[{"type":"journal_article","date_created":"2018-12-11T11:48:06Z","abstract":[{"lang":"eng","text":"D-cycloserine ameliorates breathing abnormalities and survival rate in a mouse model of Rett syndrome."}],"year":"2017","article_number":"aao4218","date_updated":"2021-01-12T08:12:04Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"publist_id":"6968","department":[{"_id":"GaNo"}],"issue":"405","quality_controlled":"1","publication_status":"published","citation":{"mla":"Novarino, Gaia. “More Excitation for Rett Syndrome.” <i>Science Translational Medicine</i>, vol. 9, no. 405, aao4218, American Association for the Advancement of Science, 2017, doi:<a href=\"https://doi.org/10.1126/scitranslmed.aao4218\">10.1126/scitranslmed.aao4218</a>.","ista":"Novarino G. 2017. More excitation for Rett syndrome. Science Translational Medicine. 9(405), aao4218.","ieee":"G. Novarino, “More excitation for Rett syndrome,” <i>Science Translational Medicine</i>, vol. 9, no. 405. American Association for the Advancement of Science, 2017.","ama":"Novarino G. More excitation for Rett syndrome. <i>Science Translational Medicine</i>. 2017;9(405). doi:<a href=\"https://doi.org/10.1126/scitranslmed.aao4218\">10.1126/scitranslmed.aao4218</a>","apa":"Novarino, G. (2017). More excitation for Rett syndrome. <i>Science Translational Medicine</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/scitranslmed.aao4218\">https://doi.org/10.1126/scitranslmed.aao4218</a>","chicago":"Novarino, Gaia. “More Excitation for Rett Syndrome.” <i>Science Translational Medicine</i>. American Association for the Advancement of Science, 2017. <a href=\"https://doi.org/10.1126/scitranslmed.aao4218\">https://doi.org/10.1126/scitranslmed.aao4218</a>.","short":"G. Novarino, Science Translational Medicine 9 (2017)."},"scopus_import":1,"publication_identifier":{"issn":["19466234"]},"date_published":"2017-08-30T00:00:00Z","publication":"Science Translational Medicine","oa_version":"None","doi":"10.1126/scitranslmed.aao4218","intvolume":"         9","_id":"715","title":"More excitation for Rett syndrome","status":"public","month":"08","author":[{"last_name":"Novarino","full_name":"Novarino, Gaia","first_name":"Gaia","orcid":"0000-0002-7673-7178","id":"3E57A680-F248-11E8-B48F-1D18A9856A87"}],"day":"30","publisher":"American Association for the Advancement of Science","volume":9},{"page":"34","date_published":"2017-09-01T00:00:00Z","ec_funded":1,"_id":"716","month":"09","title":"The complexity of mean-payoff pushdown games","intvolume":"        64","doi":"10.1145/3121408","author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X","first_name":"Krishnendu"},{"last_name":"Velner","full_name":"Velner, Yaron","first_name":"Yaron"}],"volume":64,"article_type":"original","date_created":"2018-12-11T11:48:06Z","type":"journal_article","abstract":[{"text":"Two-player games on graphs are central in many problems in formal verification and program analysis, such as synthesis and verification of open systems. In this work, we consider solving recursive game graphs (or pushdown game graphs) that model the control flow of sequential programs with recursion.While pushdown games have been studied before with qualitative objectives-such as reachability and ?-regular objectives- in this work, we study for the first time such games with the most well-studied quantitative objective, the mean-payoff objective. In pushdown games, two types of strategies are relevant: (1) global strategies, which depend on the entire global history; and (2) modular strategies, which have only local memory and thus do not depend on the context of invocation but rather only on the history of the current invocation of the module. Our main results are as follows: (1) One-player pushdown games with mean-payoff objectives under global strategies are decidable in polynomial time. (2) Two-player pushdown games with mean-payoff objectives under global strategies are undecidable. (3) One-player pushdown games with mean-payoff objectives under modular strategies are NP-hard. (4) Two-player pushdown games with mean-payoff objectives under modular strategies can be solved in NP (i.e., both one-player and two-player pushdown games with mean-payoff objectives under modular strategies are NP-complete). We also establish the optimal strategy complexity by showing that global strategies for mean-payoff objectives require infinite memory even in one-player pushdown games and memoryless modular strategies are sufficient in two-player pushdown games. Finally, we also show that all the problems have the same complexity if the stack boundedness condition is added, where along with the mean-payoff objective the player must also ensure that the stack height is bounded.","lang":"eng"}],"project":[{"call_identifier":"FWF","_id":"2584A770-B435-11E9-9278-68D0E5697425","grant_number":"P 23499-N23","name":"Modern Graph Algorithmic Techniques in Formal Verification"},{"_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory","grant_number":"S11407","call_identifier":"FWF"},{"_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications","grant_number":"279307","call_identifier":"FP7"}],"date_updated":"2021-01-12T08:12:08Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2017","language":[{"iso":"eng"}],"quality_controlled":"1","main_file_link":[{"url":"https://arxiv.org/abs/1201.2829","open_access":"1"}],"publication":"Journal of the ACM","citation":{"ista":"Chatterjee K, Velner Y. 2017. The complexity of mean-payoff pushdown games. Journal of the ACM. 64(5), 34.","ieee":"K. Chatterjee and Y. Velner, “The complexity of mean-payoff pushdown games,” <i>Journal of the ACM</i>, vol. 64, no. 5. ACM, p. 34, 2017.","mla":"Chatterjee, Krishnendu, and Yaron Velner. “The Complexity of Mean-Payoff Pushdown Games.” <i>Journal of the ACM</i>, vol. 64, no. 5, ACM, 2017, p. 34, doi:<a href=\"https://doi.org/10.1145/3121408\">10.1145/3121408</a>.","apa":"Chatterjee, K., &#38; Velner, Y. (2017). The complexity of mean-payoff pushdown games. <i>Journal of the ACM</i>. ACM. <a href=\"https://doi.org/10.1145/3121408\">https://doi.org/10.1145/3121408</a>","chicago":"Chatterjee, Krishnendu, and Yaron Velner. “The Complexity of Mean-Payoff Pushdown Games.” <i>Journal of the ACM</i>. ACM, 2017. <a href=\"https://doi.org/10.1145/3121408\">https://doi.org/10.1145/3121408</a>.","ama":"Chatterjee K, Velner Y. The complexity of mean-payoff pushdown games. <i>Journal of the ACM</i>. 2017;64(5):34. doi:<a href=\"https://doi.org/10.1145/3121408\">10.1145/3121408</a>","short":"K. Chatterjee, Y. Velner, Journal of the ACM 64 (2017) 34."},"scopus_import":1,"publication_identifier":{"issn":["00045411"]},"status":"public","oa_version":"Preprint","arxiv":1,"external_id":{"arxiv":["1201.2829"]},"publisher":"ACM","day":"01","oa":1,"department":[{"_id":"KrCh"}],"publist_id":"6964","publication_status":"published","issue":"5"},{"doi":"10.15479/AT:ISTA:7163","oa_version":"Published Version","title":"Supplementary Files for \"The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W\"","_id":"7163","status":"public","month":"12","date_published":"2017-12-01T00:00:00Z","contributor":[{"last_name":"Fraisse","orcid":"0000-0001-8441-5075","first_name":"Christelle","id":"32DF5794-F248-11E8-B48F-1D18A9856A87"},{"id":"2C921A7A-F248-11E8-B48F-1D18A9856A87","first_name":"Marion A L","orcid":"0000-0002-8101-2518","last_name":"Picard"},{"id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","last_name":"Vicoso","first_name":"Beatriz","orcid":"0000-0002-4579-8306"}],"citation":{"short":"C. Fraisse, (2017).","chicago":"Fraisse, Christelle. “Supplementary Files for ‘The Deep Conservation of the Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.’” Institute of Science and Technology Austria, 2017. <a href=\"https://doi.org/10.15479/AT:ISTA:7163\">https://doi.org/10.15479/AT:ISTA:7163</a>.","apa":"Fraisse, C. (2017). Supplementary Files for “The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:7163\">https://doi.org/10.15479/AT:ISTA:7163</a>","ama":"Fraisse C. Supplementary Files for “The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W.” 2017. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7163\">10.15479/AT:ISTA:7163</a>","ista":"Fraisse C. 2017. Supplementary Files for ‘The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:7163\">10.15479/AT:ISTA:7163</a>.","ieee":"C. Fraisse, “Supplementary Files for ‘The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W.’” Institute of Science and Technology Austria, 2017.","mla":"Fraisse, Christelle. <i>Supplementary Files for “The Deep Conservation of the Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.”</i> Institute of Science and Technology Austria, 2017, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7163\">10.15479/AT:ISTA:7163</a>."},"day":"01","publisher":"Institute of Science and Technology Austria","author":[{"first_name":"Christelle","orcid":"0000-0001-8441-5075","last_name":"Fraisse","full_name":"Fraisse, Christelle","id":"32DF5794-F248-11E8-B48F-1D18A9856A87"}],"ddc":["576"],"has_accepted_license":"1","related_material":{"record":[{"relation":"research_paper","status":"public","id":"614"}]},"file":[{"file_id":"7164","access_level":"open_access","checksum":"3cae8a2e3cbf8703399b9c483aaba7f3","creator":"cfraisse","date_created":"2019-12-10T08:46:46Z","file_name":"Vicoso_Cohridella_Ndegeerella_Tsylvina_genome_assemblies.zip","relation":"main_file","date_updated":"2020-07-14T12:47:50Z","file_size":841375478,"content_type":"application/zip"}],"year":"2017","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2024-02-21T13:47:47Z","file_date_updated":"2020-07-14T12:47:50Z","project":[{"call_identifier":"FWF","_id":"250ED89C-B435-11E9-9278-68D0E5697425","name":"Sex chromosome evolution under male- and female- heterogamety","grant_number":"P28842-B22"}],"abstract":[{"lang":"eng","text":"The de novo genome assemblies generated for this study, and the associated metadata."