifier":{"eissn":["1932-6203"]},"intvolume":"        16","article_number":"e0248940","department":[{"_id":"GaTk"}],"file":[{"file_size":2768282,"relation":"main_file","file_id":"9371","success":1,"creator":"kschuh","access_level":"open_access","date_created":"2021-05-04T13:22:19Z","checksum":"c52da133850307d2031f552d998f00e8","date_updated":"2021-05-04T13:22:19Z","content_type":"application/pdf","file_name":"2021_pone_Chalk.pdf"}],"doi":"10.1371/journal.pone.0248940","pmid":1,"file_date_updated":"2021-05-04T13:22:19Z","day":"15","acknowledgement":"The authors would like to thank Ulisse Ferrari for useful discussions and feedback.","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_status":"published","ddc":["570"],"title":"Inferring the function performed by a recurrent neural network","publication":"PLoS ONE","abstract":[{"lang":"eng","text":"A central goal in systems neuroscience is to understand the functions performed by neural circuits. Previous top-down models addressed this question by comparing the behaviour of an ideal model circuit, optimised to perform a given function, with neural recordings. However, this requires guessing in advance what function is being performed, which may not be possible for many neural systems. To address this, we propose an inverse reinforcement learning (RL) framework for inferring the function performed by a neural network from data. We assume that the responses of each neuron in a network are optimised so as to drive the network towards ‘rewarded’ states, that are desirable for performing a given function. We then show how one can use inverse RL to infer the reward function optimised by the network from observing its responses. This inferred reward function can be used to predict how the neural network should adapt its dynamics to perform the same function when the external environment or network structure changes. This could lead to theoretical predictions about how neural network dynamics adapt to deal with cell death and/or varying sensory stimulus statistics."}],"has_accepted_license":"1","quality_controlled":"1","type":"journal_article","scopus_import":"1","volume":16},{"intvolume":"        31","page":"R428-R429","status":"public","publication_identifier":{"issn":["0960-9822"],"eissn":["1879-0445"]},"language":[{"iso":"eng"}],"issue":"9","external_id":{"pmid":["33974865"],"isi":["000654741200004"]},"author":[{"full_name":"Stankowski, Sean","last_name":"Stankowski","first_name":"Sean","id":"43161670-5719-11EA-8025-FABC3DDC885E"},{"last_name":"Ravinet","first_name":"Mark","full_name":"Ravinet, Mark"}],"publisher":"Cell Press","month":"05","oa_version":"Published Version","year":"2021","isi":1,"article_type":"original","article_processing_charge":"No","citation":{"apa":"Stankowski, S., &#38; Ravinet, M. (2021). Quantifying the use of species concepts. <i>Current Biology</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cub.2021.03.060\">https://doi.org/10.1016/j.cub.2021.03.060</a>","chicago":"Stankowski, Sean, and Mark Ravinet. “Quantifying the Use of Species Concepts.” <i>Current Biology</i>. Cell Press, 2021. <a href=\"https://doi.org/10.1016/j.cub.2021.03.060\">https://doi.org/10.1016/j.cub.2021.03.060</a>.","ama":"Stankowski S, Ravinet M. Quantifying the use of species concepts. <i>Current Biology</i>. 2021;31(9):R428-R429. doi:<a href=\"https://doi.org/10.1016/j.cub.2021.03.060\">10.1016/j.cub.2021.03.060</a>","ieee":"S. Stankowski and M. Ravinet, “Quantifying the use of species concepts,” <i>Current Biology</i>, vol. 31, no. 9. Cell Press, pp. R428–R429, 2021.","mla":"Stankowski, Sean, and Mark Ravinet. “Quantifying the Use of Species Concepts.” <i>Current Biology</i>, vol. 31, no. 9, Cell Press, 2021, pp. R428–29, doi:<a href=\"https://doi.org/10.1016/j.cub.2021.03.060\">10.1016/j.cub.2021.03.060</a>.","ista":"Stankowski S, Ravinet M. 2021. Quantifying the use of species concepts. Current Biology. 31(9), R428–R429.","short":"S. Stankowski, M. Ravinet, Current Biology 31 (2021) R428–R429."},"date_published":"2021-05-10T00:00:00Z","_id":"9392","date_updated":"2026-04-02T13:59:25Z","date_created":"2021-05-16T22:01:46Z","oa":1,"scopus_import":"1","quality_controlled":"1","type":"journal_article","volume":31,"corr_author":"1","abstract":[{"lang":"eng","text":"Humans conceptualize the diversity of life by classifying individuals into types we call ‘species’1. The species we recognize influence political and financial decisions and guide our understanding of how units of diversity evolve and interact. Although the idea of species may seem intuitive, a debate about the best way to define them has raged even before Darwin2. So much energy has been devoted to the so-called ‘species problem’ that no amount of discourse will ever likely solve it2,3. Dozens of species concepts are currently recognized3, but we lack a concrete understanding of how much researchers actually disagree and the factors that cause them to think differently1,2. To address this, we used a survey to quantify the species problem for the first time. The results indicate that the disagreement is extensive: two randomly chosen respondents will most likely disagree on the nature of species. The probability of disagreement is not predicted by researcher experience or broad study system, but tended to be lower among researchers with similar focus, training and who study the same organism. Should we see this diversity of perspectives as a problem? We argue that we should not."}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.cub.2021.03.060"}],"publication":"Current Biology","title":"Quantifying the use of species concepts","acknowledgement":"We thank Christopher Cooney, Martin Garlovsky, Anja M. Westram, Carina Baskett, Stefanie Belohlavy, Michal Hledik, Arka Pal, Nicholas H. Barton, Roger K. Butlin and members of the University of Sheffield Speciation Journal Club for feedback on draft survey questions and/or comments on a draft manuscript. Three anonymous reviewers gave thoughtful feedback that improved the manuscript. We thank Ahmad Nadeem, who was paid to build the Shiny app. We are especially grateful to everyone who took part in the survey. Ethical approval for the survey was obtained through the University of Sheffield Ethics Review Procedure (Application 029768). S.S. was supported by a NERC grant awarded to Roger K. Butlin.","day":"10","publication_status":"published","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","doi":"10.1016/j.cub.2021.03.060","pmid":1,"department":[{"_id":"NiBa"}]},{"isi":1,"year":"2021","article_type":"original","author":[{"last_name":"Huber","first_name":"David","full_name":"Huber, David"},{"last_name":"Marchukov","first_name":"Oleksandr V.","full_name":"Marchukov, Oleksandr V."},{"full_name":"Hammer, Hans Werner","last_name":"Hammer","first_name":"Hans Werner"},{"last_name":"Volosniev","first_name":"Artem","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0393-5525","full_name":"Volosniev, Artem"}],"month":"06","publisher":"IOP Publishing","oa_version":"Published Version","date_updated":"2026-04-02T14:01:49Z","date_created":"2021-07-18T22:01:22Z","oa":1,"citation":{"apa":"Huber, D., Marchukov, O. V., Hammer, H. W., &#38; Volosniev, A. (2021). Morphology of three-body quantum states from machine learning. <i>New Journal of Physics</i>. IOP Publishing. <a href=\"https://doi.org/10.1088/1367-2630/ac0576\">https://doi.org/10.1088/1367-2630/ac0576</a>","chicago":"Huber, David, Oleksandr V. Marchukov, Hans Werner Hammer, and Artem Volosniev. “Morphology of Three-Body Quantum States from Machine Learning.” <i>New Journal of Physics</i>. IOP Publishing, 2021. <a href=\"https://doi.org/10.1088/1367-2630/ac0576\">https://doi.org/10.1088/1367-2630/ac0576</a>.","ama":"Huber D, Marchukov OV, Hammer HW, Volosniev A. Morphology of three-body quantum states from machine learning. <i>New Journal of Physics</i>. 