[{"quality_controlled":"1","date_created":"2021-03-07T23:01:25Z","abstract":[{"text":"Half a century after Lewis Wolpert's seminal conceptual advance on how cellular fates distribute in space, we provide a brief historical perspective on how the concept of positional information emerged and influenced the field of developmental biology and beyond. We focus on a modern interpretation of this concept in terms of information theory, largely centered on its application to cell specification in the early Drosophila embryo. We argue that a true physical variable (position) is encoded in local concentrations of patterning molecules, that this mapping is stochastic, and that the processes by which positions and corresponding cell fates are determined based on these concentrations need to take such stochasticity into account. With this approach, we shift the focus from biological mechanisms, molecules, genes and pathways to quantitative systems-level questions: where does positional information reside, how it is transformed and accessed during development, and what fundamental limits it is subject to?","lang":"eng"}],"intvolume":"       148","main_file_link":[{"url":"https://doi.org/10.1242/dev.176065","open_access":"1"}],"oa":1,"year":"2021","issue":"2","date_published":"2021-02-01T00:00:00Z","pmid":1,"publisher":"The Company of Biologists","day":"01","_id":"9226","title":"The many bits of positional information","article_type":"original","volume":148,"publication":"Development","status":"public","isi":1,"type":"journal_article","oa_version":"Published Version","publication_status":"published","doi":"10.1242/dev.176065","author":[{"last_name":"Tkačik","full_name":"Tkačik, Gašper","first_name":"Gašper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Gregor","full_name":"Gregor, Thomas","first_name":"Thomas"}],"article_processing_charge":"No","department":[{"_id":"GaTk"}],"date_updated":"2025-04-14T09:28:43Z","language":[{"iso":"eng"}],"citation":{"mla":"Tkačik, Gašper, and Thomas Gregor. “The Many Bits of Positional Information.” <i>Development</i>, vol. 148, no. 2, dev176065, The Company of Biologists, 2021, doi:<a href=\"https://doi.org/10.1242/dev.176065\">10.1242/dev.176065</a>.","ista":"Tkačik G, Gregor T. 2021. The many bits of positional information. Development. 148(2), dev176065.","ieee":"G. Tkačik and T. Gregor, “The many bits of positional information,” <i>Development</i>, vol. 148, no. 2. The Company of Biologists, 2021.","short":"G. Tkačik, T. Gregor, Development 148 (2021).","chicago":"Tkačik, Gašper, and Thomas Gregor. “The Many Bits of Positional Information.” <i>Development</i>. The Company of Biologists, 2021. <a href=\"https://doi.org/10.1242/dev.176065\">https://doi.org/10.1242/dev.176065</a>.","apa":"Tkačik, G., &#38; Gregor, T. (2021). The many bits of positional information. <i>Development</i>. The Company of Biologists. <a href=\"https://doi.org/10.1242/dev.176065\">https://doi.org/10.1242/dev.176065</a>","ama":"Tkačik G, Gregor T. The many bits of positional information. <i>Development</i>. 2021;148(2). doi:<a href=\"https://doi.org/10.1242/dev.176065\">10.1242/dev.176065</a>"},"article_number":"dev176065","project":[{"grant_number":"P28844-B27","_id":"254E9036-B435-11E9-9278-68D0E5697425","name":"Biophysics of information processing in gene regulation","call_identifier":"FWF"}],"scopus_import":"1","month":"02","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"eissn":["1477-9129"]},"acknowledgement":"This work was supported in part by the National Science Foundation, through the Center for the Physics of Biological Function (PHY-1734030), by the National Institutes of Health (R01GM097275) and by the Fonds zur Förderung der wissenschaftlichen Forschung (FWF P28844). Deposited in PMC for release after 12 months.","external_id":{"pmid":["33526425"],"isi":["000613906000007"]}},{"publication_identifier":{"eissn":["1879-307X"],"issn":["1364-6613"]},"external_id":{"isi":["000627418000001"],"pmid":["33608214"]},"page":"265-268","acknowledgement":"We thank all of our volunteers from the NMC conferences (list of names in the appendix). We also thank the NSF for support from 1734220 to B.W., and DARPA for support to T.A.","file":[{"creator":"dernst","content_type":"application/pdf","access_level":"open_access","success":1,"date_created":"2022-05-27T07:31:24Z","file_id":"11415","file_size":380720,"relation":"main_file","checksum":"87e39ea7bd266b976e8631b66979214d","file_name":"2021_TrendsCognitiveSciences_Achakulvisut.pdf","date_updated":"2022-05-27T07:31:24Z"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","month":"04","file_date_updated":"2022-05-27T07:31:24Z","scopus_import":"1","language":[{"iso":"eng"}],"has_accepted_license":"1","citation":{"mla":"Achakulvisut, Titipat, et al. “Towards Democratizing and Automating Online Conferences: Lessons from the Neuromatch Conferences.” <i>Trends in Cognitive Sciences</i>, vol. 25, no. 4, Elsevier, 2021, pp. 265–68, doi:<a href=\"https://doi.org/10.1016/j.tics.2021.01.007\">10.1016/j.tics.2021.01.007</a>.","ista":"Achakulvisut T, Ruangrong T, Mineault P, Vogels TP, Peters MAK, Poirazi P, Rozell C, Wyble B, Goodman DFM, Kording KP. 2021. Towards democratizing and automating online conferences: Lessons from the Neuromatch Conferences. Trends in Cognitive Sciences. 25(4), 265–268.","ieee":"T. Achakulvisut <i>et al.</i>, “Towards democratizing and automating online conferences: Lessons from the Neuromatch Conferences,” <i>Trends in Cognitive Sciences</i>, vol. 25, no. 4. Elsevier, pp. 265–268, 2021.","short":"T. Achakulvisut, T. Ruangrong, P. Mineault, T.P. Vogels, M.A.K. Peters, P. Poirazi, C. Rozell, B. Wyble, D.F.M. Goodman, K.P. Kording, Trends in Cognitive Sciences 25 (2021) 265–268.","ama":"Achakulvisut T, Ruangrong T, Mineault P, et al. Towards democratizing and automating online conferences: Lessons from the Neuromatch Conferences. <i>Trends in Cognitive Sciences</i>. 2021;25(4):265-268. doi:<a href=\"https://doi.org/10.1016/j.tics.2021.01.007\">10.1016/j.tics.2021.01.007</a>","chicago":"Achakulvisut, Titipat, Tulakan Ruangrong, Patrick Mineault, Tim P Vogels, Megan A.K. Peters, Panayiota Poirazi, Christopher Rozell, Brad Wyble, Dan F.M. Goodman, and Konrad Paul Kording. “Towards Democratizing and Automating Online Conferences: Lessons from the Neuromatch Conferences.” <i>Trends in Cognitive Sciences</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.tics.2021.01.007\">https://doi.org/10.1016/j.tics.2021.01.007</a>.","apa":"Achakulvisut, T., Ruangrong, T., Mineault, P., Vogels, T. P., Peters, M. A. K., Poirazi, P., … Kording, K. P. (2021). Towards democratizing and automating online conferences: Lessons from the Neuromatch Conferences. <i>Trends in Cognitive Sciences</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tics.2021.01.007\">https://doi.org/10.1016/j.tics.2021.01.007</a>"},"department":[{"_id":"TiVo"}],"date_updated":"2023-08-07T13:59:07Z","author":[{"first_name":"Titipat","full_name":"Achakulvisut, Titipat","last_name":"Achakulvisut"},{"first_name":"Tulakan","last_name":"Ruangrong","full_name":"Ruangrong, Tulakan"},{"first_name":"Patrick","full_name":"Mineault, Patrick","last_name":"Mineault"},{"last_name":"Vogels","full_name":"Vogels, Tim P","id":"CB6FF8D2-008F-11EA-8E08-2637E6697425","orcid":"0000-0003-3295-6181","first_name":"Tim P"},{"first_name":"Megan A.K.","last_name":"Peters","full_name":"Peters, Megan A.K."},{"first_name":"Panayiota","last_name":"Poirazi","full_name":"Poirazi, Panayiota"},{"first_name":"Christopher","last_name":"Rozell","full_name":"Rozell, Christopher"},{"full_name":"Wyble, Brad","last_name":"Wyble","first_name":"Brad"},{"first_name":"Dan F.M.","full_name":"Goodman, Dan F.M.","last_name":"Goodman"},{"first_name":"Konrad Paul","full_name":"Kording, Konrad Paul","last_name":"Kording"}],"article_processing_charge":"No","oa_version":"Submitted Version","type":"journal_article","doi":"10.1016/j.tics.2021.01.007","publication_status":"published","status":"public","isi":1,"publication":"Trends in Cognitive Sciences","article_type":"original","title":"Towards democratizing and automating online conferences: Lessons from