}],"type":"research_data","date_created":"2019-12-09T23:03:03Z","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"department":[{"_id":"BeVi"},{"_id":"NiBa"}],"article_processing_charge":"No","oa":1},{"volume":88,"author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","first_name":"Krishnendu","last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu"},{"full_name":"Velner, Yaron","last_name":"Velner","first_name":"Yaron"}],"page":"236 - 259","date_published":"2017-09-01T00:00:00Z","ec_funded":1,"_id":"717","title":"Hyperplane separation technique for multidimensional mean-payoff games","month":"09","doi":"10.1016/j.jcss.2017.04.005","intvolume":"        88","language":[{"iso":"eng"}],"quality_controlled":"1","main_file_link":[{"url":"https://arxiv.org/abs/1210.3141","open_access":"1"}],"abstract":[{"text":"We consider finite-state and recursive game graphs with multidimensional mean-payoff objectives. In recursive games two types of strategies are relevant: global strategies and modular strategies. Our contributions are: (1) We show that finite-state multidimensional mean-payoff games can be solved in polynomial time if the number of dimensions and the maximal absolute value of weights are fixed; whereas for arbitrary dimensions the problem is coNP-complete. (2) We show that one-player recursive games with multidimensional mean-payoff objectives can be solved in polynomial time. Both above algorithms are based on hyperplane separation technique. (3) For recursive games we show that under modular strategies the multidimensional problem is undecidable. We show that if the number of modules, exits, and the maximal absolute value of the weights are fixed, then one-dimensional recursive mean-payoff games under modular strategies can be solved in polynomial time, whereas for unbounded number of exits or modules the problem is NP-hard.","lang":"eng"}],"type":"journal_article","date_created":"2018-12-11T11:48:07Z","project":[{"name":"Modern Graph Algorithmic Techniques in Formal Verification","grant_number":"P 23499-N23","_id":"2584A770-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory","grant_number":"S11407"},{"call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications","grant_number":"279307"},{"_id":"2587B514-B435-11E9-9278-68D0E5697425","name":"Microsoft Research Faculty Fellowship"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-02-23T10:38:15Z","year":"2017","day":"01","publisher":"Academic Press","publication":"Journal of Computer and System Sciences","scopus_import":1,"citation":{"short":"K. Chatterjee, Y. Velner, Journal of Computer and System Sciences 88 (2017) 236–259.","apa":"Chatterjee, K., &#38; Velner, Y. (2017). Hyperplane separation technique for multidimensional mean-payoff games. <i>Journal of Computer and System Sciences</i>. Academic Press. <a href=\"https://doi.org/10.1016/j.jcss.2017.04.005\">https://doi.org/10.1016/j.jcss.2017.04.005</a>","chicago":"Chatterjee, Krishnendu, and Yaron Velner. “Hyperplane Separation Technique for Multidimensional Mean-Payoff Games.” <i>Journal of Computer and System Sciences</i>. Academic Press, 2017. <a href=\"https://doi.org/10.1016/j.jcss.2017.04.005\">https://doi.org/10.1016/j.jcss.2017.04.005</a>.","ama":"Chatterjee K, Velner Y. Hyperplane separation technique for multidimensional mean-payoff games. <i>Journal of Computer and System Sciences</i>. 2017;88:236-259. doi:<a href=\"https://doi.org/10.1016/j.jcss.2017.04.005\">10.1016/j.jcss.2017.04.005</a>","ista":"Chatterjee K, Velner Y. 2017. Hyperplane separation technique for multidimensional mean-payoff games. Journal of Computer and System Sciences. 88, 236–259.","ieee":"K. Chatterjee and Y. Velner, “Hyperplane separation technique for multidimensional mean-payoff games,” <i>Journal of Computer and System Sciences</i>, vol. 88. Academic Press, pp. 236–259, 2017.","mla":"Chatterjee, Krishnendu, and Yaron Velner. “Hyperplane Separation Technique for Multidimensional Mean-Payoff Games.” <i>Journal of Computer and System Sciences</i>, vol. 88, Academic Press, 2017, pp. 236–59, doi:<a href=\"https://doi.org/10.1016/j.jcss.2017.04.005\">10.1016/j.jcss.2017.04.005</a>."},"status":"public","oa_version":"Preprint","department":[{"_id":"KrCh"}],"oa":1,"publist_id":"6963","publication_status":"published","acknowledgement":"The research was supported by Austrian Science Fund (FWF) Grant No. P 23499-N23, FWF NFN Grant No. S11407-N23 (RiSE), ERC Start grant (279307: Graph Games), Microsoft faculty fellows award, the RICH Model Toolkit (ICT COST Action IC0901), and was carried out in partial fulfillment of the requirements for the Ph.D. degree of the second author.","related_material":{"record":[{"relation":"earlier_version","id":"2329","status":"public"}]}},{"day":"01","publisher":"Cambridge University Press","arxiv":1,"external_id":{"arxiv":["1607.05915"]},"oa_version":"Preprint","status":"public","scopus_import":1,"citation":{"short":"H. Edelsbrunner, A. Nikitenko, M. Reitzner, Advances in Applied Probability 49 (2017) 745–767.","ista":"Edelsbrunner H, Nikitenko A, Reitzner M. 2017. Expected sizes of poisson Delaunay mosaics and their discrete Morse functions. Advances in Applied Probability. 49(3), 745–767.","ieee":"H. Edelsbrunner, A. Nikitenko, and M. Reitzner, “Expected sizes of poisson Delaunay mosaics and their discrete Morse functions,” <i>Advances in Applied Probability</i>, vol. 49, no. 3. Cambridge University Press, pp. 745–767, 2017.","mla":"Edelsbrunner, Herbert, et al. “Expected Sizes of Poisson Delaunay Mosaics and Their Discrete Morse Functions.” <i>Advances in Applied Probability</i>, vol. 49, no. 3, Cambridge University Press, 2017, pp. 745–67, doi:<a href=\"https://doi.org/10.1017/apr.2017.20\">10.1017/apr.2017.20</a>.","apa":"Edelsbrunner, H., Nikitenko, A., &#38; Reitzner, M. (2017). Expected sizes of poisson Delaunay mosaics and their discrete Morse functions. <i>Advances in Applied Probability</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/apr.2017.20\">https://doi.org/10.1017/apr.2017.20</a>","chicago":"Edelsbrunner, Herbert, Anton Nikitenko, and Matthias Reitzner. “Expected Sizes of Poisson Delaunay Mosaics and Their Discrete Morse Functions.” <i>Advances in Applied Probability</i>. Cambridge University Press, 2017. <a href=\"https://doi.org/10.1017/apr.2017.20\">https://doi.org/10.1017/apr.2017.20</a>.","ama":"Edelsbrunner H, Nikitenko A, Reitzner M. Expected sizes of poisson Delaunay mosaics and their discrete Morse functions. <i>Advances in Applied Probability</i>. 2017;49(3):745-767. doi:<a href=\"https://doi.org/10.1017/apr.2017.20\">10.1017/apr.2017.20</a>"},"publication_identifier":{"issn":["00018678"]},"publication":"Advances in Applied Probability","issue":"3","publication_status":"published","publist_id":"6962","oa":1,"department":[{"_id":"HeEd"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"6287"}]},"author":[{"id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","first_name":"Herbert","orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","full_name":"Edelsbrunner, Herbert"},{"id":"3E4FF1BA-F248-11E8-B48F-1D18A9856A87","first_name":"Anton","orcid":"0000-0002-0659-3201","last_name":"Nikitenko","full_name":"Nikitenko, Anton"},{"full_name":"Reitzner, Matthias","last_name":"Reitzner","first_name":"Matthias"}],"volume":49,"intvolume":"        49","doi":"10.1017/apr.2017.20","month":"09","_id":"718","title":"Expected sizes of poisson Delaunay mosaics and their discrete Morse functions","ec_funded":1,"date_published":"2017-09-01T00:00:00Z","page":"745 - 767","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1607.05915"}],"language":[{"iso":"eng"}],"year":"2017","date_updated":"2023-09-07T12:07:12Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","project":[{"_id":"255D761E-B435-11E9-9278-68D0E5697425","name":"Topological Complex Systems","grant_number":"318493","call_identifier":"FP7"},{"_id":"2561EBF4-B435-11E9-9278-68D0E5697425","name":"Persistence and stability of geometric complexes","grant_number":"I02979-N35","call_identifier":"FWF"}],"date_created":"2018-12-11T11:48:07Z","type":"journal_article","abstract":[{"lang":"eng","text":"Mapping every simplex in the Delaunay mosaic of a discrete point set to the radius of the smallest empty circumsphere gives a generalized discrete Morse function. Choosing the points from a Poisson point process in ℝ n , we study the expected number of simplices in the Delaunay mosaic as well as the expected number of critical simplices and nonsingular intervals in the corresponding generalized discrete gradient. Observing connections with other probabilistic models, we obtain precise expressions for the expected numbers in low dimensions. In particular, we obtain the expected numbers of simplices in the Poisson–Delaunay mosaic in dimensions n ≤ 4."}]},{"intvolume":"        54","doi":"10.1007/s00236-017-0299-0","oa_version":"None","_id":"719","month":"09","title":"Special issue: Synthesis and SYNT 2014","status":"public","date_published":"2017-09-01T00:00:00Z","publication_identifier":{"issn":["00015903"]},"citation":{"short":"K. Chatterjee, R. Ehlers, Acta Informatica 54 (2017) 543–544.","apa":"Chatterjee, K., &#38; Ehlers, R. (2017). Special issue: Synthesis and SYNT 2014. <i>Acta Informatica</i>. Springer. <a href=\"https://doi.org/10.1007/s00236-017-0299-0\">https://doi.org/10.1007/s00236-017-0299-0</a>","chicago":"Chatterjee, Krishnendu, and Rüdiger Ehlers. “Special Issue: Synthesis and SYNT 2014.” <i>Acta Informatica</i>. Springer, 2017. <a href=\"https://doi.org/10.1007/s00236-017-0299-0\">https://doi.org/10.1007/s00236-017-0299-0</a>.","ama":"Chatterjee K, Ehlers R. Special issue: Synthesis and SYNT 2014. <i>Acta Informatica</i>. 2017;54(6):543-544. doi:<a href=\"https://doi.org/10.1007/s00236-017-0299-0\">10.1007/s00236-017-0299-0</a>","ista":"Chatterjee K, Ehlers R. 2017. Special issue: Synthesis and SYNT 2014. Acta Informatica. 54(6), 543–544.","ieee":"K. Chatterjee and R. Ehlers, “Special issue: Synthesis and SYNT 2014,” <i>Acta Informatica</i>, vol. 54, no. 6. Springer, pp. 543–544, 2017.","mla":"Chatterjee, Krishnendu, and Rüdiger Ehlers. “Special Issue: Synthesis and SYNT 2014.” <i>Acta Informatica</i>, vol. 54, no. 6, Springer, 2017, pp. 543–44, doi:<a href=\"https://doi.org/10.1007/s00236-017-0299-0\">10.1007/s00236-017-0299-0</a>."},"scopus_import":1,"page":"543 - 544","publication":"Acta Informatica","publisher":"Springer","volume":54,"day":"01","author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","orcid":"0000-0002-4561-241X"},{"full_name":"Ehlers, Rüdiger","last_name":"Ehlers","first_name":"Rüdiger"}],"year":"2017","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:12:18Z","abstract":[{"text":"The ubiquity of computation in modern machines and devices imposes a need to assert the correctness of their behavior. Especially in the case of safety-critical systems, their designers need to take measures that enforce their safe operation. Formal methods has emerged as a research field that addresses this challenge: by rigorously proving that all system executions adhere to their specifications, the correctness of an implementation under concern can be assured. To achieve this goal, a plethora of techniques are nowadays available, all of which are optimized for different system types and application domains.","lang":"eng"}],"type":"journal_article","date_created":"2018-12-11T11:48:07Z","issue":"6","publication_status":"published","quality_controlled":"1","publist_id":"6961","language":[{"iso":"eng"}],"department":[{"_id":"KrCh"}]},{"status":"public","oa_version":"Published Version","publication":"PLoS Computational Biology","publication_identifier":{"issn":["1553734X"]},"citation":{"ama":"Humplik J, Tkačik G. Probabilistic models for neural populations that naturally capture global coupling and criticality. <i>PLoS Computational Biology</i>. 