2021;23(6). doi:<a href=\"https://doi.org/10.1088/1367-2630/ac0576\">10.1088/1367-2630/ac0576</a>","mla":"Huber, David, et al. “Morphology of Three-Body Quantum States from Machine Learning.” <i>New Journal of Physics</i>, vol. 23, no. 6, 065009, IOP Publishing, 2021, doi:<a href=\"https://doi.org/10.1088/1367-2630/ac0576\">10.1088/1367-2630/ac0576</a>.","ieee":"D. Huber, O. V. Marchukov, H. W. Hammer, and A. Volosniev, “Morphology of three-body quantum states from machine learning,” <i>New Journal of Physics</i>, vol. 23, no. 6. IOP Publishing, 2021.","ista":"Huber D, Marchukov OV, Hammer HW, Volosniev A. 2021. Morphology of three-body quantum states from machine learning. New Journal of Physics. 23(6), 065009.","short":"D. Huber, O.V. Marchukov, H.W. Hammer, A. Volosniev, New Journal of Physics 23 (2021)."},"article_processing_charge":"Yes","date_published":"2021-06-23T00:00:00Z","_id":"9679","project":[{"call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"}],"intvolume":"        23","article_number":"065009","arxiv":1,"issue":"6","external_id":{"arxiv":["2102.04961"],"isi":["000664736300001"]},"status":"public","publication_identifier":{"eissn":["1367-2630"]},"language":[{"iso":"eng"}],"day":"23","acknowledgement":"We thank Aidan Tracy for his input during the initial stages of this project. We thank Nathan Harshman, Achim Richter, Wojciech Rzadkowski, and Dane Hudson Smith for helpful discussions and comments on the manuscript. This work has been supported by European Union's Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 754411 (AGV); by the German Aeronautics and Space Administration (DLR) through Grant No. 50 WM 1957 (OVM); by the Deutsche Forschungsgemeinschaft through Project VO 2437/1-1 (Project No. 413495248) (AGV and HWH); by the Deutsche Forschungsgemeinschaft through Collaborative Research Center SFB 1245 (Project No. 279384907) and by the Bundesministerium für Bildung und Forschung under Contract 05P18RDFN1 (HWH). HWH also thanks the ECT* for hospitality during the workshop 'Universal physics in Many-Body Quantum Systems—From Atoms to Quarks'. This infrastructure is part of a project that has received funding from the European Union's Horizon 2020 research and innovation program under Grant Agreement No. 824093. We acknowledge support by the Deutsche Forschungsgemeinschaft and the Open Access Publishing Fund of Technische Universität Darmstadt.","publication_status":"published","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"ddc":["530"],"title":"Morphology of three-body quantum states from machine learning","publication":"New Journal of Physics","department":[{"_id":"MiLe"}],"file":[{"file_size":3868445,"relation":"main_file","file_id":"9690","success":1,"creator":"cziletti","access_level":"open_access","file_name":"2021_NewJPhys_Huber.pdf","date_created":"2021-07-19T11:47:16Z","content_type":"application/pdf","date_updated":"2021-07-19T11:47:16Z","checksum":"e39164ce7ea228d287cf8924e1a0f9fe"}],"ec_funded":1,"doi":"10.1088/1367-2630/ac0576","file_date_updated":"2021-07-19T11:47:16Z","scopus_import":"1","type":"journal_article","quality_controlled":"1","volume":23,"has_accepted_license":"1","abstract":[{"text":"The relative motion of three impenetrable particles on a ring, in our case two identical fermions and one impurity, is isomorphic to a triangular quantum billiard. Depending on the ratio κ of the impurity and fermion masses, the billiards can be integrable or non-integrable (also referred to in the main text as chaotic). To set the stage, we first investigate the energy level distributions of the billiards as a function of 1/κ ∈ [0, 1] and find no evidence of integrable cases beyond the limiting values 1/κ = 1 and 1/κ = 0. Then, we use machine learning tools to analyze properties of probability distributions of individual quantum states. We find that convolutional neural networks can correctly classify integrable and non-integrable states. The decisive features of the wave functions are the normalization and a large number of zero elements, corresponding to the existence of a nodal line. The network achieves typical accuracies of 97%, suggesting that machine learning tools can be used to analyze and classify the morphology of probability densities obtained in theory or experiment.","lang":"eng"}]},{"_id":"9410","date_published":"2021-05-12T00:00:00Z","article_processing_charge":"No","citation":{"apa":"Lagator, M., Uecker, H., &#38; Neve, P. (2021). Adaptation at different points along antibiotic concentration gradients. <i>Biology Letters</i>. Royal Society of London. <a href=\"https://doi.org/10.1098/rsbl.2020.0913\">https://doi.org/10.1098/rsbl.2020.0913</a>","chicago":"Lagator, Mato, Hildegard Uecker, and Paul Neve. “Adaptation at Different Points along Antibiotic Concentration Gradients.” <i>Biology Letters</i>. Royal Society of London, 2021. <a href=\"https://doi.org/10.1098/rsbl.2020.0913\">https://doi.org/10.1098/rsbl.2020.0913</a>.","ama":"Lagator M, Uecker H, Neve P. Adaptation at different points along antibiotic concentration gradients. <i>Biology letters</i>. 2021;17(5). doi:<a href=\"https://doi.org/10.1098/rsbl.2020.0913\">10.1098/rsbl.2020.0913</a>","mla":"Lagator, Mato, et al. “Adaptation at Different Points along Antibiotic Concentration Gradients.” <i>Biology Letters</i>, vol. 17, no. 5, 20200913, Royal Society of London, 2021, doi:<a href=\"https://doi.org/10.1098/rsbl.2020.0913\">10.1098/rsbl.2020.0913</a>.","ieee":"M. Lagator, H. Uecker, and P. Neve, “Adaptation at different points along antibiotic concentration gradients,” <i>Biology letters</i>, vol. 17, no. 5. Royal Society of London, 2021.","ista":"Lagator M, Uecker H, Neve P. 2021. Adaptation at different points along antibiotic concentration gradients. Biology letters. 17(5), 20200913.","short":"M. Lagator, H. Uecker, P. Neve, Biology Letters 17 (2021)."},"oa":1,"date_updated":"2026-04-02T14:02:44Z","date_created":"2021-05-23T22:01:43Z","oa_version":"Published Version","month":"05","publisher":"Royal Society of London","author":[{"full_name":"Lagator, Mato","last_name":"Lagator","first_name":"Mato","id":"345D25EC-F248-11E8-B48F-1D18A9856A87"},{"id":"2DB8F68A-F248-11E8-B48F-1D18A9856A87","first_name":"Hildegard","last_name":"Uecker","full_name":"Uecker, Hildegard","orcid":"0000-0001-9435-2813"},{"full_name":"Neve, Paul","last_name":"Neve","first_name":"Paul"}],"isi":1,"year":"2021","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["1744-957X"]},"status":"public","external_id":{"pmid":[" 33975485"],"isi":["000651501400001"]},"issue":"5","article_number":"20200913","intvolume":"        17","project":[{"call_identifier":"FP7","name":"Limits to selection in biology and in evolutionary computation","grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425"}],"file_date_updated":"2021-05-25T14:09:03Z","pmid":1,"doi":"10.1098/rsbl.2020.0913","file":[{"file_size":726759,"file_id":"9425","relation":"main_file","creator":"kschuh","success":1,"date_created":"2021-05-25T14:09:03Z","checksum":"9c13c1f5af7609c97c741f11d293188a","file_name":"2021_BiologyLetters_Lagator.pdf","date_updated":"2021-05-25T14:09:03Z","content_type":"application/pdf","access_level":"open_access"}],"ec_funded":1,"department":[{"_id":"NiBa"}],"publication":"Biology letters","title":"Adaptation at different points along antibiotic concentration gradients","ddc":["570"],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","day":"12","acknowledgement":"We would like to thank Martin Ackermann, Camilo Barbosa, Nick Barton, Jonathan Bollback, Sebastian Bonhoeffer, Nick Colegrave, Calin Guet, Alex Hall, Sally Otto, Tiago Paixao, Srdjan Sarikas, Hinrich Schulenburg, Marjon de Vos and Michael Whitlock for insightful support.","abstract":[{"text":"Antibiotic concentrations vary dramatically in the body and the environment. Hence, understanding the dynamics of resistance evolution along antibiotic concentration gradients is critical for predicting and slowing the emergence and spread of resistance. While