[{"abstract":[{"lang":"eng","text":"The segregation of different cell types into distinct tissues is a fundamental process in metazoan development. Differences in cell adhesion and cortex tension are commonly thought to drive cell sorting by regulating tissue surface tension (TST). However, the role that differential TST plays in cell segregation within the developing embryo is as yet unclear. Here, we have analyzed the role of differential TST for germ layer progenitor cell segregation during zebrafish gastrulation. Contrary to previous observations that differential TST drives germ layer progenitor cell segregation in vitro, we show that germ layers display indistinguishable TST within the gastrulating embryo, arguing against differential TST driving germ layer progenitor cell segregation in vivo. We further show that the osmolarity of the interstitial fluid (IF) is an important factor that influences germ layer TST in vivo, and that lower osmolarity of the IF compared with standard cell culture medium can explain why germ layers display differential TST in culture but not in vivo. Finally, we show that directed migration of mesendoderm progenitors is required for germ layer progenitor cell segregation and germ layer formation."}],"intvolume":"       144","ddc":["570"],"has_accepted_license":"1","publisher":"Company of Biologists","date_created":"2018-12-11T11:47:52Z","file_date_updated":"2020-07-14T12:47:39Z","year":"2017","day":"15","article_type":"original","citation":{"ista":"Krens G, Veldhuis J, Barone V, Capek D, Maître J-L, Brodland W, Heisenberg C-PJ. 2017. Interstitial fluid osmolarity modulates the action of differential tissue surface tension in progenitor cell segregation during gastrulation. Development. 144(10), 1798–1806.","short":"G. Krens, J. Veldhuis, V. Barone, D. Capek, J.-L. Maître, W. Brodland, C.-P.J. Heisenberg, Development 144 (2017) 1798–1806.","ieee":"G. Krens <i>et al.</i>, “Interstitial fluid osmolarity modulates the action of differential tissue surface tension in progenitor cell segregation during gastrulation,” <i>Development</i>, vol. 144, no. 10. Company of Biologists, pp. 1798–1806, 2017.","chicago":"Krens, Gabriel, Jim Veldhuis, Vanessa Barone, Daniel Capek, Jean-Léon Maître, Wayne Brodland, and Carl-Philipp J Heisenberg. “Interstitial Fluid Osmolarity Modulates the Action of Differential Tissue Surface Tension in Progenitor Cell Segregation during Gastrulation.” <i>Development</i>. Company of Biologists, 2017. <a href=\"https://doi.org/10.1242/dev.144964\">https://doi.org/10.1242/dev.144964</a>.","apa":"Krens, G., Veldhuis, J., Barone, V., Capek, D., Maître, J.-L., Brodland, W., &#38; Heisenberg, C.-P. J. (2017). Interstitial fluid osmolarity modulates the action of differential tissue surface tension in progenitor cell segregation during gastrulation. <i>Development</i>. Company of Biologists. <a href=\"https://doi.org/10.1242/dev.144964\">https://doi.org/10.1242/dev.144964</a>","mla":"Krens, Gabriel, et al. “Interstitial Fluid Osmolarity Modulates the Action of Differential Tissue Surface Tension in Progenitor Cell Segregation during Gastrulation.” <i>Development</i>, vol. 144, no. 10, Company of Biologists, 2017, pp. 1798–806, doi:<a href=\"https://doi.org/10.1242/dev.144964\">10.1242/dev.144964</a>.","ama":"Krens G, Veldhuis J, Barone V, et al. Interstitial fluid osmolarity modulates the action of differential tissue surface tension in progenitor cell segregation during gastrulation. <i>Development</i>. 2017;144(10):1798-1806. doi:<a href=\"https://doi.org/10.1242/dev.144964\">10.1242/dev.144964</a>"},"volume":144,"doi":"10.1242/dev.144964","title":"Interstitial fluid osmolarity modulates the action of differential tissue surface tension in progenitor cell segregation during gastrulation","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","license":"https://creativecommons.org/licenses/by/4.0/","publication_identifier":{"issn":["09501991"]},"department":[{"_id":"Bio"},{"_id":"CaHe"}],"publist_id":"7047","pmid":1,"issue":"10","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"961"},{"id":"50","status":"public","relation":"dissertation_contains"}]},"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"quality_controlled":"1","oa":1,"oa_version":"Published Version","file":[{"file_size":8194516,"file_id":"6905","checksum":"bc25125fb664706cdf180e061429f91d","access_level":"open_access","date_created":"2019-09-24T06:56:22Z","file_name":"2017_Development_Krens.pdf","content_type":"application/pdf","relation":"main_file","date_updated":"2020-07-14T12:47:39Z","creator":"dernst"}],"month":"05","external_id":{"pmid":["28512197"]},"date_updated":"2024-03-25T23:30:13Z","page":"1798 - 1806","date_published":"2017-05-15T00:00:00Z","scopus_import":1,"publication_status":"published","article_processing_charge":"No","publication":"Development","author":[{"last_name":"Krens","first_name":"Gabriel","id":"2B819732-F248-11E8-B48F-1D18A9856A87","full_name":"Krens, Gabriel","orcid":"0000-0003-4761-5996"},{"full_name":"Veldhuis, Jim","last_name":"Veldhuis","first_name":"Jim"},{"last_name":"Barone","first_name":"Vanessa","id":"419EECCC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2676-3367","full_name":"Barone, Vanessa"},{"orcid":"0000-0001-5199-9940","full_name":"Capek, Daniel","last_name":"Capek","first_name":"Daniel","id":"31C42484-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Maître","first_name":"Jean-Léon","id":"48F1E0D8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3688-1474","full_name":"Maître, Jean-Léon"},{"last_name":"Brodland","first_name":"Wayne","full_name":"Brodland, Wayne"},{"full_name":"Heisenberg, Carl-Philipp J","orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","first_name":"Carl-Philipp J"}],"language":[{"iso":"eng"}],"type":"journal_article","_id":"676"},{"type":"journal_article","_id":"677","language":[{"iso":"eng"}],"author":[{"full_name":"Lademann, Claudio","first_name":"Claudio","last_name":"Lademann"},{"first_name":"Jörg","last_name":"Renkawitz","id":"3F0587C8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2856-3369","full_name":"Renkawitz, Jörg"},{"first_name":"Boris","last_name":"Pfander","full_name":"Pfander, Boris"},{"full_name":"Jentsch, Stefan","last_name":"Jentsch","first_name":"Stefan"}],"page":"1294 - 1303","date_updated":"2021-01-12T08:08:57Z","publication":"Cell Reports","date_published":"2017-05-16T00:00:00Z","publication_status":"published","scopus_import":1,"month":"05","pubrep_id":"899","quality_controlled":"1","oa_version":"Published Version","oa":1,"file":[{"creator":"system","relation":"main_file","date_updated":"2020-07-14T12:47:40Z","file_name":"IST-2017-899-v1+1_1-s2.0-S2211124717305454-main.pdf","date_created":"2018-12-12T10:15:48Z","content_type":"application/pdf","checksum":"efc7287d9c6354983cb151880e9ad72a","file_id":"5171","file_size":3005610,"access_level":"open_access"}],"issue":"7","publist_id":"7046","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)"},"department":[{"_id":"MiSi"}],"publication_identifier":{"issn":["22111247"]},"license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"The INO80 complex removes H2A.Z to promote presynaptic filament formation during homologous recombination","doi":"10.1016/j.celrep.2017.04.051","citation":{"mla":"Lademann, Claudio, et al. “The INO80 Complex Removes H2A.Z to Promote Presynaptic Filament Formation during Homologous Recombination.” <i>Cell Reports</i>, vol. 19, no. 7, Cell Press, 2017, pp. 1294–303, doi:<a href=\"https://doi.org/10.1016/j.celrep.2017.04.051\">10.1016/j.celrep.2017.04.051</a>.","ama":"Lademann C, Renkawitz J, Pfander B, Jentsch S. The INO80 complex removes H2A.Z to promote presynaptic filament formation during homologous recombination. <i>Cell Reports</i>. 2017;19(7):1294-1303. doi:<a href=\"https://doi.org/10.1016/j.celrep.2017.04.051\">10.1016/j.celrep.2017.04.051</a>","ista":"Lademann C, Renkawitz J, Pfander B, Jentsch S. 2017. The INO80 complex removes H2A.Z to promote presynaptic filament formation during homologous recombination. Cell Reports. 19(7), 1294–1303.","short":"C. Lademann, J. Renkawitz, B. Pfander, S. Jentsch, Cell Reports 19 (2017) 1294–1303.","chicago":"Lademann, Claudio, Jörg Renkawitz, Boris Pfander, and Stefan Jentsch. “The INO80 Complex Removes H2A.Z to Promote Presynaptic Filament Formation during Homologous Recombination.” <i>Cell Reports</i>. Cell Press, 2017. <a href=\"https://doi.org/10.1016/j.celrep.2017.04.051\">https://doi.org/10.1016/j.celrep.2017.04.051</a>.","ieee":"C. Lademann, J. Renkawitz, B. Pfander, and S. Jentsch, “The INO80 complex removes H2A.Z to promote presynaptic filament formation during homologous recombination,” <i>Cell Reports</i>, vol. 19, no. 7. Cell Press, pp. 1294–1303, 2017.","apa":"Lademann, C., Renkawitz, J., Pfander, B., &#38; Jentsch, S. (2017). The INO80 complex removes H2A.Z to promote presynaptic filament formation during homologous recombination. <i>Cell Reports</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.celrep.2017.04.051\">https://doi.org/10.1016/j.celrep.2017.04.051</a>"},"volume":19,"day":"16","year":"2017","date_created":"2018-12-11T11:47:52Z","file_date_updated":"2020-07-14T12:47:40Z","publisher":"Cell Press","intvolume":"        19","abstract":[{"text":"The INO80 complex (INO80-C) is an evolutionarily conserved nucleosome remodeler that acts in transcription, replication, and genome stability. It is required for resistance against genotoxic agents and is involved in the repair of DNA double-strand breaks (DSBs) by homologous recombination (HR). However, the causes of the HR defect in INO80-C mutant cells are controversial. Here, we unite previous findings using a system to study HR with high spatial resolution in budding yeast. We find that INO80-C has at least two distinct functions during HR—DNA end resection and presynaptic filament formation. Importantly, the second function is linked to the histone variant H2A.Z. In the absence of H2A.Z, presynaptic filament formation and HR are restored in INO80-C-deficient mutants, suggesting that presynaptic filament formation is the crucial INO80-C function during HR.","lang":"eng"}],"ddc":["570"],"has_accepted_license":"1"},{"title":"Multiscale force sensing in development","status":"public","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"author":[{"first_name":"Nicoletta","last_name":"Petridou","id":"2A003F6C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8451-1195","full_name":"Petridou, Nicoletta"},{"id":"426AD026-F248-11E8-B48F-1D18A9856A87","first_name":"Zoltan P","last_name":"Spiro","full_name":"Spiro, Zoltan P"},{"id":"39427864-F248-11E8-B48F-1D18A9856A87","first_name":"Carl-Philipp J","last_name":"Heisenberg","orcid":"0000-0002-0912-4566","full_name":"Heisenberg, Carl-Philipp J"}],"type":"journal_article","_id":"678","month":"05","citation":{"ista":"Petridou N, Spiro ZP, Heisenberg C-PJ. 2017. Multiscale force sensing in development. Nature Cell Biology. 19(6), 581–588.","short":"N. Petridou, Z.P. Spiro, C.-P.J. Heisenberg, Nature Cell Biology 19 (2017) 581–588.","chicago":"Petridou, Nicoletta, Zoltan P Spiro, and Carl-Philipp J Heisenberg. “Multiscale Force Sensing in Development.” <i>Nature Cell Biology</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/ncb3524\">https://doi.org/10.1038/ncb3524</a>.","ieee":"N. Petridou, Z. P. Spiro, and C.