2017;13(9). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1005763\">10.1371/journal.pcbi.1005763</a>","apa":"Humplik, J., &#38; Tkačik, G. (2017). Probabilistic models for neural populations that naturally capture global coupling and criticality. <i>PLoS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1005763\">https://doi.org/10.1371/journal.pcbi.1005763</a>","chicago":"Humplik, Jan, and Gašper Tkačik. “Probabilistic Models for Neural Populations That Naturally Capture Global Coupling and Criticality.” <i>PLoS Computational Biology</i>. Public Library of Science, 2017. <a href=\"https://doi.org/10.1371/journal.pcbi.1005763\">https://doi.org/10.1371/journal.pcbi.1005763</a>.","mla":"Humplik, Jan, and Gašper Tkačik. “Probabilistic Models for Neural Populations That Naturally Capture Global Coupling and Criticality.” <i>PLoS Computational Biology</i>, vol. 13, no. 9, e1005763, Public Library of Science, 2017, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1005763\">10.1371/journal.pcbi.1005763</a>.","ieee":"J. Humplik and G. Tkačik, “Probabilistic models for neural populations that naturally capture global coupling and criticality,” <i>PLoS Computational Biology</i>, vol. 13, no. 9. Public Library of Science, 2017.","ista":"Humplik J, Tkačik G. 2017. Probabilistic models for neural populations that naturally capture global coupling and criticality. PLoS Computational Biology. 13(9), e1005763.","short":"J. Humplik, G. Tkačik, PLoS Computational Biology 13 (2017)."},"scopus_import":1,"publisher":"Public Library of Science","day":"19","pubrep_id":"884","file":[{"checksum":"81107096c19771c36ddbe6f0282a3acb","creator":"system","file_id":"5352","access_level":"open_access","date_updated":"2020-07-14T12:47:53Z","file_size":14167050,"content_type":"application/pdf","date_created":"2018-12-12T10:18:30Z","relation":"main_file","file_name":"IST-2017-884-v1+1_journal.pcbi.1005763.pdf"}],"publication_status":"published","issue":"9","department":[{"_id":"GaTk"}],"oa":1,"publist_id":"6960","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"month":"09","_id":"720","title":"Probabilistic models for neural populations that naturally capture global coupling and criticality","doi":"10.1371/journal.pcbi.1005763","intvolume":"        13","date_published":"2017-09-19T00:00:00Z","volume":13,"author":[{"first_name":"Jan","full_name":"Humplik, Jan","last_name":"Humplik","id":"2E9627A8-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Tkacik, Gasper","last_name":"Tkacik","first_name":"Gasper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87"}],"has_accepted_license":"1","ddc":["530","571"],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","article_number":"e1005763","date_updated":"2021-01-12T08:12:21Z","year":"2017","abstract":[{"lang":"eng","text":"Advances in multi-unit recordings pave the way for statistical modeling of activity patterns in large neural populations. Recent studies have shown that the summed activity of all neurons strongly shapes the population response. A separate recent finding has been that neural populations also exhibit criticality, an anomalously large dynamic range for the probabilities of different population activity patterns. Motivated by these two observations, we introduce a class of probabilistic models which takes into account the prior knowledge that the neural population could be globally coupled and close to critical. These models consist of an energy function which parametrizes interactions between small groups of neurons, and an arbitrary positive, strictly increasing, and twice differentiable function which maps the energy of a population pattern to its probability. We show that: 1) augmenting a pairwise Ising model with a nonlinearity yields an accurate description of the activity of retinal ganglion cells which outperforms previous models based on the summed activity of neurons; 2) prior knowledge that the population is critical translates to prior expectations about the shape of the nonlinearity; 3) the nonlinearity admits an interpretation in terms of a continuous latent variable globally coupling the system whose distribution we can infer from data. Our method is independent of the underlying system’s state space; hence, it can be applied to other systems such as natural scenes or amino acid sequences of proteins which are also known to exhibit criticality."}],"date_created":"2018-12-11T11:48:08Z","type":"journal_article","file_date_updated":"2020-07-14T12:47:53Z","project":[{"grant_number":"RGP0065/2012","name":"Information processing and computation in fish groups","_id":"255008E4-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","name":"Sensitivity to higher-order statistics in natural scenes","grant_number":"P 25651-N26","_id":"254D1A94-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","article_processing_charge":"Yes","language":[{"iso":"eng"}]},{"day":"01","publisher":"Wiley-Blackwell","oa_version":"Submitted Version","status":"public","publication_identifier":{"issn":["00103640"]},"scopus_import":1,"citation":{"short":"O.H. Ajanki, T.H. Krüger, L. Erdös, Communications on Pure and Applied Mathematics 70 (2017) 1672–1705.","ista":"Ajanki OH, Krüger TH, Erdös L. 2017. Singularities of solutions to quadratic vector equations on the complex upper half plane. Communications on Pure and Applied Mathematics. 70(9), 1672–1705.","ieee":"O. H. Ajanki, T. H. Krüger, and L. Erdös, “Singularities of solutions to quadratic vector equations on the complex upper half plane,” <i>Communications on Pure and Applied Mathematics</i>, vol. 70, no. 9. Wiley-Blackwell, pp. 1672–1705, 2017.","mla":"Ajanki, Oskari H., et al. “Singularities of Solutions to Quadratic Vector Equations on the Complex Upper Half Plane.” <i>Communications on Pure and Applied Mathematics</i>, vol. 70, no. 9, Wiley-Blackwell, 2017, pp. 1672–705, doi:<a href=\"https://doi.org/10.1002/cpa.21639\">10.1002/cpa.21639</a>.","apa":"Ajanki, O. H., Krüger, T. H., &#38; Erdös, L. (2017). Singularities of solutions to quadratic vector equations on the complex upper half plane. <i>Communications on Pure and Applied Mathematics</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1002/cpa.21639\">https://doi.org/10.1002/cpa.21639</a>","chicago":"Ajanki, Oskari H, Torben H Krüger, and László Erdös. “Singularities of Solutions to Quadratic Vector Equations on the Complex Upper Half Plane.” <i>Communications on Pure and Applied Mathematics</i>. Wiley-Blackwell, 2017. <a href=\"https://doi.org/10.1002/cpa.21639\">https://doi.org/10.1002/cpa.21639</a>.","ama":"Ajanki OH, Krüger TH, Erdös L. Singularities of solutions to quadratic vector equations on the complex upper half plane. <i>Communications on Pure and Applied Mathematics</i>. 2017;70(9):1672-1705. doi:<a href=\"https://doi.org/10.1002/cpa.21639\">10.1002/cpa.21639</a>"},"publication":"Communications on Pure and Applied Mathematics","issue":"9","publication_status":"published","publist_id":"6959","department":[{"_id":"LaEr"}],"oa":1,"volume":70,"author":[{"id":"36F2FB7E-F248-11E8-B48F-1D18A9856A87","last_name":"Ajanki","full_name":"Ajanki, Oskari H","first_name":"Oskari H"},{"id":"3020C786-F248-11E8-B48F-1D18A9856A87","first_name":"Torben H","orcid":"0000-0002-4821-3297","last_name":"Krüger","full_name":"Krüger, Torben H"},{"last_name":"Erdös","full_name":"Erdös, László","orcid":"0000-0001-5366-9603","first_name":"László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87"}],"intvolume":"        70","doi":"10.1002/cpa.21639","month":"09","_id":"721","title":"Singularities of solutions to quadratic vector equations on the complex upper half plane","ec_funded":1,"date_published":"2017-09-01T00:00:00Z","page":"1672 - 1705","main_file_link":[{"url":"https://arxiv.org/abs/1512.03703","open_access":"1"}],"quality_controlled":"1","language":[{"iso":"eng"}],"year":"2017","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:12:24Z","project":[{"call_identifier":"FP7","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","grant_number":"338804","name":"Random matrices, universality and disordered quantum systems"}],"abstract":[{"text":"Let S be a positivity-preserving symmetric linear operator acting on bounded functions. The nonlinear equation -1/m=z+Sm with a parameter z in the complex upper half-plane ℍ has a unique solution m with values in ℍ. We show that the z-dependence of this solution can be represented as the Stieltjes transforms of a family of probability measures v on ℝ. Under suitable conditions on S, we show that v has a real analytic density apart from finitely many algebraic singularities of degree at most 3. Our motivation comes from large random matrices. The solution m determines the density of eigenvalues of two prominent matrix ensembles: (i) matrices with centered independent entries whose variances are given by S and (ii) matrices with correlated entries with a translation-invariant correlation structure. Our analysis shows that the limiting eigenvalue density has only square root singularities or cubic root cusps; no other singularities occur.","lang":"eng"}],"type":"journal_article","date_created":"2018-12-11T11:48:08Z"},{"publication":"Current Biology","publication_identifier":{"issn":["09609822"]},"scopus_import":1,"citation":{"short":"E. Morris, M. Griffiths, A. Golebiowska, S. Mairhofer, J. Burr Hersey, T. Goh, D. von Wangenheim, B. Atkinson, C. Sturrock, J. Lynch, K. Vissenberg, K. Ritz, D. Wells, S. Mooney, M. Bennett, Current Biology 27 (2017) R919–R930.","ama":"Morris E, Griffiths M, Golebiowska A, et al. Shaping 3D root system architecture. <i>Current Biology</i>. 