[{"department":[{"_id":"KrCh"}],"file_date_updated":"2020-07-14T12:46:36Z","ddc":["004"],"date_updated":"2023-02-23T12:26:57Z","status":"public","pubrep_id":"938","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"_id":"512","volume":7,"related_material":{"record":[{"status":"public","id":"5449","relation":"earlier_version"}]},"issue":"1","license":"https://creativecommons.org/licenses/by/4.0/","ec_funded":1,"file":[{"date_created":"2018-12-12T10:18:35Z","file_name":"IST-2018-938-v1+1_2017_Pavlogiannis_Amplification_on.pdf","date_updated":"2020-07-14T12:46:36Z","file_size":1536783,"creator":"system","checksum":"7d05cbdd914e194a019c0f91fb64e9a8","file_id":"5357","content_type":"application/pdf","access_level":"open_access","relation":"main_file"}],"language":[{"iso":"eng"}],"publication_identifier":{"issn":["20452322"]},"publication_status":"published","month":"03","intvolume":" 7","scopus_import":1,"oa_version":"Published Version","abstract":[{"lang":"eng","text":"The fixation probability is the probability that a new mutant introduced in a homogeneous population eventually takes over the entire population. The fixation probability is a fundamental quantity of natural selection, and known to depend on the population structure. Amplifiers of natural selection are population structures which increase the fixation probability of advantageous mutants, as compared to the baseline case of well-mixed populations. In this work we focus on symmetric population structures represented as undirected graphs. In the regime of undirected graphs, the strongest amplifier known has been the Star graph, and the existence of undirected graphs with stronger amplification properties has remained open for over a decade. In this work we present the Comet and Comet-swarm families of undirected graphs. We show that for a range of fitness values of the mutants, the Comet and Cometswarm graphs have fixation probability strictly larger than the fixation probability of the Star graph, for fixed population size and at the limit of large populations, respectively. "}],"title":"Amplification on undirected population structures: Comets beat stars","author":[{"full_name":"Pavlogiannis, Andreas","orcid":"0000-0002-8943-0722","last_name":"Pavlogiannis","first_name":"Andreas","id":"49704004-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Josef","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","last_name":"Tkadlec","full_name":"Tkadlec, Josef","orcid":"0000-0002-1097-9684"},{"first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X"},{"last_name":"Nowak","full_name":"Nowak, Martin","first_name":"Martin"}],"publist_id":"7307","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Pavlogiannis, Andreas, Josef Tkadlec, Krishnendu Chatterjee, and Martin Nowak. “Amplification on Undirected Population Structures: Comets Beat Stars.” Scientific Reports. Nature Publishing Group, 2017. https://doi.org/10.1038/s41598-017-00107-w.","ista":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. 2017. Amplification on undirected population structures: Comets beat stars. Scientific Reports. 7(1), 82.","mla":"Pavlogiannis, Andreas, et al. “Amplification on Undirected Population Structures: Comets Beat Stars.” Scientific Reports, vol. 7, no. 1, 82, Nature Publishing Group, 2017, doi:10.1038/s41598-017-00107-w.","apa":"Pavlogiannis, A., Tkadlec, J., Chatterjee, K., & Nowak, M. (2017). Amplification on undirected population structures: Comets beat stars. Scientific Reports. Nature Publishing Group. https://doi.org/10.1038/s41598-017-00107-w","ama":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. Amplification on undirected population structures: Comets beat stars. Scientific Reports. 2017;7(1). doi:10.1038/s41598-017-00107-w","short":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, M. Nowak, Scientific Reports 7 (2017).","ieee":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, and M. Nowak, “Amplification on undirected population structures: Comets beat stars,” Scientific Reports, vol. 7, no. 1. Nature Publishing Group, 2017."