-P. J. Heisenberg, “Multiscale force sensing in development,” <i>Nature Cell Biology</i>, vol. 19, no. 6. Nature Publishing Group, pp. 581–588, 2017.","apa":"Petridou, N., Spiro, Z. P., &#38; Heisenberg, C.-P. J. (2017). Multiscale force sensing in development. <i>Nature Cell Biology</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/ncb3524\">https://doi.org/10.1038/ncb3524</a>","mla":"Petridou, Nicoletta, et al. “Multiscale Force Sensing in Development.” <i>Nature Cell Biology</i>, vol. 19, no. 6, Nature Publishing Group, 2017, pp. 581–88, doi:<a href=\"https://doi.org/10.1038/ncb3524\">10.1038/ncb3524</a>.","ama":"Petridou N, Spiro ZP, Heisenberg C-PJ. Multiscale force sensing in development. <i>Nature Cell Biology</i>. 2017;19(6):581-588. doi:<a href=\"https://doi.org/10.1038/ncb3524\">10.1038/ncb3524</a>"},"volume":19,"doi":"10.1038/ncb3524","date_updated":"2021-01-12T08:08:59Z","page":"581 - 588","scopus_import":1,"publication_status":"published","date_published":"2017-05-31T00:00:00Z","publication":"Nature Cell Biology","publist_id":"7040","project":[{"name":"The generation and function of anisotropic tissue tension in zebrafish epiboly (EMBO Fellowship)","_id":"25236028-B435-11E9-9278-68D0E5697425","grant_number":"ALTF534-2016"}],"issue":"6","date_created":"2018-12-11T11:47:53Z","oa_version":"None","year":"2017","quality_controlled":"1","day":"31","intvolume":"        19","abstract":[{"lang":"eng","text":"The seminal observation that mechanical signals can elicit changes in biochemical signalling within cells, a process commonly termed mechanosensation and mechanotransduction, has revolutionized our understanding of the role of cell mechanics in various fundamental biological processes, such as cell motility, adhesion, proliferation and differentiation. In this Review, we will discuss how the interplay and feedback between mechanical and biochemical signals control tissue morphogenesis and cell fate specification in embryonic development."}],"publication_identifier":{"issn":["14657392"]},"publisher":"Nature Publishing Group","department":[{"_id":"CaHe"}]},{"acknowledgement":"This work was supported by grants from the Austrian Science Fund (FWF) (P27538-B21, I1621-B22, and SFB 43, to PK); by funding from the European Union Seventh Framework Programme Marie Curie Initial Training Networks (FP7-PEOPLE-2012-ITN) for the project INBIONET (INfection BIOlogy Training NETwork under grant agreement PITN-GA-2012-316682; and by a joint research cluster initiative of the University of Vienna and the Medical University of Vienna.","_id":"679","type":"journal_article","language":[{"iso":"eng"}],"author":[{"last_name":"Ebner","first_name":"Florian","full_name":"Ebner, Florian"},{"last_name":"Sedlyarov","first_name":"Vitaly","full_name":"Sedlyarov, Vitaly"},{"id":"4323B49C-F248-11E8-B48F-1D18A9856A87","last_name":"Tasciyan","first_name":"Saren","full_name":"Tasciyan, Saren","orcid":"0000-0003-1671-393X"},{"last_name":"Ivin","first_name":"Masa","full_name":"Ivin, Masa"},{"first_name":"Franz","last_name":"Kratochvill","full_name":"Kratochvill, Franz"},{"full_name":"Gratz, Nina","first_name":"Nina","last_name":"Gratz"},{"full_name":"Kenner, Lukas","last_name":"Kenner","first_name":"Lukas"},{"full_name":"Villunger, Andreas","first_name":"Andreas","last_name":"Villunger"},{"full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael K","last_name":"Sixt"},{"full_name":"Kovarik, Pavel","first_name":"Pavel","last_name":"Kovarik"}],"date_published":"2017-06-01T00:00:00Z","publication_status":"published","scopus_import":1,"publication":"The Journal of Clinical Investigation","date_updated":"2024-03-25T23:30:12Z","page":"2051 - 2065","external_id":{"pmid":["28504646"]},"month":"06","quality_controlled":"1","oa_version":"Submitted Version","oa":1,"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"12401"}]},"pmid":1,"publist_id":"7038","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5451238/","open_access":"1"}],"issue":"6","department":[{"_id":"MiSi"}],"publication_identifier":{"issn":["00219738"]},"title":"The RNA-binding protein tristetraprolin schedules apoptosis of pathogen-engaged neutrophils during bacterial infection","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","doi":"10.1172/JCI80631","volume":127,"citation":{"ama":"Ebner F, Sedlyarov V, Tasciyan S, et al. The RNA-binding protein tristetraprolin schedules apoptosis of pathogen-engaged neutrophils during bacterial infection. <i>The Journal of Clinical Investigation</i>. 2017;127(6):2051-2065. doi:<a href=\"https://doi.org/10.1172/JCI80631\">10.1172/JCI80631</a>","mla":"Ebner, Florian, et al. “The RNA-Binding Protein Tristetraprolin Schedules Apoptosis of Pathogen-Engaged Neutrophils during Bacterial Infection.” <i>The Journal of Clinical Investigation</i>, vol. 127, no. 6, American Society for Clinical Investigation, 2017, pp. 2051–65, doi:<a href=\"https://doi.org/10.1172/JCI80631\">10.1172/JCI80631</a>.","chicago":"Ebner, Florian, Vitaly Sedlyarov, Saren Tasciyan, Masa Ivin, Franz Kratochvill, Nina Gratz, Lukas Kenner, Andreas Villunger, Michael K Sixt, and Pavel Kovarik. “The RNA-Binding Protein Tristetraprolin Schedules Apoptosis of Pathogen-Engaged Neutrophils during Bacterial Infection.” <i>The Journal of Clinical Investigation</i>. American Society for Clinical Investigation, 2017. <a href=\"https://doi.org/10.1172/JCI80631\">https://doi.org/10.1172/JCI80631</a>.","ieee":"F. Ebner <i>et al.</i>, “The RNA-binding protein tristetraprolin schedules apoptosis of pathogen-engaged neutrophils during bacterial infection,” <i>The Journal of Clinical Investigation</i>, vol. 127, no. 6. American Society for Clinical Investigation, pp. 2051–2065, 2017.","apa":"Ebner, F., Sedlyarov, V., Tasciyan, S., Ivin, M., Kratochvill, F., Gratz, N., … Kovarik, P. (2017). The RNA-binding protein tristetraprolin schedules apoptosis of pathogen-engaged neutrophils during bacterial infection. <i>The Journal of Clinical Investigation</i>. American Society for Clinical Investigation. <a href=\"https://doi.org/10.1172/JCI80631\">https://doi.org/10.1172/JCI80631</a>","ista":"Ebner F, Sedlyarov V, Tasciyan S, Ivin M, Kratochvill F, Gratz N, Kenner L, Villunger A, Sixt MK, Kovarik P. 2017. The RNA-binding protein tristetraprolin schedules apoptosis of pathogen-engaged neutrophils during bacterial infection. The Journal of Clinical Investigation. 127(6), 2051–2065.","short":"F. Ebner, V. Sedlyarov, S. Tasciyan, M. Ivin, F. Kratochvill, N. Gratz, L. Kenner, A. Villunger, M.K. Sixt, P. Kovarik, The Journal of Clinical Investigation 127 (2017) 2051–2065."},"year":"2017","day":"01","date_created":"2018-12-11T11:47:53Z","project":[{"_id":"25985A36-B435-11E9-9278-68D0E5697425","name":"The biochemical basis of PAR polarization","call_identifier":"FWF","grant_number":"T00817-B21"},{"grant_number":"P27201-B22","_id":"25E9AF9E-B435-11E9-9278-68D0E5697425","name":"Revealing the mechanisms underlying drug interactions","call_identifier":"FWF"}],"publisher":"American Society for Clinical Investigation","intvolume":"       127","abstract":[{"text":"Protective responses against pathogens require a rapid mobilization of resting neutrophils and the timely removal of activated ones. Neutrophils are exceptionally short-lived leukocytes, yet it remains unclear whether the lifespan of pathogen-engaged neutrophils is regulated differently from that in the circulating steady-state pool. Here, we have found that under homeostatic conditions, the mRNA-destabilizing protein tristetraprolin (TTP) regulates apoptosis and the numbers of activated infiltrating murine neutrophils but not neutrophil cellularity. Activated TTP-deficient neutrophils exhibited decreased apoptosis and enhanced accumulation at the infection site. In the context of myeloid-specific deletion of Ttp, the potentiation of neutrophil deployment protected mice against lethal soft tissue infection with Streptococcus pyogenes and prevented bacterial dissemination. Neutrophil transcriptome analysis revealed that decreased apoptosis of TTP-deficient neutrophils was specifically associated with elevated expression of myeloid cell leukemia 1 (Mcl1) but not other antiapoptotic B cell leukemia/ lymphoma 2 (Bcl2) family members. Higher Mcl1 expression resulted from stabilization of Mcl1 mRNA in the absence of TTP. The low apoptosis rate of infiltrating TTP-deficient neutrophils was comparable to that of transgenic Mcl1-overexpressing neutrophils. Our study demonstrates that posttranscriptional gene regulation by TTP schedules the termination of the antimicrobial engagement of neutrophils. The balancing role of TTP comes at the cost of an increased risk of bacterial infections.","lang":"eng"}]},{"title":"Sensory noise predicts divisive reshaping of receptive fields","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","volume":13,"citation":{"ama":"Chalk MJ, Masset P, Gutkin B, Denève S. Sensory noise predicts divisive reshaping of receptive fields. <i>PLoS Computational Biology</i>. 2017;13(6). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1005582\">10.1371/journal.pcbi.1005582</a>","mla":"Chalk, Matthew J., et al. “Sensory Noise Predicts Divisive Reshaping of Receptive Fields.” <i>PLoS Computational Biology</i>, vol. 13, no. 6, e1005582, Public Library of Science, 2017, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1005582\">10.1371/journal.pcbi.1005582</a>.","ieee":"M. J. Chalk, P. Masset, B. Gutkin, and S. Denève, “Sensory noise predicts divisive reshaping of receptive fields,” <i>PLoS Computational Biology</i>, vol. 13, no. 6. Public Library of Science, 2017.","chicago":"Chalk, Matthew J, Paul Masset, Boris Gutkin, and Sophie Denève. “Sensory Noise Predicts Divisive Reshaping of Receptive Fields.” <i>PLoS Computational Biology</i>. Public Library of Science, 2017. <a href=\"https://doi.org/10.1371/journal.pcbi.1005582\">https://doi.org/10.1371/journal.pcbi.1005582</a>.","apa":"Chalk, M. J., Masset, P., Gutkin, B., &#38; Denève, S. (2017). Sensory noise predicts divisive reshaping of receptive fields. <i>PLoS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1005582\">https://doi.org/10.1371/journal.pcbi.1005582</a>","short":"M.J. Chalk, P. Masset, B. Gutkin, S. Denève, PLoS Computational Biology 13 (2017).","ista":"Chalk MJ, Masset P, Gutkin B, Denève S. 2017. Sensory noise predicts divisive reshaping of receptive fields. PLoS Computational Biology. 13(6), e1005582."},"doi":"10.1371/journal.pcbi.1005582","date_created":"2018-12-11T11:47:53Z","file_date_updated":"2020-07-14T12:47:40Z","year":"2017","day":"01","ddc":["571"],"has_accepted_license":"1","intvolume":"        13","abstract":[{"lang":"eng","text":"In order to respond reliably to specific features of their environment, sensory neurons need to integrate multiple incoming noisy signals. Crucially, they also need to compete for the interpretation of those signals with other neurons representing similar features. The form that this competition should take depends critically on the noise corrupting these signals. In this study we show that for the type of noise commonly observed in sensory systems, whose variance scales with the mean signal, sensory neurons should selectively divide their input signals by their predictions, suppressing ambiguous cues while amplifying others. Any change in the stimulus context alters which inputs are suppressed, leading to a deep dynamic reshaping of neural receptive fields going far beyond simple surround suppression. Paradoxically, these highly variable receptive fields go alongside and are in fact required for an invariant representation of external sensory features. In addition to offering a normative account of context-dependent changes in sensory responses, perceptual inference in the presence of signal-dependent noise accounts for ubiquitous features of sensory neurons such as divisive normalization, gain control and contrast dependent temporal dynamics."