2017;27(17):R919-R930. doi:<a href=\"https://doi.org/10.1016/j.cub.2017.06.043\">10.1016/j.cub.2017.06.043</a>","apa":"Morris, E., Griffiths, M., Golebiowska, A., Mairhofer, S., Burr Hersey, J., Goh, T., … Bennett, M. (2017). Shaping 3D root system architecture. <i>Current Biology</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cub.2017.06.043\">https://doi.org/10.1016/j.cub.2017.06.043</a>","chicago":"Morris, Emily, Marcus Griffiths, Agata Golebiowska, Stefan Mairhofer, Jasmine Burr Hersey, Tatsuaki Goh, Daniel von Wangenheim, et al. “Shaping 3D Root System Architecture.” <i>Current Biology</i>. Cell Press, 2017. <a href=\"https://doi.org/10.1016/j.cub.2017.06.043\">https://doi.org/10.1016/j.cub.2017.06.043</a>.","mla":"Morris, Emily, et al. “Shaping 3D Root System Architecture.” <i>Current Biology</i>, vol. 27, no. 17, Cell Press, 2017, pp. R919–30, doi:<a href=\"https://doi.org/10.1016/j.cub.2017.06.043\">10.1016/j.cub.2017.06.043</a>.","ieee":"E. Morris <i>et al.</i>, “Shaping 3D root system architecture,” <i>Current Biology</i>, vol. 27, no. 17. Cell Press, pp. R919–R930, 2017.","ista":"Morris E, Griffiths M, Golebiowska A, Mairhofer S, Burr Hersey J, Goh T, von Wangenheim D, Atkinson B, Sturrock C, Lynch J, Vissenberg K, Ritz K, Wells D, Mooney S, Bennett M. 2017. Shaping 3D root system architecture. Current Biology. 27(17), R919–R930."},"status":"public","oa_version":"Submitted Version","external_id":{"pmid":["28898665"]},"pubrep_id":"982","publisher":"Cell Press","day":"11","pmid":1,"file":[{"access_level":"open_access","file_id":"6332","creator":"dernst","checksum":"e45588b21097b408da6276a3e5eedb2e","relation":"main_file","file_name":"2017_CurrentBiology_Morris.pdf","date_created":"2019-04-17T07:46:40Z","content_type":"application/pdf","file_size":1576593,"date_updated":"2020-07-14T12:47:54Z"}],"department":[{"_id":"JiFr"}],"oa":1,"publist_id":"6956","tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","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"},"publication_status":"published","issue":"17","page":"R919 - R930","date_published":"2017-09-11T00:00:00Z","ec_funded":1,"_id":"722","month":"09","title":"Shaping 3D root system architecture","intvolume":"        27","doi":"10.1016/j.cub.2017.06.043","has_accepted_license":"1","ddc":["581"],"volume":27,"author":[{"first_name":"Emily","full_name":"Morris, Emily","last_name":"Morris"},{"last_name":"Griffiths","full_name":"Griffiths, Marcus","first_name":"Marcus"},{"first_name":"Agata","full_name":"Golebiowska, Agata","last_name":"Golebiowska"},{"first_name":"Stefan","last_name":"Mairhofer","full_name":"Mairhofer, Stefan"},{"full_name":"Burr Hersey, Jasmine","last_name":"Burr Hersey","first_name":"Jasmine"},{"first_name":"Tatsuaki","last_name":"Goh","full_name":"Goh, Tatsuaki"},{"id":"49E91952-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6862-1247","first_name":"Daniel","last_name":"Von Wangenheim","full_name":"Von Wangenheim, Daniel"},{"first_name":"Brian","full_name":"Atkinson, Brian","last_name":"Atkinson"},{"first_name":"Craig","last_name":"Sturrock","full_name":"Sturrock, Craig"},{"first_name":"Jonathan","full_name":"Lynch, Jonathan","last_name":"Lynch"},{"full_name":"Vissenberg, Kris","last_name":"Vissenberg","first_name":"Kris"},{"full_name":"Ritz, Karl","last_name":"Ritz","first_name":"Karl"},{"first_name":"Darren","last_name":"Wells","full_name":"Wells, Darren"},{"first_name":"Sacha","last_name":"Mooney","full_name":"Mooney, Sacha"},{"first_name":"Malcolm","last_name":"Bennett","full_name":"Bennett, Malcolm"}],"abstract":[{"lang":"eng","text":"Plants are sessile organisms rooted in one place. The soil resources that plants require are often distributed in a highly heterogeneous pattern. To aid foraging, plants have evolved roots whose growth and development are highly responsive to soil signals. As a result, 3D root architecture is shaped by myriad environmental signals to ensure resource capture is optimised and unfavourable environments are avoided. The first signals sensed by newly germinating seeds — gravity and light — direct root growth into the soil to aid seedling establishment. Heterogeneous soil resources, such as water, nitrogen and phosphate, also act as signals that shape 3D root growth to optimise uptake. Root architecture is also modified through biotic interactions that include soil fungi and neighbouring plants. This developmental plasticity results in a ‘custom-made’ 3D root system that is best adapted to forage for resources in each soil environment that a plant colonises."}],"type":"journal_article","date_created":"2018-12-11T11:48:08Z","file_date_updated":"2020-07-14T12:47:54Z","project":[{"grant_number":"291734","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:12:29Z","year":"2017","language":[{"iso":"eng"}],"quality_controlled":"1"},{"year":"2017","article_number":"104203","date_updated":"2021-01-12T08:12:35Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2018-12-11T11:48:09Z","type":"journal_article","abstract":[{"text":"We investigate the stationary and dynamical behavior of an Anderson localized chain coupled to a single central bound state. Although this coupling partially dilutes the Anderson localized peaks towards nearly resonant sites, the most weight of the original peaks remains unchanged. This leads to multifractal wave functions with a frozen spectrum of fractal dimensions, which is characteristic for localized phases in models with power-law hopping. Using a perturbative approach we identify two different dynamical regimes. At weak couplings to the central site, the transport of particles and information is logarithmic in time, a feature usually attributed to many-body localization. We connect such transport to the persistence of the Poisson statistics of level spacings in parts of the spectrum. In contrast, at stronger couplings the level repulsion is established in the entire spectrum, the problem can be mapped to the Fano resonance, and the transport is ballistic.","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1701.02744"}],"quality_controlled":"1","language":[{"iso":"eng"}],"intvolume":"        96","doi":"10.1103/PhysRevB.96.104203","title":"Noninteracting central site model localization and logarithmic entanglement growth","_id":"724","month":"09","date_published":"2017-09-13T00:00:00Z","author":[{"full_name":"Hetterich, Daniel","last_name":"Hetterich","first_name":"Daniel"},{"id":"47809E7E-F248-11E8-B48F-1D18A9856A87","first_name":"Maksym","orcid":"0000-0002-2399-5827","last_name":"Serbyn","full_name":"Serbyn, Maksym"},{"full_name":"Domínguez, Fernando","last_name":"Domínguez","first_name":"Fernando"},{"last_name":"Pollmann","full_name":"Pollmann, Frank","first_name":"Frank"},{"last_name":"Trauzettel","full_name":"Trauzettel, Björn","first_name":"Björn"}],"volume":96,"acknowledgement":"We  would  like  to  thank  Dmitry  Abanin,  Christophe  De\r\nBeule,  Joel  Moore,  Romain  Vasseur,  and  Norman  Yao  for\r\nmany  stimulating  discussions.  Financial  support  has  been\r\nprovided  by  the  Deutsche  Forschungsgemeinschaft  (DFG)\r\nvia Grant No. TR950/8-1, SFB 1170 “ToCoTronics” and the\r\nENB  Graduate  School  on  Topological  Insulators.  M.S.  was\r\nsupported by Gordon and Betty Moore Foundation’s EPiQS\r\nInitiative through Grant No. GBMF4307. F.P. acknowledges\r\nsupport from the DFG Research Unit FOR 1807 through Grant\r\nNo. PO 1370/2-1.","issue":"10","publication_status":"published","publist_id":"6955","oa":1,"department":[{"_id":"MaSe"}],"oa_version":"Submitted Version","status":"public","citation":{"short":"D. Hetterich, M. Serbyn, F. Domínguez, F. Pollmann, B. Trauzettel, Physical Review B 96 (2017).","mla":"Hetterich, Daniel, et al. “Noninteracting Central Site Model Localization and Logarithmic Entanglement Growth.” <i>Physical Review B</i>, vol. 96, no. 10, 104203, American Physical Society, 2017, doi:<a href=\"https://doi.org/10.1103/PhysRevB.96.104203\">10.1103/PhysRevB.96.104203</a>.","ista":"Hetterich D, Serbyn M, Domínguez F, Pollmann F, Trauzettel B. 2017. Noninteracting central site model localization and logarithmic entanglement growth. Physical Review B. 96(10), 104203.","ieee":"D. Hetterich, M. Serbyn, F. Domínguez, F. Pollmann, and B. Trauzettel, “Noninteracting central site model localization and logarithmic entanglement growth,” <i>Physical Review B</i>, vol. 96, no. 10. American Physical Society, 2017.","ama":"Hetterich D, Serbyn M, Domínguez F, Pollmann F, Trauzettel B. Noninteracting central site model localization and logarithmic entanglement growth. <i>Physical Review B</i>. 2017;96(10). doi:<a href=\"https://doi.org/10.1103/PhysRevB.96.104203\">10.1103/PhysRevB.96.104203</a>","chicago":"Hetterich, Daniel, Maksym Serbyn, Fernando Domínguez, Frank Pollmann, and Björn Trauzettel. “Noninteracting Central Site Model Localization and Logarithmic Entanglement Growth.” <i>Physical Review B</i>. American Physical Society, 2017. <a href=\"https://doi.org/10.1103/PhysRevB.96.104203\">https://doi.org/10.1103/PhysRevB.96.104203</a>.","apa":"Hetterich, D., Serbyn, M., Domínguez, F., Pollmann, F., &#38; Trauzettel, B. (2017). Noninteracting central site model localization and logarithmic entanglement growth. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.96.104203\">https://doi.org/10.1103/PhysRevB.96.104203</a>"},"scopus_import":1,"publication_identifier":{"issn":["24699950"]},"publication":"Physical Review B","publisher":"American Physical Society","day":"13"},{"date_published":"2017-09-19T00:00:00Z","page":"10149 - 10154","intvolume":"       114","doi":"10.1073/pnas.1703817114","_id":"725","month":"09","title":"Discrete modes of social information processing predict individual behavior of fish in a group","volume":114,"author":[{"last_name":"Harpaz","full_name":"Harpaz, Roy","first_name":"Roy"},{"id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","full_name":"Tkacik, Gasper","last_name":"Tkacik","orcid":"0000-0002-6699-1455","first_name":"Gasper"},{"full_name":"Schneidman, Elad","last_name":"Schneidman","first_name":"Elad"}],"abstract":[{"lang":"eng","text":"Individual computations and social interactions underlying collective behavior in groups of animals are of great ethological, behavioral, and theoretical interest. While complex individual behaviors have successfully been parsed into small dictionaries of stereotyped behavioral modes, studies of collective behavior largely ignored these findings; instead, their focus was on inferring single, mode-independent social interaction rules that reproduced macroscopic and often qualitative features of group behavior. Here, we bring these two approaches together to predict individual swimming patterns of adult zebrafish in a group. We show that fish alternate between an “active” mode, in which they are sensitive to the swimming patterns of conspecifics, and a “passive” mode, where they ignore them. Using a model that accounts for these two modes explicitly, we predict behaviors of individual fish with high accuracy, outperforming previous approaches that assumed a single continuous computation by individuals and simple metric or topological weighing of neighbors’ behavior. At the group level, switching between active and passive modes is uncorrelated among fish, but correlated directional swimming behavior still emerges. Our quantitative approach for studying complex, multi-modal individual behavior jointly with emergent group behavior is readily extensible to additional behavioral modes and their neural correlates as well as to other species."