},"project":[{"grant_number":"P 23499-N23","name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF","_id":"2584A770-B435-11E9-9278-68D0E5697425"},{"grant_number":"S11407","name":"Game Theory","call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications"}],"article_number":"82","doi":"10.1038/s41598-017-00107-w","date_published":"2017-03-06T00:00:00Z","date_created":"2018-12-11T11:46:53Z","day":"06","publication":"Scientific Reports","has_accepted_license":"1","year":"2017","publisher":"Nature Publishing Group","quality_controlled":"1","oa":1},{"article_number":"40012","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","citation":{"ista":"Altmeyer S, Do Y, Lai Y. 2017. Dynamics of ferrofluidic flow in the Taylor-Couette system with a small aspect ratio. Scientific Reports. 7, 40012.","chicago":"Altmeyer, Sebastian, Younghae Do, and Ying Lai. “Dynamics of Ferrofluidic Flow in the Taylor-Couette System with a Small Aspect Ratio.” Scientific Reports. Nature Publishing Group, 2017. https://doi.org/10.1038/srep40012.","ieee":"S. Altmeyer, Y. Do, and Y. Lai, “Dynamics of ferrofluidic flow in the Taylor-Couette system with a small aspect ratio,” Scientific Reports, vol. 7. Nature Publishing Group, 2017.","short":"S. Altmeyer, Y. Do, Y. Lai, Scientific Reports 7 (2017).","ama":"Altmeyer S, Do Y, Lai Y. Dynamics of ferrofluidic flow in the Taylor-Couette system with a small aspect ratio. Scientific Reports. 2017;7. doi:10.1038/srep40012","apa":"Altmeyer, S., Do, Y., & Lai, Y. (2017). Dynamics of ferrofluidic flow in the Taylor-Couette system with a small aspect ratio. Scientific Reports. Nature Publishing Group. https://doi.org/10.1038/srep40012","mla":"Altmeyer, Sebastian, et al. “Dynamics of Ferrofluidic Flow in the Taylor-Couette System with a Small Aspect Ratio.” Scientific Reports, vol. 7, 40012, Nature Publishing Group, 2017, doi:10.1038/srep40012."},"title":"Dynamics of ferrofluidic flow in the Taylor-Couette system with a small aspect ratio","external_id":{"isi":["000391269700001"]},"article_processing_charge":"No","publist_id":"6198","author":[{"id":"2EE67FDC-F248-11E8-B48F-1D18A9856A87","first_name":"Sebastian","orcid":"0000-0001-5964-0203","full_name":"Altmeyer, Sebastian","last_name":"Altmeyer"},{"last_name":"Do","full_name":"Do, Younghae","first_name":"Younghae"},{"last_name":"Lai","full_name":"Lai, Ying","first_name":"Ying"}],"oa":1,"publisher":"Nature Publishing Group","quality_controlled":"1","publication":"Scientific Reports","day":"06","year":"2017","isi":1,"has_accepted_license":"1","date_created":"2018-12-11T11:50:28Z","doi":"10.1038/srep40012","date_published":"2017-01-06T00:00:00Z","_id":"1160","pubrep_id":"743","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","ddc":["532"],"date_updated":"2023-09-20T11:28:49Z","file_date_updated":"2020-07-14T12:44:36Z","department":[{"_id":"BjHo"}],"oa_version":"Published Version","abstract":[{"lang":"eng","text":"We investigate fundamental nonlinear dynamics of ferrofluidic Taylor-Couette flow - flow confined be-tween two concentric independently rotating cylinders - consider small aspect ratio by solving the ferro-hydrodynamical equations, carrying out systematic bifurcation analysis. Without magnetic field, we find steady flow patterns, previously observed with a simple fluid, such as those containing normal one- or two vortex cells, as well as anomalous one-cell and twin-cell flow states. However, when a symmetry-breaking transverse magnetic field is present, all flow states exhibit stimulated, finite two-fold mode. Various bifurcations between steady and unsteady states can occur, corresponding to the transitions between the two-cell and one-cell states. While unsteady, axially oscillating flow states can arise, we also detect the emergence of new unsteady flow states. In particular, we uncover two new states: one contains only the azimuthally oscillating solution in the configuration of the twin-cell flow state, and an-other a rotating flow state. Topologically, these flow states are a limit cycle and a quasiperiodic solution on a two-torus, respectively. Emergence of new flow states in addition to observed ones with classical fluid, indicates that richer but potentially more controllable dynamics in ferrofluidic flows, as such flow states depend on the external magnetic field."