}],"publisher":"Public Library of Science","language":[{"iso":"eng"}],"author":[{"orcid":"0000-0001-7782-4436","full_name":"Chalk, Matthew J","last_name":"Chalk","first_name":"Matthew J","id":"2BAAC544-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Masset, Paul","first_name":"Paul","last_name":"Masset"},{"first_name":"Boris","last_name":"Gutkin","full_name":"Gutkin, Boris"},{"full_name":"Denève, Sophie","last_name":"Denève","first_name":"Sophie"}],"_id":"680","type":"journal_article","pubrep_id":"898","month":"06","scopus_import":1,"date_published":"2017-06-01T00:00:00Z","publication_status":"published","publication":"PLoS Computational Biology","date_updated":"2023-02-23T14:10:54Z","related_material":{"record":[{"id":"9855","status":"public","relation":"research_data"}]},"article_number":"e1005582","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publist_id":"7035","issue":"6","file":[{"file_name":"IST-2017-898-v1+1_journal.pcbi.1005582.pdf","date_created":"2018-12-12T10:07:47Z","content_type":"application/pdf","checksum":"796a1026076af6f4405a47d985bc7b68","file_id":"4645","file_size":14555676,"access_level":"open_access","creator":"system","date_updated":"2020-07-14T12:47:40Z","relation":"main_file"}],"oa":1,"quality_controlled":"1","oa_version":"Published Version","publication_identifier":{"issn":["1553734X"]},"department":[{"_id":"GaTk"}]},{"year":"2017","day":"01","article_type":"original","project":[{"grant_number":"P 23499-N23","call_identifier":"FWF","name":"Modern Graph Algorithmic Techniques in Formal Verification","_id":"2584A770-B435-11E9-9278-68D0E5697425"},{"name":"Game Theory","_id":"25863FF4-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"S11407"},{"grant_number":"279307","call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications"},{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7"}],"date_created":"2018-12-11T11:47:53Z","publisher":"Elsevier","abstract":[{"lang":"eng","text":"Two-player games on graphs provide the theoretical framework for many important problems such as reactive synthesis. While the traditional study of two-player zero-sum games has been extended to multi-player games with several notions of equilibria, they are decidable only for perfect-information games, whereas several applications require imperfect-information. In this paper we propose a new notion of equilibria, called doomsday equilibria, which is a strategy profile where all players satisfy their own objective, and if any coalition of players deviates and violates even one of the players' objective, then the objective of every player is violated. We present algorithms and complexity results for deciding the existence of doomsday equilibria for various classes of ω-regular objectives, both for imperfect-information games, and for perfect-information games. We provide optimal complexity bounds for imperfect-information games, and in most cases for perfect-information games."}],"intvolume":"       254","title":"Doomsday equilibria for omega-regular games","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.1016/j.ic.2016.10.012","arxiv":1,"citation":{"mla":"Chatterjee, Krishnendu, et al. “Doomsday Equilibria for Omega-Regular Games.” <i>Information and Computation</i>, vol. 254, Elsevier, 2017, pp. 296–315, doi:<a href=\"https://doi.org/10.1016/j.ic.2016.10.012\">10.1016/j.ic.2016.10.012</a>.","ama":"Chatterjee K, Doyen L, Filiot E, Raskin J. Doomsday equilibria for omega-regular games. <i>Information and Computation</i>. 2017;254:296-315. doi:<a href=\"https://doi.org/10.1016/j.ic.2016.10.012\">10.1016/j.ic.2016.10.012</a>","ista":"Chatterjee K, Doyen L, Filiot E, Raskin J. 2017. Doomsday equilibria for omega-regular games. Information and Computation. 254, 296–315.","short":"K. Chatterjee, L. Doyen, E. Filiot, J. Raskin, Information and Computation 254 (2017) 296–315.","ieee":"K. Chatterjee, L. Doyen, E. Filiot, and J. Raskin, “Doomsday equilibria for omega-regular games,” <i>Information and Computation</i>, vol. 254. Elsevier, pp. 296–315, 2017.","chicago":"Chatterjee, Krishnendu, Laurent Doyen, Emmanuel Filiot, and Jean Raskin. “Doomsday Equilibria for Omega-Regular Games.” <i>Information and Computation</i>. Elsevier, 2017. <a href=\"https://doi.org/10.1016/j.ic.2016.10.012\">https://doi.org/10.1016/j.ic.2016.10.012</a>.","apa":"Chatterjee, K., Doyen, L., Filiot, E., &#38; Raskin, J. (2017). Doomsday equilibria for omega-regular games. <i>Information and Computation</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ic.2016.10.012\">https://doi.org/10.1016/j.ic.2016.10.012</a>"},"volume":254,"oa_version":"Submitted Version","oa":1,"quality_controlled":"1","publist_id":"7036","main_file_link":[{"url":"https://arxiv.org/abs/1311.3238","open_access":"1"}],"related_material":{"record":[{"relation":"earlier_version","status":"public","id":"10885"}]},"ec_funded":1,"department":[{"_id":"KrCh"}],"publication_identifier":{"issn":["08905401"]},"type":"journal_article","_id":"681","author":[{"orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Doyen, Laurent","first_name":"Laurent","last_name":"Doyen"},{"first_name":"Emmanuel","last_name":"Filiot","full_name":"Filiot, Emmanuel"},{"full_name":"Raskin, Jean","first_name":"Jean","last_name":"Raskin"}],"language":[{"iso":"eng"}],"page":"296 - 315","date_updated":"2023-02-21T16:06:02Z","scopus_import":"1","date_published":"2017-06-01T00:00:00Z","publication_status":"published","article_processing_charge":"No","publication":"Information and Computation","month":"06","external_id":{"arxiv":["1311.3238"]}},{"doi":"10.1371/journal.pone.0179377","citation":{"ama":"Ukai H, Kawahara A, Hirayama K, et al. PirB regulates asymmetries in hippocampal circuitry. <i>PLoS One</i>. 2017;12(6). doi:<a href=\"https://doi.org/10.1371/journal.pone.0179377\">10.1371/journal.pone.0179377</a>","mla":"Ukai, Hikari, et al. “PirB Regulates Asymmetries in Hippocampal Circuitry.” <i>PLoS One</i>, vol. 12, no. 6, e0179377, Public Library of Science, 2017, doi:<a href=\"https://doi.org/10.1371/journal.pone.0179377\">10.1371/journal.pone.0179377</a>.","chicago":"Ukai, Hikari, Aiko Kawahara, Keiko Hirayama, Matthew J Case, Shotaro Aino, Masahiro Miyabe, Ken Wakita, et al. “PirB Regulates Asymmetries in Hippocampal Circuitry.” <i>PLoS One</i>. Public Library of Science, 2017. <a href=\"https://doi.org/10.1371/journal.pone.0179377\">https://doi.org/10.1371/journal.pone.0179377</a>.","ieee":"H. Ukai <i>et al.</i>, “PirB regulates asymmetries in hippocampal circuitry,” <i>PLoS One</i>, vol. 12, no. 6. Public Library of Science, 2017.","apa":"Ukai, H., Kawahara, A., Hirayama, K., Case, M. J., Aino, S., Miyabe, M., … Ito, I. (2017). PirB regulates asymmetries in hippocampal circuitry. <i>PLoS One</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0179377\">https://doi.org/10.1371/journal.pone.0179377</a>","ista":"Ukai H, Kawahara A, Hirayama K, Case MJ, Aino S, Miyabe M, Wakita K, Oogi R, Kasayuki M, Kawashima S, Sugimoto S, Chikamatsu K, Nitta N, Koga T, Shigemoto R, Takai T, Ito I. 2017. PirB regulates asymmetries in hippocampal circuitry. PLoS One. 12(6), e0179377.","short":"H. Ukai, A. Kawahara, K. Hirayama, M.J. Case, S. Aino, M. Miyabe, K. Wakita, R. Oogi, M. Kasayuki, S. Kawashima, S. Sugimoto, K. Chikamatsu, N. Nitta, T. Koga, R. Shigemoto, T. Takai, I. Ito, PLoS One 12 (2017)."},"volume":12,"title":"PirB regulates asymmetries in hippocampal circuitry","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","publisher":"Public Library of Science","abstract":[{"text":"Left-right asymmetry is a fundamental feature of higher-order brain structure; however, the molecular basis of brain asymmetry remains unclear. We recently identified structural and functional asymmetries in mouse hippocampal circuitry that result from the asymmetrical distribution of two distinct populations of pyramidal cell synapses that differ in the density of the NMDA receptor subunit GluRε2 (also known as NR2B, GRIN2B or GluN2B). By examining the synaptic distribution of ε2 subunits, we previously found that β2-microglobulin-deficient mice, which lack cell surface expression of the vast majority of major histocompatibility complex class I (MHCI) proteins, do not exhibit circuit asymmetry. In the present study, we conducted electrophysiological and anatomical analyses on the hippocampal circuitry of mice with a knockout of the paired immunoglobulin-like receptor B (PirB), an MHCI receptor. As in β2-microglobulin-deficient mice, the PirB-deficient hippocampus lacked circuit asymmetries. This finding that MHCI loss-of-function mice and PirB knockout mice have identical phenotypes suggests that MHCI signals that produce hippocampal asymmetries are transduced through PirB. Our results provide evidence for a critical role of the MHCI/PirB signaling system in the generation of asymmetries in hippocampal circuitry.","lang":"eng"}],"intvolume":"        12","ddc":["571"],"has_accepted_license":"1","year":"2017","day":"01","article_type":"original","file_date_updated":"2020-07-14T12:47:40Z","date_created":"2018-12-11T11:47:54Z","date_updated":"2024-03-25T23:30:07Z","scopus_import":1,"publication_status":"published","date_published":"2017-06-01T00:00:00Z","publication":"PLoS One","month":"06","pubrep_id":"897","type":"journal_article","_id":"682","language":[{"iso":"eng"}],"author":[{"last_name":"Ukai","first_name":"Hikari","full_name":"Ukai, Hikari"},{"last_name":"Kawahara","first_name":"Aiko","full_name":"Kawahara, Aiko"},{"first_name":"Keiko","last_name":"Hirayama","full_name":"Hirayama, Keiko"},{"full_name":"Case, Matthew J","first_name":"Matthew J","last_name":"Case","id":"44B7CA5A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Aino","first_name":"Shotaro","full_name":"Aino, Shotaro"},{"first_name":"Masahiro","last_name":"Miyabe","full_name":"Miyabe, Masahiro"},{"full_name":"Wakita, Ken","last_name":"Wakita","first_name":"Ken"},{"full_name":"Oogi, Ryohei","last_name":"Oogi","first_name":"Ryohei"},{"last_name":"Kasayuki","first_name":"Michiyo","full_name":"Kasayuki, Michiyo"},{"full_name":"Kawashima, Shihomi","last_name":"Kawashima","first_name":"Shihomi"},{"full_name":"Sugimoto, Shunichi","last_name":"Sugimoto","first_name":"Shunichi"},{"last_name":"Chikamatsu","first_name":"Kanako","full_name":"Chikamatsu, Kanako"},{"full_name":"Nitta, Noritaka","last_name":"Nitta","first_name":"Noritaka"},{"full_name":"Koga, Tsuneyuki","last_name":"Koga","first_name":"Tsuneyuki"},{"id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","last_name":"Shigemoto","first_name":"Ryuichi","full_name":"Shigemoto, Ryuichi","orcid":"0000-0001-8761-9444"},{"full_name":"Takai, Toshiyuki","last_name":"Takai","first_name":"Toshiyuki"},{"full_name":"Ito, Isao","last_name":"Ito","first_name":"Isao"}],"department":[{"_id":"RySh"}],"publication_identifier":{"issn":["19326203"]},"oa":1,"oa_version":"Published