it has been shown that increasing the concentration of an antibiotic slows resistance evolution, how adaptation to one antibiotic concentration correlates with fitness at other points along the gradient has not received much attention. Here, we selected populations of Escherichia coli at several points along a concentration gradient for three different antibiotics, asking how rapidly resistance evolved and whether populations became specialized to the antibiotic concentration they were selected on. Populations selected at higher concentrations evolved resistance more slowly but exhibited equal or higher fitness across the whole gradient. Populations selected at lower concentrations evolved resistance rapidly, but overall fitness in the presence of antibiotics was lower. However, these populations readily adapted to higher concentrations upon subsequent selection. Our results indicate that resistance management strategies must account not only for the rates of resistance evolution but also for the fitness of evolved strains.","lang":"eng"}],"has_accepted_license":"1","corr_author":"1","volume":17,"type":"journal_article","quality_controlled":"1","scopus_import":"1"},{"project":[{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"},{"_id":"258DCDE6-B435-11E9-9278-68D0E5697425","grant_number":"338804","name":"Random matrices, universality and disordered quantum systems","call_identifier":"FP7"},{"name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","call_identifier":"H2020"}],"arxiv":1,"external_id":{"arxiv":["1908.00969"],"isi":["000572724600002"]},"publication_identifier":{"issn":["0178-8051"],"eissn":["1432-2064"]},"status":"public","language":[{"iso":"eng"}],"article_type":"original","isi":1,"year":"2021","oa_version":"Published Version","month":"02","publisher":"Springer Nature","author":[{"last_name":"Cipolloni","id":"42198EFA-F248-11E8-B48F-1D18A9856A87","first_name":"Giorgio","full_name":"Cipolloni, Giorgio","orcid":"0000-0002-4901-7992"},{"id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","first_name":"László","last_name":"Erdös","full_name":"Erdös, László","orcid":"0000-0001-5366-9603"},{"orcid":"0000-0002-2904-1856","full_name":"Schröder, Dominik J","last_name":"Schröder","first_name":"Dominik J","id":"408ED176-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2020-10-04T22:01:37Z","date_updated":"2026-04-02T14:03:52Z","oa":1,"date_published":"2021-02-01T00:00:00Z","_id":"8601","citation":{"ista":"Cipolloni G, Erdös L, Schröder DJ. 2021. Edge universality for non-Hermitian random matrices. Probability Theory and Related Fields.","short":"G. Cipolloni, L. Erdös, D.J. Schröder, Probability Theory and Related Fields (2021).","apa":"Cipolloni, G., Erdös, L., &#38; Schröder, D. J. (2021). Edge universality for non-Hermitian random matrices. <i>Probability Theory and Related Fields</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00440-020-01003-7\">https://doi.org/10.1007/s00440-020-01003-7</a>","chicago":"Cipolloni, Giorgio, László Erdös, and Dominik J Schröder. “Edge Universality for Non-Hermitian Random Matrices.” <i>Probability Theory and Related Fields</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/s00440-020-01003-7\">https://doi.org/10.1007/s00440-020-01003-7</a>.","ama":"Cipolloni G, Erdös L, Schröder DJ. Edge universality for non-Hermitian random matrices. <i>Probability Theory and Related Fields</i>. 2021. doi:<a href=\"https://doi.org/10.1007/s00440-020-01003-7\">10.1007/s00440-020-01003-7</a>","ieee":"G. Cipolloni, L. Erdös, and D. J. Schröder, “Edge universality for non-Hermitian random matrices,” <i>Probability Theory and Related Fields</i>. Springer Nature, 2021.","mla":"Cipolloni, Giorgio, et al. “Edge Universality for Non-Hermitian Random Matrices.” <i>Probability Theory and Related Fields</i>, Springer Nature, 2021, doi:<a href=\"https://doi.org/10.1007/s00440-020-01003-7\">10.1007/s00440-020-01003-7</a>."},"article_processing_charge":"Yes (via OA deal)","scopus_import":"1","quality_controlled":"1","type":"journal_article","corr_author":"1","has_accepted_license":"1","abstract":[{"lang":"eng","text":"We consider large non-Hermitian real or complex random matrices X with independent, identically distributed centred entries. We prove that their local eigenvalue statistics near the spectral edge, the unit circle, coincide with those of the Ginibre ensemble, i.e. when the matrix elements of X are Gaussian. This result is the non-Hermitian counterpart of the universality of the Tracy–Widom distribution at the spectral edges of the Wigner ensemble."}],"publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","day":"01","publication":"Probability Theory and Related Fields","ddc":["510"],"title":"Edge universality for non-Hermitian random matrices","ec_funded":1,"file":[{"creator":"dernst","success":1,"content_type":"application/pdf","date_created":"2020-10-05T14:53:40Z","file_name":"2020_ProbTheory_Cipolloni.pdf","checksum":"611ae28d6055e1e298d53a57beb05ef4","date_updated":"2020-10-05T14:53:40Z","access_level":"open_access","file_size":497032,"file_id":"8612","relation":"main_file"}],"department":[{"_id":"LaEr"}],"file_date_updated":"2020-10-05T14:53:40Z","doi":"10.1007/s00440-020-01003-7"},{"article_type":"original","year":"2021","isi":1,"oa_version":"Published Version","month":"03","publisher":"Cambridge University Press","author":[{"orcid":"0000-0002-6854-1343","full_name":"Bossmann, Lea","first_name":"Lea","id":"A2E3BCBE-5FCC-11E9-AA4B-76F3E5697425","last_name":"Bossmann"},{"orcid":"0000-0002-9166-5889","full_name":"Petrat, Sören P","first_name":"Sören P","id":"40AC02DC-F248-11E8-B48F-1D18A9856A87","last_name":"Petrat"},{"orcid":"0000-0002-6781-0521","full_name":"Seiringer, Robert","last_name":"Seiringer","first_name":"Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"}],"oa":1,"date_updated":"2026-04-02T14:02:29Z","date_created":"2021-04-11T22:01:15Z","_id":"9318","date_published":"2021-03-26T00:00:00Z","citation":{"mla":"Bossmann, Lea, et al. “Asymptotic Expansion of Low-Energy Excitations for Weakly Interacting Bosons.” <i>Forum of Mathematics, Sigma</i>, vol. 9, e28, Cambridge University Press, 2021, doi:<a href=\"https://doi.org/10.1017/fms.2021.22\">10.1017/fms.2021.22</a>.","ieee":"L. Bossmann, S. P. Petrat, and R. Seiringer, “Asymptotic expansion of low-energy excitations for weakly interacting bosons,” <i>Forum of Mathematics, Sigma</i>, vol. 9. Cambridge University Press, 2021.","ama":"Bossmann L, Petrat SP, Seiringer R. Asymptotic expansion of low-energy excitations for weakly interacting bosons. <i>Forum of Mathematics, Sigma</i>. 2021;9. doi:<a href=\"https://doi.org/10.1017/fms.2021.22\">10.1017/fms.2021.22</a>","chicago":"Bossmann, Lea, Sören P Petrat, and Robert Seiringer. “Asymptotic Expansion of Low-Energy Excitations for Weakly Interacting Bosons.” <i>Forum of Mathematics, Sigma</i>. Cambridge University Press, 2021. <a href=\"https://doi.org/10.1017/fms.2021.22\">https://doi.org/10.1017/fms.2021.22</a>.","apa":"Bossmann, L., Petrat, S. P., &#38; Seiringer, R. (2021). Asymptotic expansion of low-energy excitations for weakly interacting bosons. <i>Forum of Mathematics, Sigma</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/fms.2021.22\">https://doi.org/10.1017/fms.2021.22</a>","short":"L. Bossmann, S.P. Petrat, R. Seiringer, Forum of Mathematics, Sigma 9 (2021).","ista":"Bossmann L, Petrat SP, Seiringer R. 2021. Asymptotic expansion of low-energy excitations for weakly interacting bosons. Forum of Mathematics, Sigma. 9, e28."