}],"type":"journal_article","date_created":"2018-12-11T11:48:10Z","year":"2017","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:12:36Z","language":[{"iso":"eng"}],"quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5617265/"}],"publication_identifier":{"issn":["00278424"]},"scopus_import":1,"citation":{"short":"R. Harpaz, G. Tkačik, E. Schneidman, PNAS 114 (2017) 10149–10154.","ieee":"R. Harpaz, G. Tkačik, and E. Schneidman, “Discrete modes of social information processing predict individual behavior of fish in a group,” <i>PNAS</i>, vol. 114, no. 38. National Academy of Sciences, pp. 10149–10154, 2017.","ista":"Harpaz R, Tkačik G, Schneidman E. 2017. Discrete modes of social information processing predict individual behavior of fish in a group. PNAS. 114(38), 10149–10154.","mla":"Harpaz, Roy, et al. “Discrete Modes of Social Information Processing Predict Individual Behavior of Fish in a Group.” <i>PNAS</i>, vol. 114, no. 38, National Academy of Sciences, 2017, pp. 10149–54, doi:<a href=\"https://doi.org/10.1073/pnas.1703817114\">10.1073/pnas.1703817114</a>.","chicago":"Harpaz, Roy, Gašper Tkačik, and Elad Schneidman. “Discrete Modes of Social Information Processing Predict Individual Behavior of Fish in a Group.” <i>PNAS</i>. National Academy of Sciences, 2017. <a href=\"https://doi.org/10.1073/pnas.1703817114\">https://doi.org/10.1073/pnas.1703817114</a>.","apa":"Harpaz, R., Tkačik, G., &#38; Schneidman, E. (2017). Discrete modes of social information processing predict individual behavior of fish in a group. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1703817114\">https://doi.org/10.1073/pnas.1703817114</a>","ama":"Harpaz R, Tkačik G, Schneidman E. Discrete modes of social information processing predict individual behavior of fish in a group. <i>PNAS</i>. 2017;114(38):10149-10154. doi:<a href=\"https://doi.org/10.1073/pnas.1703817114\">10.1073/pnas.1703817114</a>"},"publication":"PNAS","oa_version":"Submitted Version","status":"public","external_id":{"pmid":["28874581"]},"day":"19","publisher":"National Academy of Sciences","pmid":1,"publist_id":"6953","department":[{"_id":"GaTk"}],"oa":1,"issue":"38","publication_status":"published"},{"publisher":"Cell Press","day":"21","external_id":{"isi":["000411331800024"]},"pubrep_id":"883","status":"public","oa_version":"Published Version","publication":"Cell","publication_identifier":{"issn":["00928674"]},"scopus_import":"1","citation":{"short":"E.B. Hannezo, C. Scheele, M. Moad, N. Drogo, R. Heer, R. Sampogna, J. Van Rheenen, B. Simons, Cell 171 (2017) 242–255.","ieee":"E. B. Hannezo <i>et al.</i>, “A unifying theory of branching morphogenesis,” <i>Cell</i>, vol. 171, no. 1. Cell Press, pp. 242–255, 2017.","ista":"Hannezo EB, Scheele C, Moad M, Drogo N, Heer R, Sampogna R, Van Rheenen J, Simons B. 2017. A unifying theory of branching morphogenesis. Cell. 171(1), 242–255.","mla":"Hannezo, Edouard B., et al. “A Unifying Theory of Branching Morphogenesis.” <i>Cell</i>, vol. 171, no. 1, Cell Press, 2017, pp. 242–55, doi:<a href=\"https://doi.org/10.1016/j.cell.2017.08.026\">10.1016/j.cell.2017.08.026</a>.","apa":"Hannezo, E. B., Scheele, C., Moad, M., Drogo, N., Heer, R., Sampogna, R., … Simons, B. (2017). A unifying theory of branching morphogenesis. <i>Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cell.2017.08.026\">https://doi.org/10.1016/j.cell.2017.08.026</a>","chicago":"Hannezo, Edouard B, Colinda Scheele, Mohammad Moad, Nicholas Drogo, Rakesh Heer, Rosemary Sampogna, Jacco Van Rheenen, and Benjamin Simons. “A Unifying Theory of Branching Morphogenesis.” <i>Cell</i>. Cell Press, 2017. <a href=\"https://doi.org/10.1016/j.cell.2017.08.026\">https://doi.org/10.1016/j.cell.2017.08.026</a>.","ama":"Hannezo EB, Scheele C, Moad M, et al. A unifying theory of branching morphogenesis. <i>Cell</i>. 2017;171(1):242-255. doi:<a href=\"https://doi.org/10.1016/j.cell.2017.08.026\">10.1016/j.cell.2017.08.026</a>"},"publication_status":"published","issue":"1","department":[{"_id":"EdHa"}],"oa":1,"publist_id":"6952","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"file":[{"file_name":"IST-2017-883-v1+1_PIIS0092867417309510.pdf","relation":"main_file","date_created":"2018-12-12T10:11:17Z","content_type":"application/pdf","file_size":12670204,"date_updated":"2020-07-14T12:47:55Z","access_level":"open_access","file_id":"4870","creator":"system","checksum":"7a036d93a9e2e597af9bb504d6133aca"}],"volume":171,"author":[{"id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo","full_name":"Hannezo, Edouard B","first_name":"Edouard B","orcid":"0000-0001-6005-1561"},{"last_name":"Scheele","full_name":"Scheele, Colinda","first_name":"Colinda"},{"first_name":"Mohammad","full_name":"Moad, Mohammad","last_name":"Moad"},{"first_name":"Nicholas","full_name":"Drogo, Nicholas","last_name":"Drogo"},{"last_name":"Heer","full_name":"Heer, Rakesh","first_name":"Rakesh"},{"first_name":"Rosemary","last_name":"Sampogna","full_name":"Sampogna, Rosemary"},{"first_name":"Jacco","full_name":"Van Rheenen, Jacco","last_name":"Van Rheenen"},{"first_name":"Benjamin","last_name":"Simons","full_name":"Simons, Benjamin"}],"has_accepted_license":"1","ddc":["539"],"title":"A unifying theory of branching morphogenesis","_id":"726","month":"09","doi":"10.1016/j.cell.2017.08.026","intvolume":"       171","page":"242 - 255","date_published":"2017-09-21T00:00:00Z","isi":1,"quality_controlled":"1","article_processing_charge":"No","language":[{"iso":"eng"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_updated":"2023-09-28T11:34:17Z","year":"2017","abstract":[{"text":"The morphogenesis of branched organs remains a subject of abiding interest. Although much is known about the underlying signaling pathways, it remains unclear how macroscopic features of branched organs, including their size, network topology, and spatial patterning, are encoded. Here, we show that, in mouse mammary gland, kidney, and human prostate, these features can be explained quantitatively within a single unifying framework of branching and annihilating random walks. Based on quantitative analyses of large-scale organ reconstructions and proliferation kinetics measurements, we propose that morphogenesis follows from the proliferative activity of equipotent tips that stochastically branch and randomly explore their environment but compete neutrally for space, becoming proliferatively inactive when in proximity with neighboring ducts. These results show that complex branched epithelial structures develop as a self-organized process, reliant upon a strikingly simple but generic rule, without recourse to a rigid and deterministic sequence of genetically programmed events.","lang":"eng"}],"type":"journal_article","date_created":"2018-12-11T11:48:10Z","file_date_updated":"2020-07-14T12:47:55Z"},{"quality_controlled":"1","language":[{"iso":"eng"}],"article_processing_charge":"No","year":"2017","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_updated":"2023-09-28T11:33:49Z","project":[{"_id":"25AD6156-B435-11E9-9278-68D0E5697425","grant_number":"LS13-029","name":"Modeling of Polarization and Motility of Leukocytes in Three-Dimensional Environments"},{"_id":"25A603A2-B435-11E9-9278-68D0E5697425","grant_number":"281556","name":"Cytoskeletal force generation and force transduction of migrating leukocytes (EU)","call_identifier":"FP7"}],"abstract":[{"lang":"eng","text":"Actin filaments polymerizing against membranes power endocytosis, vesicular traffic, and cell motility. In vitro reconstitution studies suggest that the structure and the dynamics of actin networks respond to mechanical forces. We demonstrate that lamellipodial actin of migrating cells responds to mechanical load when membrane tension is modulated. In a steady state, migrating cell filaments assume the canonical dendritic geometry, defined by Arp2/3-generated 70° branch points. Increased tension triggers a dense network with a broadened range of angles, whereas decreased tension causes a shift to a sparse configuration dominated by filaments growing perpendicularly to the plasma membrane. We show that these responses emerge from the geometry of branched actin: when load per filament decreases, elongation speed increases and perpendicular filaments gradually outcompete others because they polymerize the shortest distance to the membrane, where they are protected from capping. This network-intrinsic geometrical adaptation mechanism tunes protrusive force in response to mechanical load."}],"type":"journal_article","date_created":"2018-12-11T11:48:10Z","volume":171,"author":[{"last_name":"Mueller","full_name":"Mueller, Jan","first_name":"Jan"},{"id":"4BFB7762-F248-11E8-B48F-1D18A9856A87","full_name":"Szep, Gregory","last_name":"Szep","first_name":"Gregory"},{"first_name":"Maria","full_name":"Nemethova, Maria","last_name":"Nemethova","id":"34E27F1C-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Ingrid","full_name":"De Vries, Ingrid","last_name":"De Vries","id":"4C7D837E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Arnon","full_name":"Lieber, Arnon","last_name":"Lieber"},{"first_name":"Christoph","full_name":"Winkler, Christoph","last_name":"Winkler"},{"last_name":"Kruse","full_name":"Kruse, Karsten","first_name":"Karsten"},{"first_name":"John","full_name":"Small, John","last_name":"Small"},{"first_name":"Christian","last_name":"Schmeiser","full_name":"Schmeiser, Christian"},{"full_name":"Keren, Kinneret","last_name":"Keren","first_name":"Kinneret"},{"id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","full_name":"Hauschild, Robert","last_name":"Hauschild","first_name":"Robert","orcid":"0000-0001-9843-3522"},{"id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","full_name":"Sixt, Michael K","first_name":"Michael K","orcid":"0000-0002-6620-9179"}],"doi":"10.1016/j.cell.2017.07.051","intvolume":"       171","_id":"727","acknowledged_ssus":[{"_id":"ScienComp"}],"month":"09","title":"Load adaptation of lamellipodial actin networks","date_published":"2017-09-21T00:00:00Z","ec_funded":1,"isi":1,"page":"188 - 200","issue":"1","publication_status":"published","publist_id":"6951","department":[{"_id":"MiSi"},{"_id":"Bio"}],"publisher":"Cell Press","day":"21","external_id":{"isi":["000411331800020"]},"oa_version":"None","status":"public","publication_identifier":{"issn":["00928674"]},"citation":{"mla":"Mueller, Jan, et al. “Load Adaptation of Lamellipodial Actin Networks.” <i>Cell</i>, vol. 171, no. 1, Cell Press, 2017, pp. 188–200, doi:<a href=\"https://doi.org/10.1016/j.cell.2017.07.051\">10.1016/j.cell.2017.07.051</a>.","ista":"Mueller J, Szep G, Nemethova M, de Vries I, Lieber A, Winkler C, Kruse K, Small J, Schmeiser C, Keren K, Hauschild R, Sixt MK. 2017. Load adaptation of lamellipodial actin networks. Cell. 171(1), 188–200.","ieee":"J. Mueller <i>et al.