Version","quality_controlled":"1","file":[{"access_level":"open_access","checksum":"24dd19c46fb1c761b0bcbbcd1025a3a8","file_size":5798454,"file_id":"4934","content_type":"application/pdf","file_name":"IST-2017-897-v1+1_journal.pone.0179377.pdf","date_created":"2018-12-12T10:12:16Z","date_updated":"2020-07-14T12:47:40Z","relation":"main_file","creator":"system"}],"publist_id":"7034","issue":"6","article_number":"e0179377","related_material":{"record":[{"relation":"dissertation_contains","id":"51","status":"public"}]},"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"}},{"department":[{"_id":"UlWa"}],"conference":{"start_date":"2017-07-04","location":"Brisbane, Australia","name":"SoCG: Symposium on Computational Geometry","end_date":"2017-07-07"},"file":[{"file_name":"IST-2017-896-v1+1_LIPIcs-SoCG-2017-49.pdf","date_created":"2018-12-12T10:17:12Z","content_type":"application/pdf","checksum":"24fdde981cc513352a78dcf9b0660ae9","file_id":"5265","file_size":710007,"access_level":"open_access","creator":"system","relation":"main_file","date_updated":"2020-07-14T12:47:41Z"}],"quality_controlled":"1","oa":1,"oa_version":"Published Version","related_material":{"record":[{"status":"public","id":"5986","relation":"later_version"}]},"article_number":"49","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publist_id":"7033","date_published":"2017-06-01T00:00:00Z","publication_status":"published","scopus_import":1,"date_updated":"2023-09-05T15:01:43Z","month":"06","pubrep_id":"896","_id":"683","type":"conference","language":[{"iso":"eng"}],"author":[{"last_name":"Lubiw","first_name":"Anna","full_name":"Lubiw, Anna"},{"first_name":"Zuzana","last_name":"Masárová","id":"45CFE238-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6660-1322","full_name":"Masárová, Zuzana"},{"id":"36690CA2-F248-11E8-B48F-1D18A9856A87","first_name":"Uli","last_name":"Wagner","full_name":"Wagner, Uli","orcid":"0000-0002-1494-0568"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","ddc":["514","516"],"has_accepted_license":"1","intvolume":"        77","abstract":[{"text":"Given a triangulation of a point set in the plane, a flip deletes an edge e whose removal leaves a convex quadrilateral, and replaces e by the opposite diagonal of the quadrilateral. It is well known that any triangulation of a point set can be reconfigured to any other triangulation by some sequence of flips. We explore this question in the setting where each edge of a triangulation has a label, and a flip transfers the label of the removed edge to the new edge. It is not true that every labelled triangulation of a point set can be reconfigured to every other labelled triangulation via a sequence of flips, but we characterize when this is possible. There is an obvious necessary condition: for each label l, if edge e has label l in the first triangulation and edge f has label l in the second triangulation, then there must be some sequence of flips that moves label l from e to f, ignoring all other labels. Bose, Lubiw, Pathak and Verdonschot formulated the Orbit Conjecture, which states that this necessary condition is also sufficient, i.e. that all labels can be simultaneously mapped to their destination if and only if each label individually can be mapped to its destination. We prove this conjecture. Furthermore, we give a polynomial-time algorithm to find a sequence of flips to reconfigure one labelled triangulation to another, if such a sequence exists, and we prove an upper bound of O(n7) on the length of the flip sequence. Our proof uses the topological result that the sets of pairwise non-crossing edges on a planar point set form a simplicial complex that is homeomorphic to a high-dimensional ball (this follows from a result of Orden and Santos; we give a different proof based on a shelling argument). The dual cell complex of this simplicial ball, called the flip complex, has the usual flip graph as its 1-skeleton. We use properties of the 2-skeleton of the flip complex to prove the Orbit Conjecture.","lang":"eng"}],"year":"2017","day":"01","file_date_updated":"2020-07-14T12:47:41Z","date_created":"2018-12-11T11:47:54Z","doi":"10.4230/LIPIcs.SoCG.2017.49","alternative_title":["LIPIcs"],"volume":77,"citation":{"short":"A. Lubiw, Z. Masárová, U. Wagner, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017.","ista":"Lubiw A, Masárová Z, Wagner U. 2017. A proof of the orbit conjecture for flipping edge labelled triangulations. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 77, 49.","apa":"Lubiw, A., Masárová, Z., &#38; Wagner, U. (2017). A proof of the orbit conjecture for flipping edge labelled triangulations (Vol. 77). Presented at the SoCG: Symposium on Computational Geometry, Brisbane, Australia: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2017.49\">https://doi.org/10.4230/LIPIcs.SoCG.2017.49</a>","chicago":"Lubiw, Anna, Zuzana Masárová, and Uli Wagner. “A Proof of the Orbit Conjecture for Flipping Edge Labelled Triangulations,” Vol. 77. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2017.49\">https://doi.org/10.4230/LIPIcs.SoCG.2017.49</a>.","ieee":"A. Lubiw, Z. Masárová, and U. Wagner, “A proof of the orbit conjecture for flipping edge labelled triangulations,” presented at the SoCG: Symposium on Computational Geometry, Brisbane, Australia, 2017, vol. 77.","mla":"Lubiw, Anna, et al. <i>A Proof of the Orbit Conjecture for Flipping Edge Labelled Triangulations</i>. Vol. 77, 49, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2017.49\">10.4230/LIPIcs.SoCG.2017.49</a>.","ama":"Lubiw A, Masárová Z, Wagner U. A proof of the orbit conjecture for flipping edge labelled triangulations. In: Vol 77. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2017. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2017.49\">10.4230/LIPIcs.SoCG.2017.49</a>"},"title":"A proof of the orbit conjecture for flipping edge labelled triangulations","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"Obligation blackwell games and p-automata","volume":82,"citation":{"ista":"Chatterjee K, Piterman N. 2017. Obligation blackwell games and p-automata. Journal of Symbolic Logic. 82(2), 420–452.","short":"K. Chatterjee, N. Piterman, Journal of Symbolic Logic 82 (2017) 420–452.","ieee":"K. Chatterjee and N. Piterman, “Obligation blackwell games and p-automata,” <i>Journal of Symbolic Logic</i>, vol. 82, no. 2. Cambridge University Press, pp. 420–452, 2017.","chicago":"Chatterjee, Krishnendu, and Nir Piterman. “Obligation Blackwell Games and P-Automata.” <i>Journal of Symbolic Logic</i>. Cambridge University Press, 2017. <a href=\"https://doi.org/10.1017/jsl.2016.71\">https://doi.org/10.1017/jsl.2016.71</a>.","apa":"Chatterjee, K., &#38; Piterman, N. (2017). Obligation blackwell games and p-automata. <i>Journal of Symbolic Logic</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/jsl.2016.71\">https://doi.org/10.1017/jsl.2016.71</a>","mla":"Chatterjee, Krishnendu, and Nir Piterman. “Obligation Blackwell Games and P-Automata.” <i>Journal of Symbolic Logic</i>, vol. 82, no. 2, Cambridge University Press, 2017, pp. 420–52, doi:<a href=\"https://doi.org/10.1017/jsl.2016.71\">10.1017/jsl.2016.71</a>.","ama":"Chatterjee K, Piterman N. Obligation blackwell games and p-automata. <i>Journal of Symbolic Logic</i>. 2017;82(2):420-452. doi:<a href=\"https://doi.org/10.1017/jsl.2016.71\">10.1017/jsl.2016.71</a>"},"doi":"10.1017/jsl.2016.71","date_created":"2018-12-11T11:47:54Z","day":"01","year":"2017","intvolume":"        82","abstract":[{"lang":"eng","text":"We generalize winning conditions in two-player games by adding a structural acceptance condition called obligations. Obligations are orthogonal to the linear winning conditions that define whether a play is winning. Obligations are a declaration that player 0 can achieve a certain value from a configuration. If the obligation is met, the value of that configuration for player 0 is 1. We define the value in such games and show that obligation games are determined. For Markov chains with Borel objectives and obligations, and finite turn-based stochastic parity games with obligations we give an alternative and simpler characterization of the value function. Based on this simpler definition we show that the decision problem of winning finite turn-based stochastic parity games with obligations is in NP∩co-NP. We also show that obligation games provide a game framework for reasoning about p-automata. © 2017 The Association for Symbolic Logic."}],"publisher":"Cambridge University Press","author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X"},{"last_name":"Piterman","first_name":"Nir","full_name":"Piterman, Nir"}],"language":[{"iso":"eng"}],"_id":"684","type":"journal_article","month":"06","article_processing_charge":"No","publication":"Journal of Symbolic Logic","date_published":"2017-06-01T00:00:00Z","scopus_import":"1","publication_status":"published","date_updated":"2021-04-16T12:10:53Z","page":"420 - 452","main_file_link":[{"url":"https://arxiv.org/abs/1206.5174","open_access":"1"}],"issue":"2","publist_id":"7026","oa_version":"Submitted Version","oa":1,"quality_controlled":"1","publication_identifier":{"issn":["0022-4812"],"eissn":["1943-5886"]},"department":[{"_id":"KrCh"}]},{"type":"conference","_id":"6841","title":"Extrapolation and learning equations","author":[{"first_name":"Georg S","last_name":"Martius","id":"3A276B68-F248-11E8-B48F-1D18A9856A87","full_name":"Martius, Georg S"},{"first_name":"Christoph","last_name":"Lampert","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","full_name":"Lampert, Christoph","orcid":"0000-0001-8622-7887"}],"language":[{"iso":"eng"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","status":"public","date_updated":"2021-01-12T08:09:17Z","arxiv":1,"date_published":"2017-02-21T00:00:00Z","scopus_import":1,"publication_status":"published","publication":"5th International Conference on Learning Representations, ICLR 2017 - Workshop Track Proceedings","month":"02","citation":{"ama":"Martius GS, Lampert C. Extrapolation and learning equations. In: <i>5th International Conference on Learning Representations, ICLR 2017 - Workshop Track Proceedings</i>. International Conference on Learning Representations; 2017.","mla":"Martius, Georg S., and Christoph Lampert. “Extrapolation and Learning Equations.” <i>5th International Conference on Learning Representations, ICLR 2017 - Workshop Track Proceedings</i>, International Conference on Learning Representations, 2017.","ieee":"G. S. Martius and C. Lampert, “Extrapolation and learning equations,” in <i>5th International Conference on Learning Representations, ICLR 2017 - Workshop Track Proceedings</i>, Toulon, France, 2017.","chicago":"Martius, Georg S, and Christoph Lampert. “Extrapolation and Learning Equations.” In <i>5th International Conference on Learning Representations, ICLR 2017 - Workshop Track Proceedings</i>. International Conference on Learning Representations, 2017.","apa":"Martius, G. S., &#38; Lampert, C. (2017). Extrapolation and learning equations. In <i>5th International Conference on Learning Representations, ICLR 2017 - Workshop Track Proceedings</i>. Toulon, France: International Conference on Learning Representations.","ista":"Martius GS, Lampert C. 2017. Extrapolation and learning equations. 