},"article_processing_charge":"Yes (via OA deal)","project":[{"name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020"},{"call_identifier":"H2020","grant_number":"694227","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","name":"Analysis of quantum many-body systems"}],"article_number":"e28","intvolume":"         9","external_id":{"isi":["000634006900001"]},"language":[{"iso":"eng"}],"status":"public","publication_identifier":{"eissn":["2050-5094"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_status":"published","day":"26","acknowledgement":"The first author gratefully acknowledges funding from the European Union’s Horizon 2020 research and innovation programme under Marie Skłodowska-Curie Grant Agreement No. 754411. The third author was supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 694227).","publication":"Forum of Mathematics, Sigma","title":"Asymptotic expansion of low-energy excitations for weakly interacting bosons","ddc":["510"],"file":[{"success":1,"creator":"dernst","content_type":"application/pdf","file_name":"2021_ForumMath_Bossmann.pdf","date_created":"2021-04-12T07:15:58Z","checksum":"17a3e6786d1e930cf0c14a880a6d7e92","date_updated":"2021-04-12T07:15:58Z","access_level":"open_access","file_size":883851,"file_id":"9319","relation":"main_file"}],"ec_funded":1,"department":[{"_id":"RoSe"}],"file_date_updated":"2021-04-12T07:15:58Z","doi":"10.1017/fms.2021.22","volume":9,"type":"journal_article","quality_controlled":"1","scopus_import":"1","abstract":[{"text":"We consider a system of N bosons in the mean-field scaling regime for a class of interactions including the repulsive Coulomb potential. We derive an asymptotic expansion of the low-energy eigenstates and the corresponding energies, which provides corrections to Bogoliubov theory to any order in 1/N.","lang":"eng"}],"has_accepted_license":"1"},{"acknowledgement":"We thank Y. Bar Lev, T. Biadse, and, particularly, E. Bairey and B. Katzir for illuminating discussions and their many insights and help. The authors thank N. Lindner for his support throughout this project. We are further grateful to M. Serbyn, A. Kamenev, A. Turner, and S. de Nicola for reading the manuscript and providing good feedback and suggestions. We acknowledge financial support from the Defense Advanced Research Projects Agency through the DRINQS program, Grant No. D18AC00025. T.G. was in part supported by an Aly Kaufman Fellowship at the Technion. T.G. acknowledges funding from the Institute of Science and Technology (IST) Austria and from the European Union’s Horizon 2020 research and innovation program under Marie SkłodowskaCurie Grant Agreement No. 754411.under the Marie Skłodowska-Curie Grant Agreement No.754411.","day":"21","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_status":"published","title":"Impact of drive harmonics on the stability of Floquet many-body localization","publication":"Physical Review B","department":[{"_id":"MaSe"}],"ec_funded":1,"doi":"10.1103/PhysRevB.103.214204","type":"journal_article","quality_controlled":"1","scopus_import":"1","volume":103,"abstract":[{"text":"We investigate how the critical driving amplitude at the Floquet many-body localized (MBL) to ergodic phase transition differs between smooth and nonsmooth drives. To this end, we numerically study a disordered spin-1/2 chain which is periodically driven by a sine or square-wave drive over a wide range of driving frequencies. In both cases the critical driving amplitude increases monotonically with the frequency, and at large frequencies it is identical for the two drives. However, at low and intermediate frequencies the critical amplitude of the square-wave drive depends strongly on the frequency, while that of the sinusoidal drive is almost constant over a wide frequency range. By analyzing the density of drive-induced resonances we conclude that this difference is due to resonances induced by the higher harmonics which are present (absent) in the Fourier spectrum of the square-wave (sine) drive. Furthermore, we suggest a numerically efficient method for estimating the frequency dependence of the critical driving amplitudes for different drives which is based on calculating the density of drive-induced resonances. We conclude that delocalization occurs once the density of drive-induced resonances reaches a critical value determined only by the static system.","lang":"eng"}],"main_file_link":[{"url":"https://arxiv.org/abs/2007.14879","open_access":"1"}],"year":"2021","isi":1,"article_type":"original","author":[{"full_name":"Diringer, Asaf A.","last_name":"Diringer","first_name":"Asaf A."},{"last_name":"Gulden","id":"1083E038-9F73-11E9-A4B5-532AE6697425","first_name":"Tobias","full_name":"Gulden, Tobias","orcid":"0000-0001-6814-7541"}],"publisher":"American Physical Society","month":"06","oa_version":"Preprint","oa":1,"date_updated":"2026-04-02T14:02:07Z","date_created":"2020-08-04T13:03:40Z","article_processing_charge":"No","citation":{"chicago":"Diringer, Asaf A., and Tobias Gulden. “Impact of Drive Harmonics on the Stability of Floquet Many-Body Localization.” <i>Physical Review B</i>. American Physical Society, 2021. <a href=\"https://doi.org/10.1103/PhysRevB.103.214204\">https://doi.org/10.1103/PhysRevB.103.214204</a>.","apa":"Diringer, A. A., &#38; Gulden, T. (2021). Impact of drive harmonics on the stability of Floquet many-body localization. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.103.214204\">https://doi.org/10.1103/PhysRevB.103.214204</a>","ieee":"A. A. Diringer and T. Gulden, “Impact of drive harmonics on the stability of Floquet many-body localization,” <i>Physical Review B</i>, vol. 103, no. 21. American Physical Society, 2021.","mla":"Diringer, Asaf A., and Tobias Gulden. “Impact of Drive Harmonics on the Stability of Floquet Many-Body Localization.” <i>Physical Review B</i>, vol. 103, no. 21, 214204, American Physical Society, 2021, doi:<a href=\"https://doi.org/10.1103/PhysRevB.103.214204\">10.1103/PhysRevB.103.214204</a>.","ama":"Diringer AA, Gulden T. Impact of drive harmonics on the stability of Floquet many-body localization. <i>Physical Review B</i>. 2021;103(21). doi:<a href=\"https://doi.org/10.1103/PhysRevB.103.214204\">10.1103/PhysRevB.103.214204</a>","ista":"Diringer AA, Gulden T. 2021. Impact of drive harmonics on the stability of Floquet many-body localization. Physical Review B. 103(21), 214204.","short":"A.A. Diringer, T. Gulden, Physical Review B 103 (2021)."},"_id":"8198","date_published":"2021-06-21T00:00:00Z","project":[{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"}],"intvolume":"       103","arxiv":1,"article_number":"214204","external_id":{"arxiv":["2007.14879"],"isi":["000664429700005"]},"issue":"21","language":[{"iso":"eng"}],"status":"public","publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]}},{"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"},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_status":"published","day":"22","acknowledgement":"We thank the Bioimaging, Life Science, and Pre-Clinical Facilities at IST Austria; M.P. Postiglione, C. Simbriger, K. Valoskova, C. Schwayer, T. Hussain, M. Pieber, and V. Wimmer for initial experiments, technical support, and/or assistance; R. Shigemoto for sharing iv (Dnah11 mutant) mice; and M. Sixt and all members of the Hippenmeyer lab for discussion. This work was supported by National Institutes of Health grants ( R01-NS050580 to L.L. and F32MH096361 to L.A.S.). L.L. is an investigator of HHMI. N.A. received support from FWF Firnberg-Programm ( T 1031 ). A.H.H. is a recipient of a DOC Fellowship (24812) of the Austrian Academy of Sciences . This work also received support from IST Austria institutional funds , FWF SFB F78 to S.H., the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme ( FP7/2007-2013 ) under REA grant agreement no 618444 to S.H., and the European Research Council (ERC) under the European Union’s Horizon 2020 Research and Innovation Programme (grant agreement no. 725780 LinPro ) to S.H.","ddc":["570"],"publication":"Cell Reports","title":"A genome-wide library of MADM mice for single-cell genetic mosaic