}],"intvolume":" 7","month":"01","scopus_import":"1","language":[{"iso":"eng"}],"file":[{"creator":"system","file_size":4546835,"date_updated":"2020-07-14T12:44:36Z","file_name":"IST-2017-743-v1+1_srep40012.pdf","date_created":"2018-12-12T10:10:16Z","relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_id":"4802","checksum":"694aa70399444570825099c1a7ec91f2"}],"publication_status":"published","publication_identifier":{"issn":["20452322"]},"volume":7},{"article_number":"41906","project":[{"call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"citation":{"mla":"Kuhn, Benjamin, et al. “Flavonol-Induced Changes in PIN2 Polarity and Auxin Transport in the Arabidopsis Thaliana Rol1-2 Mutant Require Phosphatase Activity.” Scientific Reports, vol. 7, 41906, Nature Publishing Group, 2017, doi:10.1038/srep41906.","apa":"Kuhn, B., Nodzyński, T., Errafi, S., Bucher, R., Gupta, S., Aryal, B., … Ringli, C. (2017). Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity. Scientific Reports. Nature Publishing Group. https://doi.org/10.1038/srep41906","ama":"Kuhn B, Nodzyński T, Errafi S, et al. Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity. Scientific Reports. 2017;7. doi:10.1038/srep41906","ieee":"B. Kuhn et al., “Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity,” Scientific Reports, vol. 7. Nature Publishing Group, 2017.","short":"B. Kuhn, T. Nodzyński, S. Errafi, R. Bucher, S. Gupta, B. Aryal, P. Dobrev, L. Bigler, M. Geisler, E. Zažímalová, J. Friml, C. Ringli, Scientific Reports 7 (2017).","chicago":"Kuhn, Benjamin, Tomasz Nodzyński, Sanae Errafi, Rahel Bucher, Shibu Gupta, Bibek Aryal, Petre Dobrev, et al. “Flavonol-Induced Changes in PIN2 Polarity and Auxin Transport in the Arabidopsis Thaliana Rol1-2 Mutant Require Phosphatase Activity.” Scientific Reports. Nature Publishing Group, 2017. https://doi.org/10.1038/srep41906.","ista":"Kuhn B, Nodzyński T, Errafi S, Bucher R, Gupta S, Aryal B, Dobrev P, Bigler L, Geisler M, Zažímalová E, Friml J, Ringli C. 2017. Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity. Scientific Reports. 7, 41906."},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","external_id":{"isi":["000393367600001"]},"article_processing_charge":"No","author":[{"last_name":"Kuhn","full_name":"Kuhn, Benjamin","first_name":"Benjamin"},{"full_name":"Nodzyński, Tomasz","last_name":"Nodzyński","first_name":"Tomasz"},{"first_name":"Sanae","last_name":"Errafi","full_name":"Errafi, Sanae"},{"first_name":"Rahel","full_name":"Bucher, Rahel","last_name":"Bucher"},{"last_name":"Gupta","full_name":"Gupta, Shibu","first_name":"Shibu"},{"last_name":"Aryal","full_name":"Aryal, Bibek","first_name":"Bibek"},{"first_name":"Petre","last_name":"Dobrev","full_name":"Dobrev, Petre"},{"last_name":"Bigler","full_name":"Bigler, Laurent","first_name":"Laurent"},{"first_name":"Markus","last_name":"Geisler","full_name":"Geisler, Markus"},{"last_name":"Zažímalová","full_name":"Zažímalová, Eva","first_name":"Eva"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí"},{"last_name":"Ringli","full_name":"Ringli, Christoph","first_name":"Christoph"}],"publist_id":"6258","title":"Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity","acknowledgement":"European Research Council (project ERC-2011-StG-20101109-PSDP), European Social Fund (CZ.1.07/2.3.00/20.0043) and the Czech Science Foundation (GA13-40637S) [JF].","oa":1,"quality_controlled":"1","publisher":"Nature Publishing Group","year":"2017","has_accepted_license":"1","isi":1,"publication":"Scientific Reports","day":"06","date_created":"2018-12-11T11:50:12Z","date_published":"2017-02-06T00:00:00Z","doi":"10.1038/srep41906","_id":"1110","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","pubrep_id":"803","status":"public","date_updated":"2023-09-20T11:35:35Z","ddc":["581"],"department":[{"_id":"JiFr"}],"file_date_updated":"2018-12-12T10:18:09Z","abstract":[{"text":"The phytohormone auxin is a major determinant and regulatory component important for plant development. Auxin transport between cells is mediated by a complex system of transporters such as AUX1/LAX, PIN, and ABCB proteins, and their localization and activity is thought to be influenced by phosphatases and kinases. Flavonols have been shown to alter auxin transport activity and changes in flavonol accumulation in the Arabidopsis thaliana rol1-2 mutant cause defects in auxin transport and seedling development. A new mutation in ROOTS CURL IN NPA 1 (RCN1), encoding a regulatory subunit of the phosphatase PP2A, was found to suppress the growth defects of rol1-2 without changing the flavonol content. rol1-2 rcn1-3 double mutants show wild type-like auxin transport activity while levels of free auxin are not affected by rcn1-3. In the rol1-2 mutant, PIN2 shows a flavonol-induced basal-to-apical shift in polar localization which is reversed in the rol1-2 rcn1-3 to basal localization. In