5th International Conference on Learning Representations, ICLR 2017 - Workshop Track Proceedings. ICLR: International Conference on Learning Representations.","short":"G.S. Martius, C. Lampert, in:, 5th International Conference on Learning Representations, ICLR 2017 - Workshop Track Proceedings, International Conference on Learning Representations, 2017."},"external_id":{"arxiv":["1610.02995"]},"quality_controlled":"1","year":"2017","oa_version":"Preprint","oa":1,"day":"21","project":[{"call_identifier":"FP7","_id":"2532554C-B435-11E9-9278-68D0E5697425","name":"Lifelong Learning of Visual Scene Understanding","grant_number":"308036"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1610.02995"}],"date_created":"2019-09-01T22:01:00Z","ec_funded":1,"publisher":"International Conference on Learning Representations","department":[{"_id":"ChLa"}],"abstract":[{"lang":"eng","text":"In classical machine learning, regression is treated as a black box process of identifying a suitable function from a hypothesis set without attempting to gain insight into the mechanism connecting inputs and outputs. In the natural sciences, however, finding an interpretable function for a phenomenon is the prime goal as it allows to understand and generalize results. This paper proposes a novel type of function learning network, called equation learner (EQL), that can learn analytical expressions and is able to extrapolate to unseen domains. It is implemented as an end-to-end differentiable feed-forward network and allows for efficient gradient based training. Due to sparsity regularization concise interpretable expressions can be obtained. Often the true underlying source expression is identified."}],"conference":{"start_date":"2017-04-24","location":"Toulon, France","name":"ICLR: International Conference on Learning Representations","end_date":"2017-04-26"}},{"citation":{"ama":"Briscoe J, Kicheva A. The physics of development 100 years after D’Arcy Thompson’s “on growth and form.” <i>Mechanisms of Development</i>. 2017;145:26-31. doi:<a href=\"https://doi.org/10.1016/j.mod.2017.03.005\">10.1016/j.mod.2017.03.005</a>","mla":"Briscoe, James, and Anna Kicheva. “The Physics of Development 100 Years after D’Arcy Thompson’s ‘on Growth and Form.’” <i>Mechanisms of Development</i>, vol. 145, Elsevier, 2017, pp. 26–31, doi:<a href=\"https://doi.org/10.1016/j.mod.2017.03.005\">10.1016/j.mod.2017.03.005</a>.","chicago":"Briscoe, James, and Anna Kicheva. “The Physics of Development 100 Years after D’Arcy Thompson’s ‘on Growth and Form.’” <i>Mechanisms of Development</i>. Elsevier, 2017. <a href=\"https://doi.org/10.1016/j.mod.2017.03.005\">https://doi.org/10.1016/j.mod.2017.03.005</a>.","ieee":"J. Briscoe and A. Kicheva, “The physics of development 100 years after D’Arcy Thompson’s ‘on growth and form,’” <i>Mechanisms of Development</i>, vol. 145. Elsevier, pp. 26–31, 2017.","apa":"Briscoe, J., &#38; Kicheva, A. (2017). The physics of development 100 years after D’Arcy Thompson’s “on growth and form.” <i>Mechanisms of Development</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.mod.2017.03.005\">https://doi.org/10.1016/j.mod.2017.03.005</a>","short":"J. Briscoe, A. Kicheva, Mechanisms of Development 145 (2017) 26–31.","ista":"Briscoe J, Kicheva A. 2017. The physics of development 100 years after D’Arcy Thompson’s “on growth and form”. Mechanisms of Development. 145, 26–31."},"volume":145,"doi":"10.1016/j.mod.2017.03.005","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"The physics of development 100 years after D'Arcy Thompson's “on growth and form”","abstract":[{"text":"By applying methods and principles from the physical sciences to biological problems, D'Arcy Thompson's On Growth and Form demonstrated how mathematical reasoning reveals elegant, simple explanations for seemingly complex processes. This has had a profound influence on subsequent generations of developmental biologists. We discuss how this influence can be traced through twentieth century morphologists, embryologists and theoreticians to current research that explores the molecular and cellular mechanisms of tissue growth and patterning, including our own studies of the vertebrate neural tube.","lang":"eng"}],"intvolume":"       145","ddc":["571"],"has_accepted_license":"1","publisher":"Elsevier","project":[{"grant_number":"680037","name":"Coordination of Patterning And Growth In the Spinal Cord","_id":"B6FC0238-B512-11E9-945C-1524E6697425","call_identifier":"H2020"}],"file_date_updated":"2020-07-14T12:47:42Z","date_created":"2018-12-11T11:47:55Z","day":"01","year":"2017","pubrep_id":"985","month":"06","external_id":{"pmid":["28366718"]},"page":"26 - 31","date_updated":"2021-01-12T08:09:20Z","publication":"Mechanisms of Development","date_published":"2017-06-01T00:00:00Z","scopus_import":1,"publication_status":"published","language":[{"iso":"eng"}],"author":[{"full_name":"Briscoe, James","last_name":"Briscoe","first_name":"James"},{"orcid":"0000-0003-4509-4998","full_name":"Kicheva, Anna","id":"3959A2A0-F248-11E8-B48F-1D18A9856A87","first_name":"Anna","last_name":"Kicheva"}],"type":"journal_article","_id":"685","publication_identifier":{"issn":["09254773"]},"ec_funded":1,"department":[{"_id":"AnKi"}],"pmid":1,"publist_id":"7025","quality_controlled":"1","oa_version":"Submitted Version","oa":1,"file":[{"access_level":"open_access","checksum":"727043d2e4199fbef6b3704e6d1ac105","file_id":"6335","file_size":652313,"content_type":"application/pdf","file_name":"2017_Briscoe_Kicheva_and_DArcy_accepted_version.pdf","date_created":"2019-04-17T07:58:48Z","date_updated":"2020-07-14T12:47:42Z","relation":"main_file","creator":"dernst"}]},{"title":"D'Arcy Thompson's ‘on growth and form’: From soap bubbles to tissue self organization","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","language":[{"iso":"eng"}],"author":[{"orcid":"0000-0002-0912-4566","full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J","last_name":"Heisenberg","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"type":"journal_article","_id":"686","month":"06","citation":{"apa":"Heisenberg, C.-P. J. (2017). D’Arcy Thompson’s ‘on growth and form’: From soap bubbles to tissue self organization. <i>Mechanisms of Development</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.mod.2017.03.006\">https://doi.org/10.1016/j.mod.2017.03.006</a>","chicago":"Heisenberg, Carl-Philipp J. “D’Arcy Thompson’s ‘on Growth and Form’: From Soap Bubbles to Tissue Self Organization.” <i>Mechanisms of Development</i>. Elsevier, 2017. <a href=\"https://doi.org/10.1016/j.mod.2017.03.006\">https://doi.org/10.1016/j.mod.2017.03.006</a>.","ieee":"C.-P. J. Heisenberg, “D’Arcy Thompson’s ‘on growth and form’: From soap bubbles to tissue self organization,” <i>Mechanisms of Development</i>, vol. 145. Elsevier, pp. 32–37, 2017.","ista":"Heisenberg C-PJ. 2017. D’Arcy Thompson’s ‘on growth and form’: From soap bubbles to tissue self organization. Mechanisms of Development. 145, 32–37.","short":"C.-P.J. Heisenberg, Mechanisms of Development 145 (2017) 32–37.","ama":"Heisenberg C-PJ. D’Arcy Thompson’s ‘on growth and form’: From soap bubbles to tissue self organization. <i>Mechanisms of Development</i>. 2017;145:32-37. doi:<a href=\"https://doi.org/10.1016/j.mod.2017.03.006\">10.1016/j.mod.2017.03.006</a>","mla":"Heisenberg, Carl-Philipp J. “D’Arcy Thompson’s ‘on Growth and Form’: From Soap Bubbles to Tissue Self Organization.” <i>Mechanisms of Development</i>, vol. 145, Elsevier, 2017, pp. 32–37, doi:<a href=\"https://doi.org/10.1016/j.mod.2017.03.006\">10.1016/j.mod.2017.03.006</a>."},"volume":145,"doi":"10.1016/j.mod.2017.03.006","date_updated":"2021-01-12T08:09:23Z","page":"32 - 37","publication_status":"published","scopus_import":1,"date_published":"2017-06-01T00:00:00Z","publication":"Mechanisms of Development","publist_id":"7024","date_created":"2018-12-11T11:47:55Z","oa_version":"None","quality_controlled":"1","year":"2017","day":"01","intvolume":"       145","abstract":[{"lang":"eng","text":"Tissues are thought to behave like fluids with a given surface tension. Differences in tissue surface tension (TST) have been proposed to trigger cell sorting and tissue envelopment. D'Arcy Thompson in his seminal book ‘On Growth and Form’ has introduced this concept of differential TST as a key physical mechanism dictating tissue formation and organization within the developing organism. Over the past century, many studies have picked up the concept of differential TST and analyzed the role and cell biological basis of TST in development, underlining the importance and influence of this concept in developmental biology."}],"publication_identifier":{"issn":["09254773"]},"publisher":"Elsevier","department":[{"_id":"CaHe"}]},{"publisher":"Oxford University Press","abstract":[{"lang":"eng","text":"Pursuing the similarity between the Kontsevich-Soibelman construction of the cohomological Hall algebra (CoHA) of BPS states and Lusztig's construction of canonical bases for quantum enveloping algebras, and the similarity between the integrality conjecture for motivic Donaldson-Thomas invariants and the PBW theorem for quantum enveloping algebras, we build a coproduct on the CoHA associated to a quiver with potential. We also prove a cohomological dimensional reduction theorem, further linking a special class of CoHAs with Yangians, and explaining how to connect the study of character varieties with the study of CoHAs."}],"intvolume":"        68","day":"01","year":"2017","project":[{"call_identifier":"FP7","name":"Arithmetic and physics of Higgs moduli spaces","_id":"25E549F4-B435-11E9-9278-68D0E5697425","grant_number":"320593"}],"date_created":"2018-12-11T11:47:55Z","doi":"10.1093/qmath/haw053","citation":{"chicago":"Davison, Ben. “The Critical CoHA of a Quiver with Potential.” <i>Quarterly Journal of Mathematics</i>. Oxford University Press, 2017. <a href=\"https://doi.org/10.1093/qmath/haw053\">https://doi.org/10.1093/qmath/haw053</a>.","ieee":"B. Davison, “The critical CoHA of a quiver with potential,” <i>Quarterly Journal of Mathematics</i>, vol. 68, no. 2. Oxford University Press, pp. 635–703, 2017.","apa":"Davison, B. (2017). The critical CoHA of a quiver with potential. <i>Quarterly Journal of Mathematics</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/qmath/haw053\">https://doi.org/10.1093/qmath/haw053</a>","short":"B. Davison, Quarterly Journal of Mathematics 68 (2017) 635–703.","ista":"Davison B. 2017. The critical CoHA of a quiver with potential. Quarterly Journal of Mathematics. 68(2), 635–703.","ama":"Davison B. The critical CoHA of a quiver with potential. <i>Quarterly Journal of Mathematics</i>. 2017;68(2):635-703. doi:<a href=\"https://doi.org/10.1093/qmath/haw053\">10.1093/qmath/haw053</a>","mla":"Davison, Ben. “The Critical CoHA of a Quiver with Potential.” <i>Quarterly Journal of Mathematics</i>, vol. 68, no. 2, Oxford University Press, 2017, pp. 635–703, doi:<a href=\"https://doi.org/10.1093/qmath/haw053\">10.1093/qmath/haw053</a>."