analysis","ec_funded":1,"file":[{"success":1,"creator":"asandaue","access_level":"open_access","date_updated":"2021-06-28T14:06:24Z","date_created":"2021-06-28T14:06:24Z","checksum":"d49520fdcbbb5c2f883bddb67cee5d77","content_type":"application/pdf","file_name":"2021_CellReports_Contreras.pdf","file_size":7653149,"relation":"main_file","file_id":"9613"}],"department":[{"_id":"SiHi"},{"_id":"LoSw"},{"_id":"PreCl"}],"file_date_updated":"2021-06-28T14:06:24Z","pmid":1,"doi":"10.1016/j.celrep.2021.109274","volume":35,"type":"journal_article","quality_controlled":"1","scopus_import":"1","abstract":[{"lang":"eng","text":"Mosaic analysis with double markers (MADM) offers one approach to visualize and concomitantly manipulate genetically defined cells in mice with single-cell resolution. MADM applications include the analysis of lineage, single-cell morphology and physiology, genomic imprinting phenotypes, and dissection of cell-autonomous gene functions in vivo in health and disease. Yet, MADM can only be applied to <25% of all mouse genes on select chromosomes to date. To overcome this limitation, we generate transgenic mice with knocked-in MADM cassettes near the centromeres of all 19 autosomes and validate their use across organs. With this resource, >96% of the entire mouse genome can now be subjected to single-cell genetic mosaic analysis. Beyond a proof of principle, we apply our MADM library to systematically trace sister chromatid segregation in distinct mitotic cell lineages. We find striking chromosome-specific biases in segregation patterns, reflecting a putative mechanism for the asymmetric segregation of genetic determinants in somatic stem cell division."}],"has_accepted_license":"1","article_type":"original","isi":1,"year":"2021","publisher":"Cell Press","month":"06","oa_version":"Published Version","author":[{"id":"475990FE-F248-11E8-B48F-1D18A9856A87","first_name":"Ximena","last_name":"Contreras","full_name":"Contreras, Ximena"},{"first_name":"Nicole","id":"4CD6AAC6-F248-11E8-B48F-1D18A9856A87","last_name":"Amberg","orcid":"0000-0002-3183-8207","full_name":"Amberg, Nicole"},{"full_name":"Davaatseren, Amarbayasgalan","last_name":"Davaatseren","id":"70ADC922-B424-11E9-99E3-BA18E6697425","first_name":"Amarbayasgalan"},{"id":"38853E16-F248-11E8-B48F-1D18A9856A87","first_name":"Andi H","last_name":"Hansen","full_name":"Hansen, Andi H"},{"id":"32FE7D7C-F248-11E8-B48F-1D18A9856A87","first_name":"Johanna","last_name":"Sonntag","full_name":"Sonntag, Johanna"},{"full_name":"Andersen, Lill","first_name":"Lill","last_name":"Andersen"},{"full_name":"Bernthaler, Tina","first_name":"Tina","last_name":"Bernthaler"},{"full_name":"Streicher, Carmen","id":"36BCB99C-F248-11E8-B48F-1D18A9856A87","first_name":"Carmen","last_name":"Streicher"},{"full_name":"Heger, Anna-Magdalena","first_name":"Anna-Magdalena","id":"4B76FFD2-F248-11E8-B48F-1D18A9856A87","last_name":"Heger"},{"last_name":"Johnson","first_name":"Randy L.","full_name":"Johnson, Randy L."},{"full_name":"Schwarz, Lindsay A.","first_name":"Lindsay A.","last_name":"Schwarz"},{"full_name":"Luo, Liqun","last_name":"Luo","first_name":"Liqun"},{"full_name":"Rülicke, Thomas","first_name":"Thomas","last_name":"Rülicke"},{"orcid":"0000-0003-2279-1061","full_name":"Hippenmeyer, Simon","first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","last_name":"Hippenmeyer"}],"oa":1,"date_updated":"2026-04-02T14:04:28Z","date_created":"2021-06-27T22:01:48Z","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"PreCl"}],"_id":"9603","date_published":"2021-06-22T00:00:00Z","citation":{"apa":"Contreras, X., Amberg, N., Davaatseren, A., Hansen, A. H., Sonntag, J., Andersen, L., … Hippenmeyer, S. (2021). A genome-wide library of MADM mice for single-cell genetic mosaic analysis. <i>Cell Reports</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.celrep.2021.109274\">https://doi.org/10.1016/j.celrep.2021.109274</a>","chicago":"Contreras, Ximena, Nicole Amberg, Amarbayasgalan Davaatseren, Andi H Hansen, Johanna Sonntag, Lill Andersen, Tina Bernthaler, et al. “A Genome-Wide Library of MADM Mice for Single-Cell Genetic Mosaic Analysis.” <i>Cell Reports</i>. Cell Press, 2021. <a href=\"https://doi.org/10.1016/j.celrep.2021.109274\">https://doi.org/10.1016/j.celrep.2021.109274</a>.","ama":"Contreras X, Amberg N, Davaatseren A, et al. A genome-wide library of MADM mice for single-cell genetic mosaic analysis. <i>Cell Reports</i>. 2021;35(12). doi:<a href=\"https://doi.org/10.1016/j.celrep.2021.109274\">10.1016/j.celrep.2021.109274</a>","mla":"Contreras, Ximena, et al. “A Genome-Wide Library of MADM Mice for Single-Cell Genetic Mosaic Analysis.” <i>Cell Reports</i>, vol. 35, no. 12, 109274, Cell Press, 2021, doi:<a href=\"https://doi.org/10.1016/j.celrep.2021.109274\">10.1016/j.celrep.2021.109274</a>.","ieee":"X. Contreras <i>et al.</i>, “A genome-wide library of MADM mice for single-cell genetic mosaic analysis,” <i>Cell Reports</i>, vol. 35, no. 12. Cell Press, 2021.","ista":"Contreras X, Amberg N, Davaatseren A, Hansen AH, Sonntag J, Andersen L, Bernthaler T, Streicher C, Heger A-M, Johnson RL, Schwarz LA, Luo L, Rülicke T, Hippenmeyer S. 2021. A genome-wide library of MADM mice for single-cell genetic mosaic analysis. Cell Reports. 35(12), 109274.","short":"X. Contreras, N. Amberg, A. Davaatseren, A.H. Hansen, J. Sonntag, L. Andersen, T. Bernthaler, C. Streicher, A.-M. Heger, R.L. Johnson, L.A. Schwarz, L. Luo, T. Rülicke, S. Hippenmeyer, Cell Reports 35 (2021)."},"article_processing_charge":"No","related_material":{"link":[{"relation":"press_release","url":"https://ist.ac.at/en/news/boost-for-mouse-genetic-analysis/","description":"News on IST Homepage"}]},"project":[{"_id":"2625A13E-B435-11E9-9278-68D0E5697425","grant_number":"24812","name":"Molecular mechanisms of radial neuronal migration"},{"call_identifier":"FP7","name":"Molecular Mechanisms of Cerebral Cortex Development","_id":"25D61E48-B435-11E9-9278-68D0E5697425","grant_number":"618444"},{"call_identifier":"H2020","_id":"260018B0-B435-11E9-9278-68D0E5697425","grant_number":"725780","name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development"}],"article_number":"109274","intvolume":"        35","external_id":{"isi":["000664463600016"],"pmid":["34161767"]},"issue":"12","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["2211-1247"]},"status":"public"},{"page":"e1009479","intvolume":"        17","external_id":{"isi":["000640606700001"],"pmid":["33857132"]},"issue":"4","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["1553-7404"]},"status":"public","isi":1,"year":"2021","month":"04","oa_version":"Published Version","publisher":"Public Library of Science","author":[{"orcid":"0000-0002-5409-8571","full_name":"Inglés Prieto, Álvaro","first_name":"Álvaro","id":"2A9DB292-F248-11E8-B48F-1D18A9856A87","last_name":"Inglés Prieto"},{"last_name":"Furthmann","first_name":"Nikolas","full_name":"Furthmann, Nikolas"},{"first_name":"Samuel H.","last_name":"Crossman","full_name":"Crossman, Samuel H."},{"last_name":"Tichy","first_name":"Alexandra Madelaine","full_name":"Tichy, Alexandra Madelaine"},{"full_name":"Hoyer, Nina","last_name":"Hoyer","first_name":"Nina"},{"last_name":"Petersen","first_name":"Meike","full_name":"Petersen, Meike"},{"last_name":"Zheden","first_name":"Vanessa","id":"39C5A68A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9438-4783","full_name":"Zheden, Vanessa"},{"full_name":"Bicher, Julia","last_name":"Bicher","first_name":"Julia","id":"3CCBB46E-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-7218-7738","full_name":"Gschaider-Reichhart, Eva","last_name":"Gschaider-Reichhart","first_name":"Eva","id":"3FEE232A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"György","id":"3BCEDBE0-F248-11E8-B48F-1D18A9856A87","first_name":"Attila","full_name":"György, Attila","orcid":"0000-0002-1819-198X"},{"orcid":"0000-0001-8323-8353","full_name":"Siekhaus, Daria E","last_name":"Siekhaus","first_name":"Daria E","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Soba, Peter","last_name":"Soba","first_name":"Peter"},{"full_name":"Winklhofer, Konstanze F.","first_name":"Konstanze F.","last_name":"Winklhofer"},{"orcid":"0000-0002-8023-9315","full_name":"Janovjak, Harald L","last_name":"Janovjak","first_name":"Harald L","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87"}],"oa":1,"date_updated":"2026-04-02T14:07:10Z","date_created":"2021-05-02T22:01:29Z","_id":"9363","date_published":"2021-04-01T00:00:00Z","citation":{"short":"Á. Inglés Prieto, N. Furthmann, S.H. Crossman, A.M. Tichy, N. Hoyer, M. Petersen, V. Zheden, J. Bicher, E. Gschaider-Reichhart, A. György, D.E. Siekhaus, P. Soba, K.F. Winklhofer, H.L. Janovjak, PLoS Genetics 17 (2021) e1009479.","ista":"Inglés Prieto Á, Furthmann N, Crossman SH, Tichy AM, Hoyer N, Petersen M, Zheden V, Bicher J, Gschaider-Reichhart E, György A, Siekhaus DE, Soba P, Winklhofer KF, Janovjak HL. 2021. Optogenetic delivery of trophic signals in a genetic model of Parkinson’s disease. PLoS genetics. 