vivo analysis of PINOID action, a kinase known to influence PIN protein localization in a PP2A-antagonistic manner, revealed a negative impact of flavonols on PINOID activity. Together, these data suggest that flavonols affect auxin transport by modifying the antagonistic kinase/phosphatase equilibrium.","lang":"eng"}],"oa_version":"Published Version","scopus_import":"1","intvolume":" 7","month":"02","publication_status":"published","publication_identifier":{"issn":["20452322"]},"language":[{"iso":"eng"}],"file":[{"file_size":1654496,"date_updated":"2018-12-12T10:18:09Z","creator":"system","file_name":"IST-2017-803-v1+1_srep41906.pdf","date_created":"2018-12-12T10:18:09Z","content_type":"application/pdf","relation":"main_file","access_level":"open_access","file_id":"5328"}],"ec_funded":1,"volume":7},{"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","citation":{"ieee":"G. Bighin and L. Salasnich, “Vortices and antivortices in two-dimensional ultracold Fermi gases,” Scientific Reports, vol. 7. Nature Publishing Group, 2017.","short":"G. Bighin, L. Salasnich, Scientific Reports 7 (2017).","ama":"Bighin G, Salasnich L. Vortices and antivortices in two-dimensional ultracold Fermi gases. Scientific Reports. 2017;7. doi:10.1038/srep45702","apa":"Bighin, G., & Salasnich, L. (2017). Vortices and antivortices in two-dimensional ultracold Fermi gases. Scientific Reports. Nature Publishing Group. https://doi.org/10.1038/srep45702","mla":"Bighin, Giacomo, and Luca Salasnich. “Vortices and Antivortices in Two-Dimensional Ultracold Fermi Gases.” Scientific Reports, vol. 7, 45702, Nature Publishing Group, 2017, doi:10.1038/srep45702.","ista":"Bighin G, Salasnich L. 2017. Vortices and antivortices in two-dimensional ultracold Fermi gases. Scientific Reports. 7, 45702.","chicago":"Bighin, Giacomo, and Luca Salasnich. “Vortices and Antivortices in Two-Dimensional Ultracold Fermi Gases.” Scientific Reports. Nature Publishing Group, 2017. https://doi.org/10.1038/srep45702."},"title":"Vortices and antivortices in two-dimensional ultracold Fermi gases","article_processing_charge":"No","external_id":{"isi":["000398148100001"]},"publist_id":"6380","author":[{"id":"4CA96FD4-F248-11E8-B48F-1D18A9856A87","first_name":"Giacomo","last_name":"Bighin","orcid":"0000-0001-8823-9777","full_name":"Bighin, Giacomo"},{"last_name":"Salasnich","full_name":"Salasnich, Luca","first_name":"Luca"}],"article_number":"45702","publication":"Scientific Reports","day":"04","year":"2017","isi":1,"has_accepted_license":"1","date_created":"2018-12-11T11:49:42Z","doi":"10.1038/srep45702","date_published":"2017-04-04T00:00:00Z","oa":1,"quality_controlled":"1","publisher":"Nature Publishing Group","ddc":["539"],"date_updated":"2023-09-22T09:43:10Z","file_date_updated":"2018-12-12T10:12:32Z","department":[{"_id":"MiLe"}],"_id":"1015","pubrep_id":"809","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","language":[{"iso":"eng"}],"file":[{"access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_id":"4950","creator":"system","date_updated":"2018-12-12T10:12:32Z","file_size":478289,"date_created":"2018-12-12T10:12:32Z","file_name":"IST-2017-809-v1+1_srep45702.pdf"}],"publication_status":"published","publication_identifier":{"issn":["20452322"]},"volume":7,"oa_version":"Published Version","abstract":[{"lang":"eng","text":"Vortices are commonly observed in the context of classical hydrodynamics: from whirlpools after stirring the coffee in a cup to a violent atmospheric phenomenon such as a tornado, all classical vortices are characterized by an arbitrary circulation value of the local velocity field. On the other hand the appearance of vortices with quantized circulation represents one of the fundamental signatures of macroscopic quantum phenomena. In two-dimensional superfluids quantized vortices play a key role in determining finite-temperature properties, as the superfluid phase and the normal state are separated by a vortex unbinding transition, the Berezinskii-Kosterlitz-Thouless transition. Very recent experiments with two-dimensional superfluid fermions motivate the present work: we present theoretical results based on the renormalization group showing that the universal jump of the superfluid density and the critical temperature crucially depend on the interaction strength, providing a strong benchmark for forthcoming investigations."}],"intvolume":" 7","month":"04","scopus_import":"1"}]