},"volume":68,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"The critical CoHA of a quiver with potential","ec_funded":1,"department":[{"_id":"TaHa"}],"publication_identifier":{"issn":["00335606"]},"oa":1,"quality_controlled":"1","oa_version":"Submitted Version","main_file_link":[{"url":"https://arxiv.org/abs/1311.7172","open_access":"1"}],"issue":"2","publist_id":"7022","date_updated":"2021-01-12T08:09:24Z","page":"635 - 703","publication":"Quarterly Journal of Mathematics","date_published":"2017-06-01T00:00:00Z","scopus_import":1,"publication_status":"published","month":"06","type":"journal_article","_id":"687","language":[{"iso":"eng"}],"author":[{"full_name":"Davison, Ben","orcid":"0000-0002-8944-4390","id":"4634AB1E-F248-11E8-B48F-1D18A9856A87","last_name":"Davison","first_name":"Ben"}]},{"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","abstract":[{"text":"We show that the framework of topological data analysis can be extended from metrics to general Bregman divergences, widening the scope of possible applications. Examples are the Kullback - Leibler divergence, which is commonly used for comparing text and images, and the Itakura - Saito divergence, popular for speech and sound. In particular, we prove that appropriately generalized čech and Delaunay (alpha) complexes capture the correct homotopy type, namely that of the corresponding union of Bregman balls. Consequently, their filtrations give the correct persistence diagram, namely the one generated by the uniformly growing Bregman balls. Moreover, we show that unlike the metric setting, the filtration of Vietoris-Rips complexes may fail to approximate the persistence diagram. We propose algorithms to compute the thus generalized čech, Vietoris-Rips and Delaunay complexes and experimentally test their efficiency. Lastly, we explain their surprisingly good performance by making a connection with discrete Morse theory. ","lang":"eng"}],"intvolume":"        77","has_accepted_license":"1","ddc":["514","516"],"day":"01","year":"2017","file_date_updated":"2020-07-14T12:47:42Z","date_created":"2018-12-11T11:47:56Z","doi":"10.4230/LIPIcs.SoCG.2017.39","citation":{"ama":"Edelsbrunner H, Wagner H. Topological data analysis with Bregman divergences. In: Vol 77. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2017:391-3916. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2017.39\">10.4230/LIPIcs.SoCG.2017.39</a>","mla":"Edelsbrunner, Herbert, and Hubert Wagner. <i>Topological Data Analysis with Bregman Divergences</i>. Vol. 77, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017, pp. 391–3916, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2017.39\">10.4230/LIPIcs.SoCG.2017.39</a>.","ieee":"H. Edelsbrunner and H. Wagner, “Topological data analysis with Bregman divergences,” presented at the Symposium on Computational Geometry, SoCG, Brisbane, Australia, 2017, vol. 77, pp. 391–3916.","chicago":"Edelsbrunner, Herbert, and Hubert Wagner. “Topological Data Analysis with Bregman Divergences,” 77:391–3916. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2017.39\">https://doi.org/10.4230/LIPIcs.SoCG.2017.39</a>.","apa":"Edelsbrunner, H., &#38; Wagner, H. (2017). Topological data analysis with Bregman divergences (Vol. 77, pp. 391–3916). Presented at the Symposium on Computational Geometry, SoCG, Brisbane, Australia: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2017.39\">https://doi.org/10.4230/LIPIcs.SoCG.2017.39</a>","short":"H. Edelsbrunner, H. Wagner, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017, pp. 391–3916.","ista":"Edelsbrunner H, Wagner H. 2017. Topological data analysis with Bregman divergences. Symposium on Computational Geometry, SoCG, LIPIcs, vol. 77, 391–3916."},"alternative_title":["LIPIcs"],"volume":77,"status":"public","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","title":"Topological data analysis with Bregman divergences","department":[{"_id":"HeEd"},{"_id":"UlWa"}],"conference":{"location":"Brisbane, Australia","start_date":"2017-07-04","end_date":"2017-07-07","name":"Symposium on Computational Geometry, SoCG"},"publication_identifier":{"issn":["18688969"]},"oa_version":"Published Version","quality_controlled":"1","oa":1,"file":[{"date_updated":"2020-07-14T12:47:42Z","relation":"main_file","creator":"system","access_level":"open_access","file_size":990546,"file_id":"4856","checksum":"067ab0cb3f962bae6c3af6bf0094e0f3","content_type":"application/pdf","date_created":"2018-12-12T10:11:03Z","file_name":"IST-2017-895-v1+1_LIPIcs-SoCG-2017-39.pdf"}],"publist_id":"7021","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_updated":"2021-01-12T08:09:26Z","page":"391-3916","publication_status":"published","date_published":"2017-06-01T00:00:00Z","scopus_import":1,"month":"06","pubrep_id":"895","type":"conference","_id":"688","author":[{"last_name":"Edelsbrunner","first_name":"Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9823-6833","full_name":"Edelsbrunner, Herbert"},{"id":"379CA8B8-F248-11E8-B48F-1D18A9856A87","first_name":"Hubert","last_name":"Wagner","full_name":"Wagner, Hubert"}],"language":[{"iso":"eng"}]},{"day":"07","year":"2017","quality_controlled":"1","oa_version":"None","date_created":"2018-12-11T11:47:56Z","article_number":"eaan8196","issue":"393","publist_id":"7019","department":[{"_id":"GaNo"}],"publisher":"American Association for the Advancement of Science","publication_identifier":{"issn":["19466234"]},"intvolume":"         9","abstract":[{"text":"Rett syndrome modeling in monkey mirrors the human disorder.","lang":"eng"}],"_id":"689","type":"journal_article","status":"public","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"author":[{"last_name":"Novarino","first_name":"Gaia","id":"3E57A680-F248-11E8-B48F-1D18A9856A87","full_name":"Novarino, Gaia","orcid":"0000-0002-7673-7178"}],"title":"Rett syndrome modeling goes simian","publication":"Science Translational Medicine","date_published":"2017-06-07T00:00:00Z","scopus_import":1,"publication_status":"published","date_updated":"2021-01-12T08:09:29Z","doi":"10.1126/scitranslmed.aan8196","volume":9,"citation":{"mla":"Novarino, Gaia. “Rett Syndrome Modeling Goes Simian.” <i>Science Translational Medicine</i>, vol. 9, no. 393, eaan8196, American Association for the Advancement of Science, 2017, doi:<a href=\"https://doi.org/10.1126/scitranslmed.aan8196\">10.1126/scitranslmed.aan8196</a>.","ama":"Novarino G. Rett syndrome modeling goes simian. <i>Science Translational Medicine</i>. 2017;9(393). doi:<a href=\"https://doi.org/10.1126/scitranslmed.aan8196\">10.1126/scitranslmed.aan8196</a>","short":"G. Novarino, Science Translational Medicine 9 (2017).","ista":"Novarino G. 2017. Rett syndrome modeling goes simian. Science Translational Medicine. 9(393), eaan8196.","apa":"Novarino, G. (2017). Rett syndrome modeling goes simian. <i>Science Translational Medicine</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/scitranslmed.aan8196\">https://doi.org/10.1126/scitranslmed.aan8196</a>","ieee":"G. Novarino, “Rett syndrome modeling goes simian,” <i>Science Translational Medicine</i>, vol. 9, no. 393. American Association for the Advancement of Science, 2017.","chicago":"Novarino, Gaia. “Rett Syndrome Modeling Goes Simian.” <i>Science Translational Medicine</i>. American Association for the Advancement of Science, 2017. <a href=\"https://doi.org/10.1126/scitranslmed.aan8196\">https://doi.org/10.1126/scitranslmed.aan8196</a>."},"month":"06"},{"date_updated":"2023-02-23T12:54:57Z","page":"E5246 - E5255","article_processing_charge":"Yes (in subscription journal)","publication":"PNAS","date_published":"2017-06-27T00:00:00Z","scopus_import":1,"publication_status":"published","month":"06","external_id":{"pmid":["28607047"]},"type":"journal_article","_id":"693","author":[{"full_name":"Miki, Takafumi","first_name":"Takafumi","last_name":"Miki"},{"full_name":"Kaufmann, Walter","orcid":"0000-0001-9735-5315","first_name":"Walter","last_name":"Kaufmann","id":"3F99E422-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Malagon","first_name":"Gerardo","full_name":"Malagon, Gerardo"},{"full_name":"Gomez, Laura","last_name":"Gomez","first_name":"Laura"},{"first_name":"Katsuhiko","last_name":"Tabuchi","full_name":"Tabuchi, Katsuhiko"},{"last_name":"Watanabe","first_name":"Masahiko","full_name":"Watanabe, Masahiko"},{"last_name":"Shigemoto","first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","full_name":"Shigemoto, Ryuichi","orcid":"0000-0001-8761-9444"},{"first_name":"Alain","last_name":"Marty","full_name":"Marty, Alain"}],"language":[{"iso":"eng"}],"department":[{"_id":"EM-Fac"},{"_id":"RySh"}],"publication_identifier":{"issn":["00278424"]},"quality_controlled":"1","oa_version":"Published Version","oa":1,"file":[{"access_level":"open_access","checksum":"2ab75d554f3df4a34d20fa8040589b7e","file_size":2721544,"file_id":"7223","content_type":"application/pdf","file_name":"2017_PNAS_Miki.pdf","date_created":"2020-01-03T13:27:29Z","date_updated":"2020-07-14T12:47:44Z","relation":"main_file","creator":"kschuh"}],"issue":"26","pmid":1,"publist_id":"7013","doi":"10.1073/pnas.1704470114","citation":{"short":"T. Miki, W. Kaufmann, G. Malagon, L. Gomez, K. Tabuchi, M. Watanabe, R. Shigemoto, A. Marty, PNAS 114 (2017) E5246–E5255.","ista":"Miki T, Kaufmann W, Malagon G, Gomez L, Tabuchi K, Watanabe M, Shigemoto R, Marty A. 2017. Numbers of presynaptic Ca2+ channel clusters match those of functionally defined vesicular docking sites in single central synapses. PNAS. 114(26), E5246–E5255.","chicago":"Miki, Takafumi, Walter Kaufmann, Gerardo Malagon, Laura Gomez, Katsuhiko Tabuchi, Masahiko Watanabe, Ryuichi Shigemoto, and Alain Marty. “Numbers of Presynaptic Ca2+ Channel Clusters Match Those of Functionally Defined Vesicular Docking Sites in Single Central Synapses.” <i>PNAS</i>. National Academy of Sciences, 2017. <a href=\"https://doi.org/10.1073/pnas.1704470114\">https://doi.org/10.1073/pnas.1704470114</a>.","ieee":"T. Miki <i>et al.</i>, “Numbers of presynaptic Ca2+ channel clusters match those of functionally defined vesicular docking sites in single central synapses,” <i>PNAS</i>, vol. 114, no. 26. National Academy of Sciences, pp. E5246–E5255, 2017.","apa":"Miki, T., Kaufmann, W., Malagon, G., Gomez, L., Tabuchi, K., Watanabe, M., … Marty, A. (2017). Numbers of presynaptic Ca2+ channel clusters match those of functionally defined vesicular docking sites in single central synapses. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1704470114\">https://doi.org/10.1073/pnas.1704470114</a>","mla":"Miki, Takafumi, et al. “Numbers of Presynaptic Ca2+ Channel Clusters Match Those of Functionally Defined Vesicular Docking Sites in Single Central Synapses.” <i>PNAS</i>, vol. 114, no. 26, National Academy of Sciences, 2017, pp. E5246–55, doi:<a href=\"https://doi.org/10.1073/pnas.1704470114\">10.1073/pnas.1704470114</a>.","ama":"Miki T, Kaufmann W, Malagon G, et al. Numbers of presynaptic Ca2+ channel clusters match those of functionally defined vesicular docking sites in single central synapses. <i>PNAS</i>. 