17(4), e1009479.","mla":"Inglés Prieto, Álvaro, et al. “Optogenetic Delivery of Trophic Signals in a Genetic Model of Parkinson’s Disease.” <i>PLoS Genetics</i>, vol. 17, no. 4, Public Library of Science, 2021, p. e1009479, doi:<a href=\"https://doi.org/10.1371/journal.pgen.1009479\">10.1371/journal.pgen.1009479</a>.","ieee":"Á. Inglés Prieto <i>et al.</i>, “Optogenetic delivery of trophic signals in a genetic model of Parkinson’s disease,” <i>PLoS genetics</i>, vol. 17, no. 4. Public Library of Science, p. e1009479, 2021.","ama":"Inglés Prieto Á, Furthmann N, Crossman SH, et al. Optogenetic delivery of trophic signals in a genetic model of Parkinson’s disease. <i>PLoS genetics</i>. 2021;17(4):e1009479. doi:<a href=\"https://doi.org/10.1371/journal.pgen.1009479\">10.1371/journal.pgen.1009479</a>","chicago":"Inglés Prieto, Álvaro, Nikolas Furthmann, Samuel H. Crossman, Alexandra Madelaine Tichy, Nina Hoyer, Meike Petersen, Vanessa Zheden, et al. “Optogenetic Delivery of Trophic Signals in a Genetic Model of Parkinson’s Disease.” <i>PLoS Genetics</i>. Public Library of Science, 2021. <a href=\"https://doi.org/10.1371/journal.pgen.1009479\">https://doi.org/10.1371/journal.pgen.1009479</a>.","apa":"Inglés Prieto, Á., Furthmann, N., Crossman, S. H., Tichy, A. M., Hoyer, N., Petersen, M., … Janovjak, H. L. (2021). Optogenetic delivery of trophic signals in a genetic model of Parkinson’s disease. <i>PLoS Genetics</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pgen.1009479\">https://doi.org/10.1371/journal.pgen.1009479</a>"},"article_processing_charge":"No","volume":17,"type":"journal_article","quality_controlled":"1","scopus_import":"1","abstract":[{"lang":"eng","text":"Optogenetics has been harnessed to shed new mechanistic light on current and future therapeutic strategies. This has been to date achieved by the regulation of ion flow and electrical signals in neuronal cells and neural circuits that are known to be affected by disease. In contrast, the optogenetic delivery of trophic biochemical signals, which support cell survival and are implicated in degenerative disorders, has never been demonstrated in an animal model of disease. Here, we reengineered the human and Drosophila melanogaster REarranged during Transfection (hRET and dRET) receptors to be activated by light, creating one-component optogenetic tools termed Opto-hRET and Opto-dRET. Upon blue light stimulation, these receptors robustly induced the MAPK/ERK proliferative signaling pathway in cultured cells. In PINK1B9 flies that exhibit loss of PTEN-induced putative kinase 1 (PINK1), a kinase associated with familial Parkinson’s disease (PD), light activation of Opto-dRET suppressed mitochondrial defects, tissue degeneration and behavioral deficits. In human cells with PINK1 loss-of-function, mitochondrial fragmentation was rescued using Opto-dRET via the PI3K/NF-кB pathway. Our results demonstrate that a light-activated receptor can ameliorate disease hallmarks in a genetic model of PD. The optogenetic delivery of trophic signals is cell type-specific and reversible and thus has the potential to inspire novel strategies towards a spatio-temporal regulation of tissue repair."}],"has_accepted_license":"1","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","day":"01","acknowledgement":"We thank R. Cagan, A. Whitworth and J. Nagpal for fly lines and advice, S. Herlitze for provision of a tissue culture illuminator, and Verian Bader for help with statistical analysis.","title":"Optogenetic delivery of trophic signals in a genetic model of Parkinson's disease","publication":"PLoS genetics","ddc":["570"],"file":[{"file_size":3072764,"relation":"main_file","file_id":"9369","creator":"kschuh","success":1,"access_level":"open_access","checksum":"82a74668f863e8dfb22fdd4f845c92ce","date_updated":"2021-05-04T09:05:27Z","date_created":"2021-05-04T09:05:27Z","content_type":"application/pdf","file_name":"2021_PLOS_Ingles-Prieto.pdf"}],"department":[{"_id":"EM-Fac"},{"_id":"LoSw"},{"_id":"DaSi"}],"file_date_updated":"2021-05-04T09:05:27Z","pmid":1,"doi":"10.1371/journal.pgen.1009479"},{"external_id":{"isi":["000671752100003"],"pmid":["34188036"]},"issue":"1","language":[{"iso":"eng"}],"status":"public","publication_identifier":{"eissn":["2041-1723"]},"project":[{"name":"Quantitative Graph Games: Theory and Applications","grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"},{"name":"Formal Methods for Stochastic Models: Algorithms and Applications","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E","grant_number":"863818","call_identifier":"H2020"},{"name":"Modern Graph Algorithmic Techniques in Formal Verification","grant_number":"P 23499-N23","_id":"2584A770-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"call_identifier":"FWF","name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23"}],"article_number":"4009","intvolume":"        12","oa":1,"date_updated":"2026-04-02T14:04:10Z","date_created":"2021-07-11T22:01:15Z","_id":"9640","date_published":"2021-06-29T00:00:00Z","citation":{"short":"J. Tkadlec, A. Pavlogiannis, K. Chatterjee, M.A. Nowak, Nature Communications 12 (2021).","ista":"Tkadlec J, Pavlogiannis A, Chatterjee K, Nowak MA. 2021. Fast and strong amplifiers of natural selection. Nature Communications. 12(1), 4009.","ieee":"J. Tkadlec, A. Pavlogiannis, K. Chatterjee, and M. A. Nowak, “Fast and strong amplifiers of natural selection,” <i>Nature Communications</i>, vol. 12, no. 1. Springer Nature, 2021.","mla":"Tkadlec, Josef, et al. “Fast and Strong Amplifiers of Natural Selection.” <i>Nature Communications</i>, vol. 12, no. 1, 4009, Springer Nature, 2021, doi:<a href=\"https://doi.org/10.1038/s41467-021-24271-w\">10.1038/s41467-021-24271-w</a>.","ama":"Tkadlec J, Pavlogiannis A, Chatterjee K, Nowak MA. Fast and strong amplifiers of natural selection. <i>Nature Communications</i>. 2021;12(1). doi:<a href=\"https://doi.org/10.1038/s41467-021-24271-w\">10.1038/s41467-021-24271-w</a>","chicago":"Tkadlec, Josef, Andreas Pavlogiannis, Krishnendu Chatterjee, and Martin A. Nowak. “Fast and Strong Amplifiers of Natural Selection.” <i>Nature Communications</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1038/s41467-021-24271-w\">https://doi.org/10.1038/s41467-021-24271-w</a>.","apa":"Tkadlec, J., Pavlogiannis, A., Chatterjee, K., &#38; Nowak, M. A. (2021). Fast and strong amplifiers of natural selection. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-021-24271-w\">https://doi.org/10.1038/s41467-021-24271-w</a>"},"article_processing_charge":"No","article_type":"original","isi":1,"year":"2021","oa_version":"Published Version","month":"06","publisher":"Springer Nature","author":[{"last_name":"Tkadlec","first_name":"Josef","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1097-9684","full_name":"Tkadlec, Josef"},{"last_name":"Pavlogiannis","id":"49704004-F248-11E8-B48F-1D18A9856A87","first_name":"Andreas","full_name":"Pavlogiannis, Andreas","orcid":"0000-0002-8943-0722"},{"last_name":"Chatterjee","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu"},{"last_name":"Nowak","first_name":"Martin A.","full_name":"Nowak, Martin A."