the Neuromatch Conferences","volume":25,"day":"01","publisher":"Elsevier","_id":"9228","pmid":1,"ddc":["570"],"issue":"4","year":"2021","date_published":"2021-04-01T00:00:00Z","oa":1,"quality_controlled":"1","intvolume":"        25","abstract":[{"text":"Legacy conferences are costly and time consuming, and exclude scientists lacking various resources or abilities. During the 2020 pandemic, we created an online conference platform, Neuromatch Conferences (NMC), aimed at developing technological and cultural changes to make conferences more democratic, scalable, and accessible. We discuss the lessons we learned.","lang":"eng"}],"date_created":"2021-03-07T23:01:25Z"},{"month":"03","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ec_funded":1,"title":"Maxima of a random model of the Riemann zeta function over intervals of varying length","publication":"arXiv","acknowledgement":"The research of L.-P. A. is supported in part by the grant NSF CAREER DMS-1653602. G. D. gratefully acknowledges support from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411. The research of L. H. is supported in part by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) through Project-ID 233630050 -TRR 146, Project-ID 443891315 within SPP 2265 and Project-ID 446173099.","external_id":{"arxiv":["2103.04817"]},"citation":{"ama":"Arguin L-P, Dubach G, Hartung L. Maxima of a random model of the Riemann zeta function over intervals of varying length. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2103.04817\">10.48550/arXiv.2103.04817</a>","apa":"Arguin, L.-P., Dubach, G., &#38; Hartung, L. (n.d.). Maxima of a random model of the Riemann zeta function over intervals of varying length. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2103.04817\">https://doi.org/10.48550/arXiv.2103.04817</a>","chicago":"Arguin, Louis-Pierre, Guillaume Dubach, and Lisa Hartung. “Maxima of a Random Model of the Riemann Zeta Function over Intervals of Varying Length.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2103.04817\">https://doi.org/10.48550/arXiv.2103.04817</a>.","ista":"Arguin L-P, Dubach G, Hartung L. Maxima of a random model of the Riemann zeta function over intervals of varying length. arXiv, 2103.04817.","short":"L.-P. Arguin, G. Dubach, L. Hartung, ArXiv (n.d.).","ieee":"L.-P. Arguin, G. Dubach, and L. Hartung, “Maxima of a random model of the Riemann zeta function over intervals of varying length,” <i>arXiv</i>. .","mla":"Arguin, Louis-Pierre, et al. “Maxima of a Random Model of the Riemann Zeta Function over Intervals of Varying Length.” <i>ArXiv</i>, 2103.04817, doi:<a href=\"https://doi.org/10.48550/arXiv.2103.04817\">10.48550/arXiv.2103.04817</a>."},"article_number":"2103.04817","language":[{"iso":"eng"}],"_id":"9230","arxiv":1,"day":"08","project":[{"grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"author":[{"first_name":"Louis-Pierre","full_name":"Arguin, Louis-Pierre","last_name":"Arguin"},{"full_name":"Dubach, Guillaume","last_name":"Dubach","orcid":"0000-0001-6892-8137","id":"D5C6A458-10C4-11EA-ABF4-A4B43DDC885E","first_name":"Guillaume"},{"first_name":"Lisa","last_name":"Hartung","full_name":"Hartung, Lisa"}],"article_processing_charge":"No","oa":1,"date_published":"2021-03-08T00:00:00Z","date_updated":"2025-04-14T07:43:51Z","year":"2021","department":[{"_id":"LaEr"}],"status":"public","abstract":[{"text":"We consider a model of the Riemann zeta function on the critical axis and study its maximum over intervals of length (log T)θ, where θ is either fixed or tends to zero at a suitable rate.