</i>, “Load adaptation of lamellipodial actin networks,” <i>Cell</i>, vol. 171, no. 1. Cell Press, pp. 188–200, 2017.","ama":"Mueller J, Szep G, Nemethova M, et al. Load adaptation of lamellipodial actin networks. <i>Cell</i>. 2017;171(1):188-200. doi:<a href=\"https://doi.org/10.1016/j.cell.2017.07.051\">10.1016/j.cell.2017.07.051</a>","apa":"Mueller, J., Szep, G., Nemethova, M., de Vries, I., Lieber, A., Winkler, C., … Sixt, M. K. (2017). Load adaptation of lamellipodial actin networks. <i>Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cell.2017.07.051\">https://doi.org/10.1016/j.cell.2017.07.051</a>","chicago":"Mueller, Jan, Gregory Szep, Maria Nemethova, Ingrid de Vries, Arnon Lieber, Christoph Winkler, Karsten Kruse, et al. “Load Adaptation of Lamellipodial Actin Networks.” <i>Cell</i>. Cell Press, 2017. <a href=\"https://doi.org/10.1016/j.cell.2017.07.051\">https://doi.org/10.1016/j.cell.2017.07.051</a>.","short":"J. Mueller, G. Szep, M. Nemethova, I. de Vries, A. Lieber, C. Winkler, K. Kruse, J. Small, C. Schmeiser, K. Keren, R. Hauschild, M.K. Sixt, Cell 171 (2017) 188–200."},"scopus_import":"1","publication":"Cell"},{"external_id":{"isi":["000411581800019"]},"day":"18","publisher":"Cell Press","scopus_import":"1","citation":{"mla":"Chan, Chii, et al. “Coordination of Morphogenesis and Cell Fate Specification in Development.” <i>Current Biology</i>, vol. 27, no. 18, Cell Press, 2017, pp. R1024–35, doi:<a href=\"https://doi.org/10.1016/j.cub.2017.07.010\">10.1016/j.cub.2017.07.010</a>.","ista":"Chan C, Heisenberg C-PJ, Hiiragi T. 2017. Coordination of morphogenesis and cell fate specification in development. Current Biology. 27(18), R1024–R1035.","ieee":"C. Chan, C.-P. J. Heisenberg, and T. Hiiragi, “Coordination of morphogenesis and cell fate specification in development,” <i>Current Biology</i>, vol. 27, no. 18. Cell Press, pp. R1024–R1035, 2017.","ama":"Chan C, Heisenberg C-PJ, Hiiragi T. Coordination of morphogenesis and cell fate specification in development. <i>Current Biology</i>. 2017;27(18):R1024-R1035. doi:<a href=\"https://doi.org/10.1016/j.cub.2017.07.010\">10.1016/j.cub.2017.07.010</a>","apa":"Chan, C., Heisenberg, C.-P. J., &#38; Hiiragi, T. (2017). Coordination of morphogenesis and cell fate specification in development. <i>Current Biology</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cub.2017.07.010\">https://doi.org/10.1016/j.cub.2017.07.010</a>","chicago":"Chan, Chii, Carl-Philipp J Heisenberg, and Takashi Hiiragi. “Coordination of Morphogenesis and Cell Fate Specification in Development.” <i>Current Biology</i>. Cell Press, 2017. <a href=\"https://doi.org/10.1016/j.cub.2017.07.010\">https://doi.org/10.1016/j.cub.2017.07.010</a>.","short":"C. Chan, C.-P.J. Heisenberg, T. Hiiragi, Current Biology 27 (2017) R1024–R1035."},"publication_identifier":{"issn":["09609822"]},"publication":"Current Biology","oa_version":"None","status":"public","publist_id":"6949","department":[{"_id":"CaHe"}],"issue":"18","publication_status":"published","author":[{"last_name":"Chan","full_name":"Chan, Chii","first_name":"Chii"},{"id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J","orcid":"0000-0002-0912-4566"},{"first_name":"Takashi","last_name":"Hiiragi","full_name":"Hiiragi, Takashi"}],"volume":27,"isi":1,"date_published":"2017-09-18T00:00:00Z","page":"R1024 - R1035","intvolume":"        27","doi":"10.1016/j.cub.2017.07.010","month":"09","_id":"728","title":"Coordination of morphogenesis and cell fate specification in development","language":[{"iso":"eng"}],"article_processing_charge":"No","quality_controlled":"1","type":"journal_article","date_created":"2018-12-11T11:48:11Z","abstract":[{"lang":"eng","text":"During animal development, cell-fate-specific changes in gene expression can modify the material properties of a tissue and drive tissue morphogenesis. While mechanistic insights into the genetic control of tissue-shaping events are beginning to emerge, how tissue morphogenesis and mechanics can reciprocally impact cell-fate specification remains relatively unexplored. Here we review recent findings reporting how multicellular morphogenetic events and their underlying mechanical forces can feed back into gene regulatory pathways to specify cell fate. We further discuss emerging techniques that allow for the direct measurement and manipulation of mechanical signals in vivo, offering unprecedented access to study mechanotransduction during development. Examination of the mechanical control of cell fate during tissue morphogenesis will pave the way to an integrated understanding of the design principles that underlie robust tissue patterning in embryonic development."}],"year":"2017","date_updated":"2023-09-28T11:33:21Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1"},{"month":"06","_id":"7288","title":"Biredox ionic liquids: New opportunities toward high performance supercapacitors","status":"public","oa_version":"None","doi":"10.1039/c7fd00174f","intvolume":"       206","publication":"Faraday Discussions","page":"393-404","citation":{"short":"C. Bodin, E. Mourad, D. Zigah, S. Le Vot, S.A. Freunberger, F. Favier, O. Fontaine, Faraday Discussions 206 (2017) 393–404.","ama":"Bodin C, Mourad E, Zigah D, et al. Biredox ionic liquids: New opportunities toward high performance supercapacitors. <i>Faraday Discussions</i>. 2017;206:393-404. doi:<a href=\"https://doi.org/10.1039/c7fd00174f\">10.1039/c7fd00174f</a>","chicago":"Bodin, C., E. Mourad, D. Zigah, S. Le Vot, Stefan Alexander Freunberger, F. Favier, and O. Fontaine. “Biredox Ionic Liquids: New Opportunities toward High Performance Supercapacitors.” <i>Faraday Discussions</i>. Royal Society of Chemistry, 2017. <a href=\"https://doi.org/10.1039/c7fd00174f\">https://doi.org/10.1039/c7fd00174f</a>.","apa":"Bodin, C., Mourad, E., Zigah, D., Le Vot, S., Freunberger, S. A., Favier, F., &#38; Fontaine, O. (2017). Biredox ionic liquids: New opportunities toward high performance supercapacitors. <i>Faraday Discussions</i>. Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/c7fd00174f\">https://doi.org/10.1039/c7fd00174f</a>","mla":"Bodin, C., et al. “Biredox Ionic Liquids: New Opportunities toward High Performance Supercapacitors.” <i>Faraday Discussions</i>, vol. 206, Royal Society of Chemistry, 2017, pp. 393–404, doi:<a href=\"https://doi.org/10.1039/c7fd00174f\">10.1039/c7fd00174f</a>.","ista":"Bodin C, Mourad E, Zigah D, Le Vot S, Freunberger SA, Favier F, Fontaine O. 2017. Biredox ionic liquids: New opportunities toward high performance supercapacitors. Faraday Discussions. 206, 393–404.","ieee":"C. Bodin <i>et al.</i>, “Biredox ionic liquids: New opportunities toward high performance supercapacitors,” <i>Faraday Discussions</i>, vol. 206. Royal Society of Chemistry, pp. 393–404, 2017."},"date_published":"2017-06-29T00:00:00Z","publication_identifier":{"issn":["1359-6640","1364-5498"]},"author":[{"first_name":"C.","full_name":"Bodin, C.","last_name":"Bodin"},{"last_name":"Mourad","full_name":"Mourad, E.","first_name":"E."},{"first_name":"D.","full_name":"Zigah, D.","last_name":"Zigah"},{"full_name":"Le Vot, S.","last_name":"Le Vot","first_name":"S."},{"id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","full_name":"Freunberger, Stefan Alexander","last_name":"Freunberger","first_name":"Stefan Alexander","orcid":"0000-0003-2902-5319"},{"first_name":"F.","last_name":"Favier","full_name":"Favier, F."},{"first_name":"O.","last_name":"Fontaine","full_name":"Fontaine, O."}],"extern":"1","publisher":"Royal Society of Chemistry","day":"29","volume":206,"article_type":"original","date_updated":"2021-06-10T06:17:17Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","year":"2017","type":"journal_article","date_created":"2020-01-15T12:14:04Z","abstract":[{"text":"Nowadays commercial supercapacitors are based on purely capacitive storage at the porous carbons that are used for the electrodes. However, the limits that capacitive storage imposes on energy density calls to investigate new materials to improve the capacitance of the device. This new type of electrodes (e.g., RuO2, MnO2…) involves pseudo-capacitive faradaic redox processes with the solid material. Ion exchange with solid materials is, however, much slower than the adsorption process in capacitive storage and inevitably leads to significant loss of power. Faradaic process in the liquid state, in contrast can be similarly fast as capacitive processes due to the fast ion transport. Designing new devices with liquid like dynamics and improved specific capacitance is challenging. We present a new approach to increase the specific capacitance using biredox ionic liquids, where redox moieties are tethered to the electrolyte ions, allowing high redox concentrations and significant pseudo-capacitive storage in the liquid state. Anions and cations are functionalized with anthraquinone (AQ) and 2,2,6,6-tetramethylpiperidinyl-1-oxyl (TEMPO) moieties, respectively. Glassy carbon, carbon-onion, and commercial activated carbon electrodes that exhibit different double layer structures and thus different diffusion dynamics were used to simultaneously study the electrochemical response of biredox ionic liquids at the positive and negative electrode.","lang":"eng"}],"quality_controlled":"1","publication_status":"published","article_processing_charge":"No","language":[{"iso":"eng"}]},{"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png"},"oa":1,"issue":"49","publication_status":"published","file":[{"content_type":"application/pdf","date_updated":"2020-07-14T12:47:55Z","file_size":1013492,"relation":"main_file","file_name":"2017_AngChemieInternat_Schafzahl.pdf","date_created":"2020-01-26T14:58:07Z","creator":"dernst","checksum":"3c5b1e51954554dffb13c7d58f69836c","access_level":"open_access","file_id":"7362"}],"day":"04","publisher":"Wiley","publication_identifier":{"issn":["1433-7851"]},"citation":{"short":"L. Schafzahl, N. Mahne, B. Schafzahl, M. Wilkening, C. Slugovc, S.M. Borisov, S.A. Freunberger, Angewandte Chemie International Edition 56 (2017) 15728–15732.","ama":"Schafzahl L, Mahne N, Schafzahl B, et al. Singlet oxygen during cycling of the aprotic sodium-O2 battery. <i>Angewandte Chemie International Edition</i>. 