}],"abstract":[{"lang":"eng","text":"Selection and random drift determine the probability that novel mutations fixate in a population. Population structure is known to affect the dynamics of the evolutionary process. Amplifiers of selection are population structures that increase the fixation probability of beneficial mutants compared to well-mixed populations. Over the past 15 years, extensive research has produced remarkable structures called strong amplifiers which guarantee that every beneficial mutation fixates with high probability. But strong amplification has come at the cost of considerably delaying the fixation event, which can slow down the overall rate of evolution. However, the precise relationship between fixation probability and time has remained elusive. Here we characterize the slowdown effect of strong amplification. First, we prove that all strong amplifiers must delay the fixation event at least to some extent. Second, we construct strong amplifiers that delay the fixation event only marginally as compared to the well-mixed populations. Our results thus establish a tight relationship between fixation probability and time: Strong amplification always comes at a cost of a slowdown, but more than a marginal slowdown is not needed."}],"has_accepted_license":"1","volume":12,"quality_controlled":"1","type":"journal_article","scopus_import":"1","ec_funded":1,"file":[{"relation":"main_file","file_id":"9692","file_size":628992,"access_level":"open_access","file_name":"2021_NatCoom_Tkadlec.pdf","date_created":"2021-07-19T13:02:20Z","date_updated":"2021-07-19T13:02:20Z","checksum":"5767418926a7f7fb76151de29473dae0","content_type":"application/pdf","success":1,"creator":"cziletti"}],"department":[{"_id":"KrCh"}],"pmid":1,"file_date_updated":"2021-07-19T13:02:20Z","doi":"10.1038/s41467-021-24271-w","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","day":"29","acknowledgement":"K.C. acknowledges support from ERC Start grant no. (279307: Graph Games), ERC Consolidator grant no. (863818: ForM-SMart), Austrian Science Fund (FWF) grant no. P23499-N23 and S11407-N23 (RiSE). M.A.N. acknowledges support from Office of Naval Research grant N00014-16-1-2914 and from the John Templeton Foundation.","title":"Fast and strong amplifiers of natural selection","publication":"Nature Communications","ddc":["510"]},{"project":[{"name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"intvolume":"         4","arxiv":1,"article_number":"252","issue":"1","external_id":{"isi":["000722867600002"],"arxiv":["2101.02020"]},"publication_identifier":{"eissn":["2399-3650"]},"status":"public","language":[{"iso":"eng"}],"isi":1,"year":"2021","article_type":"original","author":[{"first_name":"Rafael E.","last_name":"Barfknecht","full_name":"Barfknecht, Rafael E."},{"last_name":"Foerster","first_name":"Angela","full_name":"Foerster, Angela"},{"full_name":"Zinner, Nikolaj T.","first_name":"Nikolaj T.","last_name":"Zinner"},{"last_name":"Volosniev","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","first_name":"Artem","full_name":"Volosniev, Artem","orcid":"0000-0003-0393-5525"}],"publisher":"Springer Nature","oa_version":"Published Version","month":"11","date_created":"2021-12-05T23:01:39Z","date_updated":"2026-04-02T14:05:00Z","oa":1,"citation":{"mla":"Barfknecht, Rafael E., et al. “Generation of Spin Currents by a Temperature Gradient in a Two-Terminal Device.” <i>Communications Physics</i>, vol. 4, no. 1, 252, Springer Nature, 2021, doi:<a href=\"https://doi.org/10.1038/s42005-021-00753-7\">10.1038/s42005-021-00753-7</a>.","ieee":"R. E. Barfknecht, A. Foerster, N. T. Zinner, and A. Volosniev, “Generation of spin currents by a temperature gradient in a two-terminal device,” <i>Communications Physics</i>, vol. 4, no. 1. Springer Nature, 2021.","ama":"Barfknecht RE, Foerster A, Zinner NT, Volosniev A. Generation of spin currents by a temperature gradient in a two-terminal device. <i>Communications Physics</i>. 2021;4(1). doi:<a href=\"https://doi.org/10.1038/s42005-021-00753-7\">10.1038/s42005-021-00753-7</a>","chicago":"Barfknecht, Rafael E., Angela Foerster, Nikolaj T. Zinner, and Artem Volosniev. “Generation of Spin Currents by a Temperature Gradient in a Two-Terminal Device.” <i>Communications Physics</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1038/s42005-021-00753-7\">https://doi.org/10.1038/s42005-021-00753-7</a>.","apa":"Barfknecht, R. E., Foerster, A., Zinner, N. T., &#38; Volosniev, A. (2021). Generation of spin currents by a temperature gradient in a two-terminal device. <i>Communications Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s42005-021-00753-7\">https://doi.org/10.1038/s42005-021-00753-7</a>","short":"R.E. Barfknecht, A. Foerster, N.T. Zinner, A. Volosniev, Communications Physics 4 (2021).","ista":"Barfknecht RE, Foerster A, Zinner NT, Volosniev A. 2021. Generation of spin currents by a temperature gradient in a two-terminal device. Communications Physics. 4(1), 252."},"article_processing_charge":"No","date_published":"2021-11-26T00:00:00Z","_id":"10401","scopus_import":"1","type":"journal_article","quality_controlled":"1","volume":4,"has_accepted_license":"1","abstract":[{"text":"Theoretical and experimental studies of the interaction between spins and temperature are vital for the development of spin caloritronics, as they dictate the design of future devices. In this work, we propose a two-terminal cold-atom simulator to study that interaction. The proposed quantum simulator consists of strongly interacting atoms that occupy two temperature reservoirs connected by a one-dimensional link. First, we argue that the dynamics in the link can be described using an inhomogeneous Heisenberg spin chain whose couplings are defined by the local temperature. Second, we show the existence of a spin current in a system with a temperature difference by studying the dynamics that follows the spin-flip of an atom in the link. A temperature gradient accelerates the impurity in one direction more than in the other, leading to an overall spin current similar to the spin Seebeck effect.","lang":"eng"}],"day":"26","acknowledgement":"The authors acknowledge support from the European QuantERA ERA-NET Cofund in Quantum Technologies (Project QTFLAG Grant Agreement No. 731473) (R.E.B), CNPq (Conselho Nacional de Desenvolvimento Científico e Tecnológico) Brazil (A.F.), the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411 (A.G.V.), the Independent Research Fund Denmark, the Carlsberg Foundation, and Aarhus University Research Foundation under the Jens Christian Skou fellowship program (N.T.Z).","publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","title":"Generation of spin currents by a temperature gradient in a two-terminal device","ddc":["530"],"publication":"Communications Physics","department":[{"_id":"MiLe"}],"file":[{"success":1,"creator":"alisjak","content_type":"application/pdf","date_created":"2021-12-06T14:53:41Z","file_name":"2021_NatComm_Barfknecht.pdf","checksum":"9097319952cb9a3d96e7fd3aa9813a03","date_updated":"2021-12-06T14:53:41Z","access_level":"open_access","file_size":1068984,"file_id":"10420","relation":"main_file"}],"ec_funded":1,"doi":"10.1038/s42005-021-00753-7","file_date_updated":"2021-12-06T14:53:41Z"},{"abstract":[{"lang":"eng","text":"About eight million animal species are estimated to live on Earth, and all except those belonging to one subphylum are invertebrates. Invertebrates are incredibly diverse in their morphologies, life histories, and in the range of the ecological niches that they occupy. A great variety of modes of reproduction and sex determination systems is also observed among them, and their mosaic-distribution across the phylogeny shows that transitions between them occur frequently and rapidly. Genetic conflict in its various forms is a long-standing theory to explain what drives those evolutionary transitions. Here, we review (1) the different modes of reproduction among invertebrate species, highlighting sexual reproduction as the probable ancestral state; (2) the paradoxical diversity of sex determination systems; (3) the different types of genetic conflicts that could drive the evolution of such different systems."