\r\nIt is shown that the deterministic level of the maximum interpolates smoothly between the ones\r\nof log-correlated variables and of i.i.d. random variables, exhibiting a smooth transition ‘from\r\n3/4 to 1/4’ in the second order. This provides a natural context where extreme value statistics of\r\nlog-correlated variables with time-dependent variance and rate occur. A key ingredient of the\r\nproof is a precise upper tail tightness estimate for the maximum of the model on intervals of\r\nsize one, that includes a Gaussian correction. This correction is expected to be present for the\r\nRiemann zeta function and pertains to the question of the correct order of the maximum of\r\nthe zeta function in large intervals.","lang":"eng"}],"publication_status":"submitted","date_created":"2021-03-09T11:08:15Z","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2103.04817"}],"doi":"10.48550/arXiv.2103.04817","type":"preprint","oa_version":"Preprint"},{"project":[{"grant_number":"616160","name":"Discrete Optimization in Computer Vision: Theory and Practice","_id":"25FBA906-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"},{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"file_date_updated":"2021-08-11T12:44:16Z","scopus_import":"1","language":[{"iso":"eng"}],"citation":{"ama":"Izuchukwu C, Shehu Y. New inertial projection methods for solving multivalued variational inequality problems beyond monotonicity. <i>Networks and Spatial Economics</i>. 2021;21(2):291-323. doi:<a href=\"https://doi.org/10.1007/s11067-021-09517-w\">10.1007/s11067-021-09517-w</a>","apa":"Izuchukwu, C., &#38; Shehu, Y. (2021). New inertial projection methods for solving multivalued variational inequality problems beyond monotonicity. <i>Networks and Spatial Economics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11067-021-09517-w\">https://doi.org/10.1007/s11067-021-09517-w</a>","chicago":"Izuchukwu, Chinedu, and Yekini Shehu. “New Inertial Projection Methods for Solving Multivalued Variational Inequality Problems beyond Monotonicity.” <i>Networks and Spatial Economics</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/s11067-021-09517-w\">https://doi.org/10.1007/s11067-021-09517-w</a>.","ieee":"C. Izuchukwu and Y. Shehu, “New inertial projection methods for solving multivalued variational inequality problems beyond monotonicity,” <i>Networks and Spatial Economics</i>, vol. 21, no. 2. Springer Nature, pp. 291–323, 2021.","ista":"Izuchukwu C, Shehu Y. 2021. New inertial projection methods for solving multivalued variational inequality problems beyond monotonicity. Networks and Spatial Economics. 21(2), 291–323.","short":"C. Izuchukwu, Y. Shehu, Networks and Spatial Economics 21 (2021) 291–323.","mla":"Izuchukwu, Chinedu, and Yekini Shehu. “New Inertial Projection Methods for Solving Multivalued Variational Inequality Problems beyond Monotonicity.” <i>Networks and Spatial Economics</i>, vol. 21, no. 2, Springer Nature, 2021, pp. 291–323, doi:<a href=\"https://doi.org/10.1007/s11067-021-09517-w\">10.1007/s11067-021-09517-w</a>."},"has_accepted_license":"1","publication_identifier":{"issn":["1566-113X"],"eissn":["1572-9427"]},"acknowledgement":"The authors sincerely thank the Editor-in-Chief and anonymous referees for their careful reading, constructive comments and fruitful suggestions that help improve the manuscript. The research of the first author is supported by the National Research Foundation (NRF) South Africa (S& F-DSI/NRF Free Standing Postdoctoral Fellowship; Grant Number: 120784). The first author also acknowledges the financial support from DSI/NRF, South Africa Center of Excellence in Mathematical and Statistical Sciences (CoE-MaSS) Postdoctoral Fellowship. The second author has received funding from the European Research Council (ERC) under the European Union’s Seventh Framework Program (FP7 - 2007-2013) (Grant agreement No. 616160). Open Access funding provided by Institute of Science and Technology (IST Austria).","page":"291-323","file":[{"content_type":"application/pdf","creator":"kschuh","date_created":"2021-08-11T12:44:16Z","access_level":"open_access","success":1,"file_id":"9884","file_size":834964,"checksum":"22b4253a2e5da843622a2df713784b4c","relation":"main_file","date_updated":"2021-08-11T12:44:16Z","file_name":"2021_NetworksSpatialEconomics_Shehu.pdf"}],"external_id":{"isi":["000625002100001"]},"month":"06","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","type":"journal_article","oa_version":"Published