2017;56(49):15728-15732. doi:<a href=\"https://doi.org/10.1002/anie.201709351\">10.1002/anie.201709351</a>","chicago":"Schafzahl, Lukas, Nika Mahne, Bettina Schafzahl, Martin Wilkening, Christian Slugovc, Sergey M. Borisov, and Stefan Alexander Freunberger. “Singlet Oxygen during Cycling of the Aprotic Sodium-O2 Battery.” <i>Angewandte Chemie International Edition</i>. Wiley, 2017. <a href=\"https://doi.org/10.1002/anie.201709351\">https://doi.org/10.1002/anie.201709351</a>.","apa":"Schafzahl, L., Mahne, N., Schafzahl, B., Wilkening, M., Slugovc, C., Borisov, S. M., &#38; Freunberger, S. A. (2017). Singlet oxygen during cycling of the aprotic sodium-O2 battery. <i>Angewandte Chemie International Edition</i>. Wiley. <a href=\"https://doi.org/10.1002/anie.201709351\">https://doi.org/10.1002/anie.201709351</a>","mla":"Schafzahl, Lukas, et al. “Singlet Oxygen during Cycling of the Aprotic Sodium-O2 Battery.” <i>Angewandte Chemie International Edition</i>, vol. 56, no. 49, Wiley, 2017, pp. 15728–32, doi:<a href=\"https://doi.org/10.1002/anie.201709351\">10.1002/anie.201709351</a>.","ista":"Schafzahl L, Mahne N, Schafzahl B, Wilkening M, Slugovc C, Borisov SM, Freunberger SA. 2017. Singlet oxygen during cycling of the aprotic sodium-O2 battery. Angewandte Chemie International Edition. 56(49), 15728–15732.","ieee":"L. Schafzahl <i>et al.</i>, “Singlet oxygen during cycling of the aprotic sodium-O2 battery,” <i>Angewandte Chemie International Edition</i>, vol. 56, no. 49. Wiley, pp. 15728–15732, 2017."},"publication":"Angewandte Chemie International Edition","oa_version":"Published Version","status":"public","language":[{"iso":"eng"}],"article_processing_charge":"No","quality_controlled":"1","file_date_updated":"2020-07-14T12:47:55Z","abstract":[{"text":"Aprotic sodium–O2 batteries require the reversible formation/dissolution of sodium superoxide (NaO2) on cycling. Poor cycle life has been associated with parasitic chemistry caused by the reactivity of electrolyte and electrode with NaO2, a strong nucleophile and base. Its reactivity can, however, not consistently explain the side reactions and irreversibility. Herein we show that singlet oxygen (1O2) forms at all stages of cycling and that it is a main driver for parasitic chemistry. It was detected in‐ and ex‐situ via a 1O2 trap that selectively and rapidly forms a stable adduct with 1O2. The 1O2 formation mechanism involves proton‐mediated superoxide disproportionation on discharge, rest, and charge below ca. 3.3 V, and direct electrochemical 1O2 evolution above ca. 3.3 V. Trace water, which is needed for high capacities also drives parasitic chemistry. Controlling the highly reactive singlet oxygen is thus crucial for achieving highly reversible cell operation.","lang":"eng"}],"type":"journal_article","date_created":"2020-01-15T12:15:05Z","year":"2017","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:12:47Z","ddc":["540"],"has_accepted_license":"1","article_type":"original","volume":56,"extern":"1","author":[{"full_name":"Schafzahl, Lukas","last_name":"Schafzahl","first_name":"Lukas"},{"first_name":"Nika","full_name":"Mahne, Nika","last_name":"Mahne"},{"first_name":"Bettina","full_name":"Schafzahl, Bettina","last_name":"Schafzahl"},{"first_name":"Martin","full_name":"Wilkening, Martin","last_name":"Wilkening"},{"first_name":"Christian","full_name":"Slugovc, Christian","last_name":"Slugovc"},{"full_name":"Borisov, Sergey M.","last_name":"Borisov","first_name":"Sergey M."},{"id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","first_name":"Stefan Alexander","orcid":"0000-0003-2902-5319","last_name":"Freunberger","full_name":"Freunberger, Stefan Alexander"}],"date_published":"2017-12-04T00:00:00Z","page":"15728-15732","doi":"10.1002/anie.201709351","intvolume":"        56","_id":"7289","title":"Singlet oxygen during cycling of the aprotic sodium-O2 battery","month":"12"},{"title":"Regeneration tensed up polyploidy takes the lead","_id":"729","month":"01","doi":"10.1016/j.devcel.2017.09.008","intvolume":"        42","page":"559 - 560","date_published":"2017-01-01T00:00:00Z","isi":1,"volume":42,"author":[{"last_name":"Spiro","full_name":"Spiro, Zoltan P","first_name":"Zoltan P","id":"426AD026-F248-11E8-B48F-1D18A9856A87"},{"id":"39427864-F248-11E8-B48F-1D18A9856A87","first_name":"Carl-Philipp J","orcid":"0000-0002-0912-4566","last_name":"Heisenberg","full_name":"Heisenberg, Carl-Philipp J"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_updated":"2023-09-28T11:32:49Z","year":"2017","abstract":[{"text":"The cellular mechanisms allowing tissues to efficiently regenerate are not fully understood. In this issue of Developmental Cell, Cao et al. (2017)) discover that during zebrafish heart regeneration, epicardial cells at the leading edge of regenerating tissue undergo endoreplication, possibly due to increased tissue tension, thereby boosting their regenerative capacity.","lang":"eng"}],"type":"journal_article","date_created":"2018-12-11T11:48:11Z","quality_controlled":"1","article_processing_charge":"No","language":[{"iso":"eng"}],"status":"public","oa_version":"None","publication":"Developmental Cell","publication_identifier":{"issn":["15345807"]},"citation":{"apa":"Spiro, Z. P., &#38; Heisenberg, C.-P. J. (2017). Regeneration tensed up polyploidy takes the lead. <i>Developmental Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.devcel.2017.09.008\">https://doi.org/10.1016/j.devcel.2017.09.008</a>","chicago":"Spiro, Zoltan P, and Carl-Philipp J Heisenberg. “Regeneration Tensed up Polyploidy Takes the Lead.” <i>Developmental Cell</i>. Cell Press, 2017. <a href=\"https://doi.org/10.1016/j.devcel.2017.09.008\">https://doi.org/10.1016/j.devcel.2017.09.008</a>.","ama":"Spiro ZP, Heisenberg C-PJ. Regeneration tensed up polyploidy takes the lead. <i>Developmental Cell</i>. 2017;42(6):559-560. doi:<a href=\"https://doi.org/10.1016/j.devcel.2017.09.008\">10.1016/j.devcel.2017.09.008</a>","ieee":"Z. P. Spiro and C.-P. J. Heisenberg, “Regeneration tensed up polyploidy takes the lead,” <i>Developmental Cell</i>, vol. 42, no. 6. Cell Press, pp. 559–560, 2017.","ista":"Spiro ZP, Heisenberg C-PJ. 2017. Regeneration tensed up polyploidy takes the lead. Developmental Cell. 42(6), 559–560.","mla":"Spiro, Zoltan P., and Carl-Philipp J. Heisenberg. “Regeneration Tensed up Polyploidy Takes the Lead.” <i>Developmental Cell</i>, vol. 42, no. 6, Cell Press, 2017, pp. 559–60, doi:<a href=\"https://doi.org/10.1016/j.devcel.2017.09.008\">10.1016/j.devcel.2017.09.008</a>.","short":"Z.P. Spiro, C.-P.J. Heisenberg, Developmental Cell 42 (2017) 559–560."},"scopus_import":"1","day":"01","publisher":"Cell Press","external_id":{"isi":["000411582800003"]},"publication_status":"published","issue":"6","department":[{"_id":"CaHe"}],"publist_id":"6948"},{"ddc":["540","543"],"has_accepted_license":"1","article_type":"original","extern":"1","volume":9,"author":[{"last_name":"Zach","full_name":"Zach, Peter W.","first_name":"Peter W."},{"last_name":"Freunberger","full_name":"Freunberger, Stefan Alexander","first_name":"Stefan Alexander","orcid":"0000-0003-2902-5319","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425"},{"full_name":"Klimant, Ingo","last_name":"Klimant","first_name":"Ingo"},{"first_name":"Sergey M.","full_name":"Borisov, Sergey M.","last_name":"Borisov"}],"date_published":"2017-10-10T00:00:00Z","page":"38008-38023","doi":"10.1021/acsami.7b10669","intvolume":"         9","_id":"7290","title":"Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient thermally activated delayed fluorescence: First demonstration of simultaneous oxygen and temperature sensing with a single emitter","month":"10","language":[{"iso":"eng"}],"article_processing_charge":"No","quality_controlled":"1","file_date_updated":"2020-07-14T12:47:55Z","abstract":[{"text":"We report a family of Pt and Pd benzoporphyrin dyes with versatile photophysical properties and easy access from cheap and abundant chemicals. Attaching 4 or 8 alkylsulfone groups onto a meso-tetraphenyltetrabenzoporphyrin (TPTBP) macrocylcle renders the dyes highly soluble in organic solvents, photostable, and electron-deficient with the redox potential raised up to 0.65 V versus the parent porphyrin. The new dyes intensively absorb in the blue (Soret band, 440–480 nm) and in the red (Q-band, 620–650 nm) parts of the electromagnetic spectrum and show bright phosphorescence at room-temperature in the NIR with quantum yields up to 30% in solution. The small singlet–triplet energy gap yields unusually efficient thermally activated delayed fluorescence (TADF) at elevated temperatures in solution and in polymeric matrices with quantum yields as high as 27% at 120 °C, which is remarkable for benzoporphyrins. Apart from oxygen sensing, these properties enable unprecedented simultaneous, self-referenced oxygen and temperature sensing with a single indicator dye: whereas oxygen can be determined either via the decay time of phosphorescence or TADF, the temperature is accessed via the ratio of the two emissions. Moreover, the dyes are efficient sensitizers for triplet–triplet annihilation (TTA)-based upconversion making possible longer sensitization wavelength than the conventional benzoporphyrin complexes. The Pt-octa-sulfone dye also features interesting semireversible transformation in basic media, which generates new NIR absorbing species.","lang":"eng"}],"type":"journal_article","date_created":"2020-01-15T12:15:16Z","year":"2017","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:12:48Z","publisher":"ACS","day":"10","publication_identifier":{"issn":["1944-8244"],"eissn":["1944-8252"]},"citation":{"short":"P.W. Zach, S.A. Freunberger, I. Klimant, S.M. Borisov, ACS Applied Materials &#38; Interfaces 9 (2017) 38008–38023.","ama":"Zach PW, Freunberger SA, Klimant I, Borisov SM. Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient thermally activated delayed fluorescence: First demonstration of simultaneous oxygen and temperature sensing with a single emitter. <i>ACS Applied Materials &#38; Interfaces</i>. 2017;9(43):38008-38023. doi:<a href=\"https://doi.org/10.1021/acsami.7b10669\">10.1021/acsami.7b10669</a>","apa":"Zach, P. W., Freunberger, S. A., Klimant, I., &#38; Borisov, S. M. (2017). Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient thermally activated delayed fluorescence: First demonstration of simultaneous oxygen and temperature sensing with a single emitter. <i>ACS Applied Materials &#38; Interfaces</i>. ACS. <a href=\"https://doi.org/10.1021/acsami.7b10669\">https://doi.org/10.1021/acsami.7b10669</a>","chicago":"Zach, Peter W., Stefan Alexander Freunberger, Ingo Klimant, and Sergey M. Borisov. “Electron-Deficient near-Infrared Pt(II) and Pd(II) Benzoporphyrins with Dual Phosphorescence and Unusually Efficient Thermally Activated Delayed Fluorescence: First Demonstration of Simultaneous Oxygen and Temperature Sensing with a Single Emitter.” <i>ACS Applied Materials &#38; Interfaces</i>. ACS, 2017. <a href=\"https://doi.org/10.1021/acsami.7b10669\">https://doi.org/10.1021/acsami.7b10669</a>.","mla":"Zach, Peter W., et al. “Electron-Deficient near-Infrared Pt(II) and Pd(II) Benzoporphyrins with Dual Phosphorescence and Unusually Efficient Thermally Activated Delayed Fluorescence: First Demonstration of Simultaneous Oxygen and Temperature Sensing with a Single Emitter.” <i>ACS Applied Materials &#38; Interfaces</i>, vol. 9, no. 43, ACS, 2017, pp. 38008–23, doi:<a href=\"https://doi.org/10.1021/acsami.7b10669\">10.1021/acsami.7b10669</a>.","ieee":"P. W. Zach, S. A. Freunberger, I. Klimant, and S. M. Borisov, “Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient thermally activated delayed fluorescence: First demonstration of simultaneous oxygen and temperature sensing with a single emitter,” <i>ACS Applied Materials &#38; Interfaces</i>, vol. 9, no. 43. ACS, pp. 38008–38023, 2017.","ista":"Zach PW, Freunberger SA, Klimant I, Borisov SM. 2017. Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient thermally activated delayed fluorescence: First demonstration of simultaneous oxygen and temperature sensing with a single emitter. ACS Applied Materials &#38; Interfaces. 9(43), 38008–38023."},"publication":"ACS Applied Materials & Interfaces","oa_version":"Submitted Version","status":"public","oa":1,"issue":"43","publication_status":"published","file":[{"relation":"main_file","file_name":"Paper_Manuscript_submitted.pdf","date_created":"2020-06-29T14:49:32Z","content_type":"application/pdf","file_size":2072792,"date_updated":"2020-07-14T12:47:55Z","access_level":"open_access","file_id":"8051","creator":"sfreunbe","checksum":"0461c990eb910f19a70c6e5349ec35ed"}]},{"publication_identifier":{"issn":["1864-5631"]},"date_published":"2017-01-20T00:00:00Z","citation":{"mla":"Schafzahl, Lukas, et al. “An Electrolyte for Reversible Cycling of Sodium Metal and Intercalation Compounds.” <i>ChemSusChem</i>, vol. 10, no. 2, Wiley, 2017, pp. 401–08, doi:<a href=\"https://doi.org/10.1002/cssc.201601222\">10.1002/cssc.201601222</a>.","ista":"Schafzahl L, Hanzu I, Wilkening M, Freunberger SA. 2017. An electrolyte for reversible cycling of sodium metal and intercalation compounds. ChemSusChem. 10(2), 401–408.","ieee":"L. Schafzahl, I. Hanzu, M. Wilkening, and S. A. Freunberger, “An electrolyte for reversible cycling of sodium metal and intercalation compounds,” <i>ChemSusChem</i>, vol. 10, no. 2. Wiley, pp. 401–408, 2017.","ama":"Schafzahl L, Hanzu I, Wilkening M, Freunberger SA. An electrolyte for reversible cycling of sodium metal and intercalation compounds. <i>ChemSusChem</i>. 2017;10(2):401-408. doi:<a href=\"https://doi.org/10.1002/cssc.201601222\">10.1002/cssc.201601222</a>","chicago":"Schafzahl, Lukas, Ilie Hanzu, Martin Wilkening, and Stefan Alexander Freunberger. “An Electrolyte for Reversible Cycling of Sodium Metal and Intercalation Compounds.” <i>ChemSusChem</i>. Wiley, 2017. <a href=\"https://doi.org/10.1002/cssc.201601222\">https://doi.org/10.1002/cssc.201601222</a>.","apa":"Schafzahl, L., Hanzu, I., Wilkening, M., &#38; Freunberger, S. A. (2017). An electrolyte for reversible cycling of sodium metal and intercalation compounds. <i>ChemSusChem</i>. Wiley. <a href=\"https://doi.org/10.1002/cssc.201601222\">https://doi.org/10.1002/cssc.201601222</a>","short":"L. Schafzahl, I. Hanzu, M. Wilkening, S.A. Freunberger, ChemSusChem 10 (2017) 401–408."},"page":"401-408","publication":"ChemSusChem","intvolume":"        10","doi":"10.1002/cssc.201601222","oa_version":"None","_id":"7291","title":"An electrolyte for reversible cycling of sodium metal and intercalation compounds","status":"public","month":"01","article_type":"original","volume":10,"extern":"1","day":"20","publisher":"Wiley","author":[{"first_name":"Lukas","last_name":"Schafzahl","full_name":"Schafzahl, Lukas"},{"first_name":"Ilie","full_name":"Hanzu, Ilie","last_name":"Hanzu"},{"full_name":"Wilkening, Martin","last_name":"Wilkening","first_name":"Martin"},{"id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","orcid":"0000-0003-2902-5319","first_name":"Stefan Alexander","full_name":"Freunberger, Stefan Alexander","last_name":"Freunberger"}],"abstract":[{"text":"Na battery chemistries show poor passivation behavior of low voltage Na storage compounds and Na metal with organic carbonate‐based electrolytes adopted from Li‐ion batteries. Therefore, a suitable electrolyte remains a major challenge for establishing Na batteries. Here we report highly concentrated sodium bis(fluorosulfonyl)imide (NaFSI) in dimethoxyethane (DME) electrolytes and investigate them for Na metal and hard carbon anodes and intercalation cathodes. For a DME/NaFSI ratio of 2, a stable passivation of anode materials was found owing to the formation of a stable solid electrolyte interface, which was characterized spectroscopically. This permitted non‐dentritic Na metal cycling with approximately 98 % coulombic efficiency as shown for up to 300 cycles. The NaFSI/DME electrolyte may enable Na‐metal anodes and allows for more reliable assessment of electrode materials in Na‐ion half‐cells, as is demonstrated by comparing half‐cell cycling of hard carbon anodes and Na3V2(PO4)3 cathodes with a widely used carbonate and the NaFSI/DME electrolyte.","lang":"eng"}],"type":"journal_article","date_created":"2020-01-15T12:15:29Z","year":"2017","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:12:48Z","language":[{"iso":"eng"}],"article_processing_charge":"No","issue":"2","publication_status":"published","quality_controlled":"1"},{"extern":"1","volume":8,"author":[{"first_name":"Nika","last_name":"Mahne","full_name":"Mahne, Nika"},{"first_name":"Olivier","full_name":"Fontaine, Olivier","last_name":"Fontaine"},{"first_name":"Musthafa Ottakam","full_name":"Thotiyl, Musthafa Ottakam","last_name":"Thotiyl"},{"first_name":"Martin","full_name":"Wilkening, Martin","last_name":"Wilkening"},{"first_name":"Stefan Alexander","orcid":"0000-0003-2902-5319","last_name":"Freunberger","full_name":"Freunberger, Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425"}],"article_type":"original","has_accepted_license":"1","ddc":["540"],"_id":"7292","title":"Mechanism and performance of lithium–oxygen batteries – a perspective","month":"07","intvolume":"         8","doi":"10.1039/c7sc02519j","page":"6716-6729","date_published":"2017-07-31T00:00:00Z","quality_controlled":"1","article_processing_charge":"No","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:12:49Z","year":"2017","abstract":[{"lang":"eng","text":"Rechargeable Li–O2 batteries have amongst the highest formal energy and could store significantly more energy than other rechargeable batteries in practice if at least a large part of their promise could be realized. Realization, however, still faces many challenges than can only be overcome by fundamental understanding of the processes taking place. Here, we review recent advances in understanding the chemistry of the Li–O2 cathode and provide a perspective on dominant research needs. We put particular emphasis on issues that are often grossly misunderstood: realistic performance metrics and their reporting as well as identifying reversibility and quantitative measures to do so. Parasitic reactions are the prime obstacle for reversible cell operation and have recently been identified to be predominantly caused by singlet oxygen and not by reduced oxygen species as thought before. We discuss the far reaching implications of this finding on electrolyte and cathode stability, electrocatalysis, and future research needs."}],"date_created":"2020-01-15T12:15:42Z","type":"journal_article","file_date_updated":"2020-07-14T12:47:55Z","day":"31","publisher":"RSC","status":"public","oa_version":"Published Version","publication":"Chemical Science","publication_identifier":{"eissn":["2041-6539"],"issn":["2041-6520"]},"citation":{"ama":"Mahne N, Fontaine O, Thotiyl MO, Wilkening M, Freunberger SA. Mechanism and performance of lithium–oxygen batteries – a perspective. <i>Chemical Science</i>. 2017;8(10):6716-6729. doi:<a href=\"https://doi.org/10.1039/c7sc02519j\">10.1039/c7sc02519j</a>","chicago":"Mahne, Nika, Olivier Fontaine, Musthafa Ottakam Thotiyl, Martin Wilkening, and Stefan Alexander Freunberger. “Mechanism and Performance of Lithium–Oxygen Batteries – a Perspective.” <i>Chemical Science</i>. RSC, 2017. <a href=\"https://doi.org/10.1039/c7sc02519j\">https://doi.org/10.1039/c7sc02519j</a>.","apa":"Mahne, N., Fontaine, O., Thotiyl, M. O., Wilkening, M., &#38; Freunberger, S. A. (2017). Mechanism and performance of lithium–oxygen batteries – a perspective. <i>Chemical Science</i>. RSC. <a href=\"https://doi.org/10.1039/c7sc02519j\">https://doi.org/10.1039/c7sc02519j</a>","mla":"Mahne, Nika, et al. “Mechanism and Performance of Lithium–Oxygen Batteries – a Perspective.” <i>Chemical Science</i>, vol. 8, no. 10, RSC, 2017, pp. 6716–29, doi:<a href=\"https://doi.org/10.1039/c7sc02519j\">10.1039/c7sc02519j</a>.","ieee":"N. Mahne, O. Fontaine, M. O. Thotiyl, M. Wilkening, and S. A. Freunberger, “Mechanism and performance of lithium–oxygen batteries – a perspective,” <i>Chemical Science</i>, vol. 8, no. 10. RSC, pp. 6716–6729, 2017.","ista":"Mahne N, Fontaine O, Thotiyl MO, Wilkening M, Freunberger SA. 2017. Mechanism and performance of lithium–oxygen batteries – a perspective. Chemical Science. 8(10), 6716–6729.","short":"N. Mahne, O. Fontaine, M.O. Thotiyl, M. Wilkening, S.A. Freunberger, Chemical Science 8 (2017) 6716–6729."},"publication_status":"published","issue":"10","oa":1,"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"file":[{"file_id":"7363","access_level":"open_access","checksum":"70c7c2ce5430b6e8605ccbf0275f1e80","creator":"dernst","date_created":"2020-01-26T15:04:44Z","file_name":"2017_ChemicalScience_Mahne.pdf","relation":"main_file","date_updated":"2020-07-14T12:47:55Z","file_size":992106,"content_type":"application/pdf"}]}]