}],"has_accepted_license":"1","quality_controlled":"1","type":"journal_article","scopus_import":"1","volume":12,"doi":"10.3390/genes12081136","pmid":1,"file_date_updated":"2021-08-16T09:49:35Z","department":[{"_id":"BeVi"}],"file":[{"creator":"asandaue","success":1,"date_updated":"2021-08-16T09:49:35Z","checksum":"744e60e56d290a96da3c91a9779f886f","date_created":"2021-08-16T09:49:35Z","content_type":"application/pdf","file_name":"2021_Genes_Picard.pdf","access_level":"open_access","file_size":2297655,"file_id":"9926","relation":"main_file"}],"ec_funded":1,"title":"Diversity of modes of reproduction and sex determination systems in invertebrates, and the putative contribution of genetic conflict","publication":"Genes","ddc":["570"],"day":"01","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_status":"published","language":[{"iso":"eng"}],"status":"public","publication_identifier":{"eissn":["2073-4425"]},"external_id":{"pmid":["34440310"],"isi":["000690475900001"]},"issue":"8","intvolume":"        12","article_number":"1136","project":[{"grant_number":"715257","_id":"250BDE62-B435-11E9-9278-68D0E5697425","name":"Prevalence and Influence of Sexual Antagonism on Genome Evolution","call_identifier":"H2020"}],"citation":{"mla":"Picard, Marion A. L., et al. “Diversity of Modes of Reproduction and Sex Determination Systems in Invertebrates, and the Putative Contribution of Genetic Conflict.” <i>Genes</i>, vol. 12, no. 8, 1136, MDPI, 2021, doi:<a href=\"https://doi.org/10.3390/genes12081136\">10.3390/genes12081136</a>.","ieee":"M. A. L. Picard, B. Vicoso, S. Bertrand, and H. Escriva, “Diversity of modes of reproduction and sex determination systems in invertebrates, and the putative contribution of genetic conflict,” <i>Genes</i>, vol. 12, no. 8. MDPI, 2021.","ama":"Picard MAL, Vicoso B, Bertrand S, Escriva H. Diversity of modes of reproduction and sex determination systems in invertebrates, and the putative contribution of genetic conflict. <i>Genes</i>. 2021;12(8). doi:<a href=\"https://doi.org/10.3390/genes12081136\">10.3390/genes12081136</a>","chicago":"Picard, Marion A L, Beatriz Vicoso, Stéphanie Bertrand, and Hector Escriva. “Diversity of Modes of Reproduction and Sex Determination Systems in Invertebrates, and the Putative Contribution of Genetic Conflict.” <i>Genes</i>. MDPI, 2021. <a href=\"https://doi.org/10.3390/genes12081136\">https://doi.org/10.3390/genes12081136</a>.","apa":"Picard, M. A. L., Vicoso, B., Bertrand, S., &#38; Escriva, H. (2021). Diversity of modes of reproduction and sex determination systems in invertebrates, and the putative contribution of genetic conflict. <i>Genes</i>. MDPI. <a href=\"https://doi.org/10.3390/genes12081136\">https://doi.org/10.3390/genes12081136</a>","short":"M.A.L. Picard, B. Vicoso, S. Bertrand, H. Escriva, Genes 12 (2021).","ista":"Picard MAL, Vicoso B, Bertrand S, Escriva H. 2021. Diversity of modes of reproduction and sex determination systems in invertebrates, and the putative contribution of genetic conflict. Genes. 12(8), 1136."},"article_processing_charge":"Yes","_id":"9908","date_published":"2021-08-01T00:00:00Z","oa":1,"date_created":"2021-08-15T22:01:27Z","date_updated":"2026-04-02T14:05:14Z","author":[{"last_name":"Picard","id":"2C921A7A-F248-11E8-B48F-1D18A9856A87","first_name":"Marion A L","full_name":"Picard, Marion A L","orcid":"0000-0002-8101-2518"},{"full_name":"Vicoso, Beatriz","orcid":"0000-0002-4579-8306","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","last_name":"Vicoso"},{"first_name":"Stéphanie","last_name":"Bertrand","full_name":"Bertrand, Stéphanie"},{"last_name":"Escriva","first_name":"Hector","full_name":"Escriva, Hector"}],"publisher":"MDPI","month":"08","oa_version":"Published Version","isi":1,"year":"2021","article_type":"review"},{"file_date_updated":"2021-03-22T11:01:09Z","pmid":1,"doi":"10.1007/s11005-021-01375-4","file":[{"file_size":397962,"relation":"main_file","file_id":"9273","creator":"dernst","success":1,"access_level":"open_access","date_created":"2021-03-22T11:01:09Z","date_updated":"2021-03-22T11:01:09Z","checksum":"687fef1525789c0950de90468dd81604","file_name":"2021_LettersMathPhysics_Napiorkowski.pdf","content_type":"application/pdf"}],"department":[{"_id":"RoSe"}],"publication":"Letters in Mathematical Physics","ddc":["510"],"title":"Free energy asymptotics of the quantum Heisenberg spin chain","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","day":"09","acknowledgement":"The work of MN was supported by the National Science Centre (NCN) Project Nr. 2016/21/D/ST1/02430. The work of RS was supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 694227).\r\nOpen access funding provided by Institute of Science and Technology (IST Austria).","abstract":[{"text":"We consider the ferromagnetic quantum Heisenberg model in one dimension, for any spin S≥1/2. We give upper and lower bounds on the free energy, proving that at low temperature it is asymptotically equal to the one of an ideal Bose gas of magnons, as predicted by the spin-wave approximation. The trial state used in the upper bound yields an analogous estimate also in the case of two spatial dimensions, which is believed to be sharp at low temperature.","lang":"eng"}],"has_accepted_license":"1","volume":111,"type":"journal_article","quality_controlled":"1","scopus_import":"1","_id":"9256","date_published":"2021-03-09T00:00:00Z","citation":{"apa":"Napiórkowski, M. M., &#38; Seiringer, R. (2021). Free energy asymptotics of the quantum Heisenberg spin chain. <i>Letters in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11005-021-01375-4\">https://doi.org/10.1007/s11005-021-01375-4</a>","chicago":"Napiórkowski, Marcin M, and Robert Seiringer. “Free Energy Asymptotics of the Quantum Heisenberg Spin Chain.” <i>Letters in Mathematical Physics</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/s11005-021-01375-4\">https://doi.org/10.1007/s11005-021-01375-4</a>.","ama":"Napiórkowski MM, Seiringer R. Free energy asymptotics of the quantum Heisenberg spin chain. <i>Letters in Mathematical Physics</i>. 2021;111(2). doi:<a href=\"https://doi.org/10.1007/s11005-021-01375-4\">10.1007/s11005-021-01375-4</a>","ieee":"M. M. Napiórkowski and R. Seiringer, “Free energy asymptotics of the quantum Heisenberg spin chain,” <i>Letters in Mathematical Physics</i>, vol. 111, no. 2. Springer Nature, 2021.","mla":"Napiórkowski, Marcin M., and Robert Seiringer. “Free Energy Asymptotics of the Quantum Heisenberg Spin Chain.” <i>Letters in Mathematical Physics</i>, vol. 111, no. 2, 31, Springer Nature, 2021, doi:<a href=\"https://doi.org/10.1007/s11005-021-01375-4\">10.1007/s11005-021-01375-4</a>.","ista":"Napiórkowski MM, Seiringer R. 2021. Free energy asymptotics of the quantum Heisenberg spin chain. Letters in Mathematical Physics. 111(2), 31.","short":"M.M. Napiórkowski, R. Seiringer, Letters in Mathematical Physics 111 (2021)."},"article_processing_charge":"Yes (via OA deal)","oa":1,"date_created":"2021-03-21T23:01:19Z","date_updated":"2026-04-02T14:06:48Z","publisher":"Springer Nature","month":"03","oa_version":"Published Version","author":[{"last_name":"Napiórkowski","id":"4197AD04-F248-11E8-B48F-1D18A9856A87","first_name":"Marcin M","full_name":"Napiórkowski, Marcin M"},{"last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","first_name":"Robert","full_name":"Seiringer, Robert","orcid":"0000-0002-6781-0521"}],"article_type":"original","isi":1,"year":"2021","language":[{"iso":"eng"}],"status":"public","publication_identifier":{"issn":["0377-9017"],"eissn":["1573-0530"]},"external_id":{"pmid":["33785980"],"isi":["000626837400001"]},"issue":"2","article_number":"31","intvolume":"       111"}]