2017;114(26):E5246-E5255. doi:<a href=\"https://doi.org/10.1073/pnas.1704470114\">10.1073/pnas.1704470114</a>"},"volume":114,"status":"public","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","title":"Numbers of presynaptic Ca2+ channel clusters match those of functionally defined vesicular docking sites in single central synapses","publisher":"National Academy of Sciences","abstract":[{"text":"Many central synapses contain a single presynaptic active zone and a single postsynaptic density. Vesicular release statistics at such “simple synapses” indicate that they contain a small complement of docking sites where vesicles repetitively dock and fuse. In this work, we investigate functional and morphological aspects of docking sites at simple synapses made between cerebellar parallel fibers and molecular layer interneurons. Using immunogold labeling of SDS-treated freeze-fracture replicas, we find that Cav2.1 channels form several clusters per active zone with about nine channels per cluster. The mean value and range of intersynaptic variation are similar for Cav2.1 cluster numbers and for functional estimates of docking-site numbers obtained from the maximum numbers of released vesicles per action potential. Both numbers grow in relation with synaptic size and decrease by a similar extent with age between 2 wk and 4 wk postnatal. Thus, the mean docking-site numbers were 3.15 at 2 wk (range: 1–10) and 2.03 at 4 wk (range: 1–4), whereas the mean numbers of Cav2.1 clusters were 2.84 at 2 wk (range: 1–8) and 2.37 at 4 wk (range: 1–5). These changes were accompanied by decreases of miniature current amplitude (from 93 pA to 56 pA), active-zone surface area (from 0.0427 μm2 to 0.0234 μm2), and initial success rate (from 0.609 to 0.353), indicating a tightening of synaptic transmission with development. Altogether, these results suggest a close correspondence between the number of functionally defined vesicular docking sites and that of clusters of voltage-gated calcium channels. ","lang":"eng"}],"intvolume":"       114","has_accepted_license":"1","ddc":["570"],"day":"27","year":"2017","date_created":"2018-12-11T11:47:57Z","file_date_updated":"2020-07-14T12:47:44Z"},{"date_created":"2019-10-08T12:47:46Z","day":"01","quality_controlled":"1","year":"2017","oa_version":"None","publication_identifier":{"isbn":["9781450349925"]},"conference":{"end_date":"2017-07-27","name":"PODC: Principles of Distributed Computing","start_date":"2017-07-25","location":"Washington, DC, United States"},"abstract":[{"lang":"eng","text":"LCLs or locally checkable labelling problems (e.g. maximal independent set, maximal matching, and vertex colouring) in the LOCAL model of computation are very well-understood in cycles (toroidal 1-dimensional grids): every problem has a complexity of O(1), Θ(log* n), or Θ(n), and the design of optimal algorithms can be fully automated. This work develops the complexity theory of LCL problems for toroidal 2-dimensional grids. The complexity classes are the same as in the 1-dimensional case: O(1), Θ(log* n), and Θ(n). However, given an LCL problem it is undecidable whether its complexity is Θ(log* n) or Θ(n) in 2-dimensional grids.\r\nNevertheless, if we correctly guess that the complexity of a problem is Θ(log* n), we can completely automate the design of optimal algorithms. For any problem we can find an algorithm that is of a normal form A' o Sk, where A' is a finite function, Sk is an algorithm for finding a maximal independent set in kth power of the grid, and k is a constant.\r\nFinally, partially with the help of automated design tools, we classify the complexity of several concrete LCL problems related to colourings and orientations."}],"extern":"1","publisher":"ACM Press","language":[{"iso":"eng"}],"author":[{"last_name":"Brandt","first_name":"Sebastian","full_name":"Brandt, Sebastian"},{"last_name":"Hirvonen","first_name":"Juho","full_name":"Hirvonen, Juho"},{"last_name":"Korhonen","first_name":"Janne H.","full_name":"Korhonen, Janne H."},{"first_name":"Tuomo","last_name":"Lempiäinen","full_name":"Lempiäinen, Tuomo"},{"first_name":"Patric R.J.","last_name":"Östergård","full_name":"Östergård, Patric R.J."},{"last_name":"Purcell","first_name":"Christopher","full_name":"Purcell, Christopher"},{"full_name":"Rybicki, Joel","orcid":"0000-0002-6432-6646","last_name":"Rybicki","first_name":"Joel","id":"334EFD2E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Suomela, Jukka","last_name":"Suomela","first_name":"Jukka"},{"full_name":"Uznański, Przemysław","first_name":"Przemysław","last_name":"Uznański"}],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"LCL problems on grids","_id":"6932","type":"conference","citation":{"ieee":"S. Brandt <i>et al.</i>, “LCL problems on grids,” presented at the PODC: Principles of Distributed Computing, Washington, DC, United States, 2017, pp. 101–110.","chicago":"Brandt, Sebastian, Juho Hirvonen, Janne H. Korhonen, Tuomo Lempiäinen, Patric R.J. Östergård, Christopher Purcell, Joel Rybicki, Jukka Suomela, and Przemysław Uznański. “LCL Problems on Grids,” 101–10. ACM Press, 2017. <a href=\"https://doi.org/10.1145/3087801.3087833\">https://doi.org/10.1145/3087801.3087833</a>.","apa":"Brandt, S., Hirvonen, J., Korhonen, J. H., Lempiäinen, T., Östergård, P. R. J., Purcell, C., … Uznański, P. (2017). LCL problems on grids (pp. 101–110). Presented at the PODC: Principles of Distributed Computing, Washington, DC, United States: ACM Press. <a href=\"https://doi.org/10.1145/3087801.3087833\">https://doi.org/10.1145/3087801.3087833</a>","short":"S. Brandt, J. Hirvonen, J.H. Korhonen, T. Lempiäinen, P.R.J. Östergård, C. Purcell, J. Rybicki, J. Suomela, P. Uznański, in:, ACM Press, 2017, pp. 101–110.","ista":"Brandt S, Hirvonen J, Korhonen JH, Lempiäinen T, Östergård PRJ, Purcell C, Rybicki J, Suomela J, Uznański P. 2017. LCL problems on grids. PODC: Principles of Distributed Computing, 101–110.","ama":"Brandt S, Hirvonen J, Korhonen JH, et al. LCL problems on grids. In: ACM Press; 2017:101-110. doi:<a href=\"https://doi.org/10.1145/3087801.3087833\">10.1145/3087801.3087833</a>","mla":"Brandt, Sebastian, et al. <i>LCL Problems on Grids</i>. ACM Press, 2017, pp. 101–10, doi:<a href=\"https://doi.org/10.1145/3087801.3087833\">10.1145/3087801.3087833</a>."},"month":"07","article_processing_charge":"No","date_published":"2017-07-01T00:00:00Z","publication_status":"published","page":"101-110","date_updated":"2021-01-12T08:09:39Z","doi":"10.1145/3087801.3087833"},{"month":"07","external_id":{"pmid":["28515231"]},"page":"2172 - 2184","date_updated":"2021-01-12T08:09:41Z","date_published":"2017-07-01T00:00:00Z","scopus_import":1,"publication_status":"published","publication":"Journal of Cell Science","author":[{"full_name":"Veß, Astrid","last_name":"Veß","first_name":"Astrid"},{"full_name":"Blache, Ulrich","last_name":"Blache","first_name":"Ulrich"},{"first_name":"Laura","last_name":"Leitner","full_name":"Leitner, Laura"},{"full_name":"Kurz, Angela","last_name":"Kurz","first_name":"Angela"},{"full_name":"Ehrenpfordt, Anja","first_name":"Anja","last_name":"Ehrenpfordt"},{"full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179","last_name":"Sixt","first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Guido","last_name":"Posern","full_name":"Posern, Guido"}],"language":[{"iso":"eng"}],"type":"journal_article","_id":"694","publication_identifier":{"issn":["00219533"]},"department":[{"_id":"MiSi"}],"publist_id":"7008","pmid":1,"issue":"13","oa_version":"Published Version","oa":1,"quality_controlled":"1","file":[{"content_type":"application/pdf","date_created":"2019-10-24T09:43:56Z","file_name":"2017_CellScience_Vess.pdf","access_level":"open_access","file_size":10847596,"file_id":"6966","checksum":"42c81a0a4fc3128883b391c3af3f74bc","creator":"dernst","date_updated":"2020-07-14T12:47:45Z","relation":"main_file"}],"citation":{"apa":"Veß, A., Blache, U., Leitner, L., Kurz, A., Ehrenpfordt, A., Sixt, M. K., &#38; Posern, G. (2017). A dual phenotype of MDA MB 468 cancer cells reveals mutual regulation of tensin3 and adhesion plasticity. <i>Journal of Cell Science</i>. Company of Biologists. <a href=\"https://doi.org/10.1242/jcs.200899\">https://doi.org/10.1242/jcs.200899</a>","chicago":"Veß, Astrid, Ulrich Blache, Laura Leitner, Angela Kurz, Anja Ehrenpfordt, Michael K Sixt, and Guido Posern. “A Dual Phenotype of MDA MB 468 Cancer Cells Reveals Mutual Regulation of Tensin3 and Adhesion Plasticity.” <i>Journal of Cell Science</i>. Company of Biologists, 2017. <a href=\"https://doi.org/10.1242/jcs.200899\">https://doi.org/10.1242/jcs.200899</a>.","ieee":"A. Veß <i>et al.</i>, “A dual phenotype of MDA MB 468 cancer cells reveals mutual regulation of tensin3 and adhesion plasticity,” <i>Journal of Cell Science</i>, vol. 130, no. 13. Company of Biologists, pp. 2172–2184, 2017.","ista":"Veß A, Blache U, Leitner L, Kurz A, Ehrenpfordt A, Sixt MK, Posern G. 2017. A dual phenotype of MDA MB 468 cancer cells reveals mutual regulation of tensin3 and adhesion plasticity. Journal of Cell Science. 130(13), 2172–2184.","short":"A. Veß, U. Blache, L. Leitner, A. Kurz, A. Ehrenpfordt, M.K. Sixt, G. Posern, Journal of Cell Science 130 (2017) 2172–2184.","ama":"Veß A, Blache U, Leitner L, et al. A dual phenotype of MDA MB 468 cancer cells reveals mutual regulation of tensin3 and adhesion plasticity. <i>Journal of Cell Science</i>. 2017;130(13):2172-2184. doi:<a href=\"https://doi.org/10.1242/jcs.200899\">10.1242/jcs.200899</a>","mla":"Veß, Astrid, et al. “A Dual Phenotype of MDA MB 468 Cancer Cells Reveals Mutual Regulation of Tensin3 and Adhesion Plasticity.” <i>Journal of Cell Science</i>, vol. 130, no. 13, Company of Biologists, 2017, pp. 2172–84, doi:<a href=\"https://doi.org/10.1242/jcs.200899\">10.1242/jcs.200899</a>."},"volume":130,"doi":"10.1242/jcs.200899","title":"A dual phenotype of MDA MB 468 cancer cells reveals mutual regulation of tensin3 and adhesion plasticity","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","intvolume":"       130","abstract":[{"lang":"eng","text":"A change regarding the extent of adhesion - hereafter referred to as adhesion plasticity - between adhesive and less-adhesive states of mammalian cells is important for their behavior. To investigate adhesion plasticity, we have selected a stable isogenic subpopulation of human MDA-MB-468 breast carcinoma cells growing in suspension. These suspension cells are unable to re-adhere to various matrices or to contract three-dimensional collagen lattices. By using transcriptome analysis, we identified the focal adhesion protein tensin3 (Tns3) as a determinant of adhesion plasticity. Tns3 is strongly reduced at mRNA and protein levels in suspension cells. Furthermore, by transiently challenging breast cancer cells to grow under non-adherent conditions markedly reduces Tns3 protein expression, which is regained upon re-adhesion. Stable knockdown of Tns3 in parental MDA-MB-468 cells results in defective adhesion, spreading and migration. Tns3-knockdown cells display impaired structure and dynamics of focal adhesion complexes as determined by immunostaining. Restoration of Tns3 protein expression in suspension cells partially rescues adhesion and focal contact composition. Our work identifies Tns3 as a crucial focal adhesion component regulated by, and functionally contributing to, the switch between adhesive and non-adhesive states in MDA-MB-468 cancer cells."}],"has_accepted_license":"1","ddc":["570"],"publisher":"Company of Biologists","file_date_updated":"2020-07-14T12:47:45Z","date_created":"2018-12-11T11:47:58Z","year":"2017","day":"01","article_type":"original"},{"publication_identifier":{"issn":["03672530"]},"intvolume":"       232","abstract":[{"lang":"eng","text":"It has been known since Stefan Vogel's observations in 1969 that solitary female oil bees collect fatty floral oils from specialized oil-secreting plants with the aid of hairy patches on either their legs or abdomen, a reward used as food for their larvae and/or to line their brood cells. Similar adaptations are also known from male oil bees, although the purpose of their oil-collecting behavior has not yet been clarified. Here, we describe a novel pollination system involving male Paratetrapedia oil bees and the tropical herb Anthurium acutifolium. We present ultrastructural morphological details of bee and plant structures involved in this interaction and the composition of floral scents likely mediating pollinator attraction. Inflorescences of A. acutifolium were visited almost exclusively by male P. chocoensis oil bees. The bees mopped with a hairy patch of their abdominal sterna 3 across the inflorescence surface. During this activity on both staminate and pistillate stage inflorescences, bees’ abdomens and legs became loaded with pollen and contacted receptive stigmas. In contrast to what has been observed in other angiosperms visited for the collection of fatty floral oils, the inflorescences/flowers of A. acutifolium do not have structures specialized in oil secretion, i.e., elaiophores. These inflorescences, nonetheless, were strongly scented during the time interval they were visited by the bees. Gas chromatography/mass spectrometry (GC/MS) analyses of dynamic headspace floral samples revealed that inflorescences of both anthetic phases emitted scent bouquets consisting mainly of aliphatic esters, indole and uncommmon terpenoids (megastigmanes). Interestingly enough, our data suggest that the unusual floral scent of A. acutifolium is a perfume reward collected by male P. chocoensis oil bees. This pollination system thus bears a remarkable resemblence with the interactions between perfume-collecting male euglossine bees and their preferred flowers, discovered by Stefan Vogel half a century ago."}],"publisher":"Elsevier","extern":"1","date_created":"2018-12-11T11:47:58Z","publist_id":"7007","quality_controlled":"1","oa_version":"None","year":"2017","day":"01","volume":232,"month":"07","citation":{"short":"F. Etl, A. Franschitz, A. Aguiar, J. Schönenberger, S. Dötterl, Flora: Morphology, Distribution, Functional Ecology of Plants 232 (2017) 7–15.","ista":"Etl F, Franschitz A, Aguiar A, Schönenberger J, Dötterl S. 2017. A perfume collecting male oil bee? Evidences of a novel pollination system involving Anthurium acutifolium Araceae and Paratetrapedia chocoensis Apidae Tapinotaspidini. Flora: Morphology, Distribution, Functional Ecology of Plants. 232, 7–15.","ieee":"F. Etl, A. Franschitz, A. Aguiar, J. Schönenberger, and S. Dötterl, “A perfume collecting male oil bee? Evidences of a novel pollination system involving Anthurium acutifolium Araceae and Paratetrapedia chocoensis Apidae Tapinotaspidini,” <i>Flora: Morphology, Distribution, Functional Ecology of Plants</i>, vol. 232. Elsevier, pp. 7–15, 2017.","chicago":"Etl, Florian, Anna Franschitz, Antonio Aguiar, Jürg Schönenberger, and Stefan Dötterl. “A Perfume Collecting Male Oil Bee? Evidences of a Novel Pollination System Involving Anthurium Acutifolium Araceae and Paratetrapedia Chocoensis Apidae Tapinotaspidini.” <i>Flora: Morphology, Distribution, Functional Ecology of Plants</i>. Elsevier, 2017. <a href=\"https://doi.org/10.1016/j.flora.2017.02.020\">https://doi.org/10.1016/j.flora.2017.02.020</a>.","apa":"Etl, F., Franschitz, A., Aguiar, A., Schönenberger, J., &#38; Dötterl, S. (2017). A perfume collecting male oil bee? Evidences of a novel pollination system involving Anthurium acutifolium Araceae and Paratetrapedia chocoensis Apidae Tapinotaspidini. <i>Flora: Morphology, Distribution, Functional Ecology of Plants</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.flora.2017.02.020\">https://doi.org/10.1016/j.flora.2017.02.020</a>","mla":"Etl, Florian, et al. “A Perfume Collecting Male Oil Bee? Evidences of a Novel Pollination System Involving Anthurium Acutifolium Araceae and Paratetrapedia Chocoensis Apidae Tapinotaspidini.” <i>Flora: Morphology, Distribution, Functional Ecology of Plants</i>, vol. 232, Elsevier, 2017, pp. 7–15, doi:<a href=\"https://doi.org/10.1016/j.flora.2017.02.020\">10.1016/j.flora.2017.02.020</a>.","ama":"Etl F, Franschitz A, Aguiar A, Schönenberger J, Dötterl S. A perfume collecting male oil bee? Evidences of a novel pollination system involving Anthurium acutifolium Araceae and Paratetrapedia chocoensis Apidae Tapinotaspidini. <i>Flora: Morphology, Distribution, Functional Ecology of Plants</i>. 2017;232:7-15. doi:<a href=\"https://doi.org/10.1016/j.flora.2017.02.020\">10.1016/j.flora.2017.02.020</a>"},"date_published":"2017-07-01T00:00:00Z","publication_status":"published","publication":"Flora: Morphology, Distribution, Functional Ecology of Plants","doi":"10.1016/j.flora.2017.02.020","page":"7 - 15","date_updated":"2021-01-12T08:09:44Z","title":"A perfume collecting male oil bee? Evidences of a novel pollination system involving Anthurium acutifolium Araceae and Paratetrapedia chocoensis Apidae Tapinotaspidini","language":[{"iso":"eng"}],"user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","status":"public","author":[{"full_name":"Etl, Florian","last_name":"Etl","first_name":"Florian"},{"full_name":"Franschitz, Anna","id":"480826C8-F248-11E8-B48F-1D18A9856A87","last_name":"Franschitz","first_name":"Anna"},{"first_name":"Antonio","last_name":"Aguiar","full_name":"Aguiar, Antonio"},{"first_name":"Jürg","last_name":"Schönenberger","full_name":"Schönenberger, Jürg"},{"full_name":"Dötterl, Stefan","last_name":"Dötterl","first_name":"Stefan"}],"_id":"695","type":"journal_article"},{"quality_controlled":"1","oa_version":"Published Version","oa":1,"file":[{"access_level":"open_access","checksum":"9143c290fa6458ed2563bff4b295554a","file_id":"5117","file_size":3775716,"content_type":"application/pdf","file_name":"IST-2017-894-v1+1_journal.pcbi.1005609.pdf","date_created":"2018-12-12T10:15:01Z","relation":"main_file","date_updated":"2020-07-14T12:47:46Z","creator":"system"}],"publist_id":"7004","issue":"7","article_number":"e1005609","related_material":{"record":[{"relation":"research_data","status":"public","id":"9849"},{"relation":"research_data","id":"9850","status":"public"},{"status":"public","id":"9851","relation":"research_data"},{"id":"9852","status":"public","relation":"research_data"},{"relation":"dissertation_contains","status":"public","id":"6263"}]},"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ec_funded":1,"department":[{"_id":"ToBo"},{"_id":"NiBa"},{"_id":"CaGu"}],"publication_identifier":{"issn":["1553734X"]},"type":"journal_article","_id":"696","author":[{"id":"4342E402-F248-11E8-B48F-1D18A9856A87","last_name":"Lukacisinova","first_name":"Marta","orcid":"0000-0002-2519-8004","full_name":"Lukacisinova, Marta"},{"orcid":"0000-0002-2519-824X","full_name":"Novak, Sebastian","id":"461468AE-F248-11E8-B48F-1D18A9856A87","last_name":"Novak","first_name":"Sebastian"},{"first_name":"Tiago","last_name":"Paixao","id":"2C5658E6-F248-11E8-B48F-1D18A9856A87","full_name":"Paixao, Tiago","orcid":"0000-0003-2361-3953"}],"language":[{"iso":"eng"}],"date_updated":"2024-03-25T23:30:14Z","date_published":"2017-07-18T00:00:00Z","publication_status":"published","scopus_import":1,"publication":"PLoS Computational Biology","pubrep_id":"894","month":"07","year":"2017","day":"18","article_type":"original","project":[{"grant_number":"618091","name":"Speed of Adaptation in Population Genetics and Evolutionary Computation","_id":"25B1EC9E-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"date_created":"2018-12-11T11:47:58Z","file_date_updated":"2020-07-14T12:47:46Z","publisher":"Public Library of Science","intvolume":"        13","abstract":[{"text":"Mutator strains are expected to evolve when the availability and effect of beneficial mutations are high enough to counteract the disadvantage from deleterious mutations that will inevitably accumulate. As the population becomes more adapted to its environment, both availability and effect of beneficial mutations necessarily decrease and mutation rates are predicted to decrease. It has been shown that certain molecular mechanisms can lead to increased mutation rates when the organism finds itself in a stressful environment. While this may be a correlated response to other functions, it could also be an adaptive mechanism, raising mutation rates only when it is most advantageous. Here, we use a mathematical model to investigate the plausibility of the adaptive hypothesis. We show that such a mechanism can be mantained if the population is subjected to diverse stresses. By simulating various antibiotic treatment schemes, we find that combination treatments can reduce the effectiveness of second-order selection on stress-induced mutagenesis. We discuss the implications of our results to strategies of antibiotic therapy.","lang":"eng"}],"ddc":["576"],"has_accepted_license":"1","title":"Stress induced mutagenesis: Stress diversity facilitates the persistence of mutator genes","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.1371/journal.pcbi.1005609","citation":{"short":"M. Lukacisinova, S. Novak, T. Paixao, PLoS Computational Biology 13 (2017).","ista":"Lukacisinova M, Novak S, Paixao T. 2017. Stress induced mutagenesis: Stress diversity facilitates the persistence of mutator genes. PLoS Computational Biology. 13(7), e1005609.","ieee":"M. Lukacisinova, S. Novak, and T. Paixao, “Stress induced mutagenesis: Stress diversity facilitates the persistence of mutator genes,” <i>PLoS Computational Biology</i>, vol. 13, no. 7. Public Library of Science, 2017.","chicago":"Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Stress Induced Mutagenesis: Stress Diversity Facilitates the Persistence of Mutator Genes.” <i>PLoS Computational Biology</i>. Public Library of Science, 2017. <a href=\"https://doi.org/10.1371/journal.pcbi.1005609\">https://doi.org/10.1371/journal.pcbi.1005609</a>.","apa":"Lukacisinova, M., Novak, S., &#38; Paixao, T. (2017). Stress induced mutagenesis: Stress diversity facilitates the persistence of mutator genes. <i>PLoS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1005609\">https://doi.org/10.1371/journal.pcbi.1005609</a>","mla":"Lukacisinova, Marta, et al. “Stress Induced Mutagenesis: Stress Diversity Facilitates the Persistence of Mutator Genes.” <i>PLoS Computational Biology</i>, vol. 13, no. 7, e1005609, Public Library of Science, 2017, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1005609\">10.1371/journal.pcbi.1005609</a>.","ama":"Lukacisinova M, Novak S, Paixao T. Stress induced mutagenesis: Stress diversity facilitates the persistence of mutator genes. <i>PLoS Computational Biology</i>. 2017;13(7). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1005609\">10.1371/journal.pcbi.1005609</a>"},"volume":13}]