Version","publication_status":"published","doi":"10.1007/s11067-021-09517-w","status":"public","isi":1,"department":[{"_id":"VlKo"}],"date_updated":"2024-11-04T13:52:33Z","author":[{"full_name":"Izuchukwu, Chinedu","last_name":"Izuchukwu","first_name":"Chinedu"},{"full_name":"Shehu, Yekini","last_name":"Shehu","first_name":"Yekini","id":"3FC7CB58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9224-7139"}],"article_processing_charge":"Yes (via OA deal)","publisher":"Springer Nature","day":"01","_id":"9234","ddc":["510"],"keyword":["Computer Networks and Communications","Software","Artificial Intelligence"],"publication":"Networks and Spatial Economics","ec_funded":1,"article_type":"original","title":"New inertial projection methods for solving multivalued variational inequality problems beyond monotonicity","volume":21,"quality_controlled":"1","intvolume":"        21","date_created":"2021-03-10T12:18:47Z","abstract":[{"text":"In this paper, we present two new inertial projection-type methods for solving multivalued variational inequality problems in finite-dimensional spaces. We establish the convergence of the sequence generated by these methods when the multivalued mapping associated with the problem is only required to be locally bounded without any monotonicity assumption. Furthermore, the inertial techniques that we employ in this paper are quite different from the ones used in most papers. Moreover, based on the weaker assumptions on the inertial factor in our methods, we derive several special cases of our methods. Finally, we present some experimental results to illustrate the profits that we gain by introducing the inertial extrapolation steps.","lang":"eng"}],"year":"2021","issue":"2","date_published":"2021-06-01T00:00:00Z","oa":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"}},{"isi":1,"status":"public","publication_status":"published","doi":"10.1021/acsnano.0c09866","type":"journal_article","oa_version":"Submitted Version","article_processing_charge":"No","author":[{"first_name":"Mengyao","full_name":"Li, Mengyao","last_name":"Li"},{"id":"2A70014E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7313-6740","first_name":"Yu","last_name":"Liu","full_name":"Liu, Yu"},{"full_name":"Zhang, Yu","last_name":"Zhang","first_name":"Yu"},{"last_name":"Han","full_name":"Han, Xu","first_name":"Xu"},{"first_name":"Ting","full_name":"Zhang, Ting","last_name":"Zhang"},{"first_name":"Yong","last_name":"Zuo","full_name":"Zuo, Yong"},{"first_name":"Chenyang","full_name":"Xie, Chenyang","last_name":"Xie"},{"last_name":"Xiao","full_name":"Xiao, Ke","first_name":"Ke"},{"full_name":"Arbiol, Jordi","last_name":"Arbiol","first_name":"Jordi"},{"last_name":"Llorca","full_name":"Llorca, Jordi","first_name":"Jordi"},{"first_name":"Maria","orcid":"0000-0001-5013-2843","id":"43C61214-F248-11E8-B48F-1D18A9856A87","last_name":"Ibáñez","full_name":"Ibáñez, Maria"},{"first_name":"Junfeng","full_name":"Liu, Junfeng","last_name":"Liu"},{"first_name":"Andreu","full_name":"Cabot, Andreu","last_name":"Cabot"}],"date_updated":"2024-10-09T21:04:04Z","department":[{"_id":"MaIb"}],"citation":{"mla":"Li, Mengyao, et al. “Effect of the Annealing Atmosphere on Crystal Phase and Thermoelectric Properties of Copper Sulfide.” <i>ACS Nano</i>, vol. 15, no. 3, American Chemical Society , 2021, pp. 4967–4978, doi:<a href=\"https://doi.org/10.1021/acsnano.0c09866\">10.1021/acsnano.0c09866</a>.","short":"M. Li, Y. Liu, Y. Zhang, X. Han, T. Zhang, Y. Zuo, C. Xie, K. Xiao, J. Arbiol, J. Llorca, M. Ibáñez, J. Liu, A. Cabot, ACS Nano 15 (2021) 4967–4978.","ista":"Li M, Liu Y, Zhang Y, Han X, Zhang T, Zuo Y, Xie C, Xiao K, Arbiol J, Llorca J, Ibáñez M, Liu J, Cabot A. 2021. Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide. ACS Nano. 15(3), 4967–4978.","ieee":"M. Li <i>et al.</i>, “Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide,” <i>ACS Nano</i>, vol. 15, no. 3. American Chemical Society , pp. 4967–4978, 2021.","chicago":"Li, Mengyao, Yu Liu, Yu Zhang, Xu Han, Ting Zhang, Yong Zuo, Chenyang Xie, et al. “Effect of the Annealing Atmosphere on Crystal Phase and Thermoelectric Properties of Copper Sulfide.” <i>ACS Nano</i>. American Chemical Society , 2021. <a href=\"https://doi.org/10.1021/acsnano.0c09866\">https://doi.org/10.1021/acsnano.0c09866</a>.","apa":"Li, M., Liu, Y., Zhang, Y., Han, X., Zhang, T., Zuo, Y., … Cabot, A. (2021). Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide. <i>ACS Nano</i>. American Chemical Society . <a href=\"https://doi.org/10.1021/acsnano.0c09866\">https://doi.org/10.1021/acsnano.0c09866</a>","ama":"Li M, Liu Y, Zhang Y, et al. Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide. <i>ACS Nano</i>. 2021;15(3):4967–4978. doi:<a href=\"https://doi.org/10.1021/acsnano.0c09866\">10.1021/acsnano.0c09866</a>"},"language":[{"iso":"eng"}],"scopus_import":"1","corr_author":"1","month":"03","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","page":"4967–4978","acknowledgement":"This work was supported by the European Regional Development Funds. M.Y.L., X.H., T.Z., and K.X. thank the China Scholarship Council for scholarship support. M.I. acknowledges financial support from IST Austria. J.L. acknowledges support from the National Natural Science Foundation of China (No. 22008091), the funding for scientific research startup of Jiangsu University (No. 19JDG044), and Jiangsu Provincial Program for High-Level Innovative and Entrepreneurial Talents Introduction. J.L. is a Serra Húnter fellow and is grateful to the ICREA Academia program and projects MICINN/FEDER RTI2018-093996-B-C31 and GC 2017 SGR 128. ICN2 acknowledges funding from Generalitat de Catalunya 2017 SGR 327 and the Spanish MINECO ENE2017-85087-C3. ICN2 is supported by the Severo Ochoa program from Spanish MINECO (Grant No. SEV-2017-0706) and is funded by the CERCA Programme/Generalitat de Catalunya. Part of the present work has been performed in the framework of Universitat Autònoma de Barcelona Materials Science PhD program. T.Z. has received funding from the CSC-UAB PhD scholarship program.","external_id":{"isi":["000634569100106"],"pmid":["33645986"]},"publication_identifier":{"issn":["1936-0851"],"eissn":["1936-086X"]},"intvolume":"        15","abstract":[{"lang":"eng","text":"Cu2–xS has become one of the most promising thermoelectric materials for application in the middle-high temperature range. Its advantages include the abundance, low cost, and safety of its elements and a high performance at relatively elevated temperatures. However, stability issues limit its operation current and temperature, thus calling for the optimization of the material performance in the middle temperature range. Here, we present a synthetic protocol for large scale production of covellite CuS nanoparticles at ambient temperature and atmosphere, and using water as a solvent. The crystal phase and stoichiometry of the particles are afterward tuned through an annealing process at a moderate temperature under inert or reducing atmosphere. While annealing under argon results in Cu1.8S nanopowder with a rhombohedral crystal phase, annealing in an atmosphere containing hydrogen leads to tetragonal Cu1.96S. High temperature X-ray diffraction analysis shows the material annealed in argon to transform to the cubic phase at ca. 400 K, while the material annealed in the presence of hydrogen undergoes two phase transitions, first to hexagonal and then to the cubic structure. The annealing atmosphere, temperature, and time allow adjustment of the density of copper vacancies and thus tuning of the charge carrier concentration and material transport properties. In this direction, the material annealed under Ar is characterized by higher electrical conductivities but lower Seebeck coefficients than the material annealed in the presence of hydrogen. By optimizing the charge carrier concentration through the annealing time, Cu2–xS with record figures of merit in the middle temperature range, up to 1.41 at 710 K, is obtained. We finally demonstrate that this strategy, based on a low-cost and scalable solution synthesis process, is also suitable for the production of high performance Cu2–xS layers using high throughput and cost-effective printing technologies."}],"date_created":"2021-03-10T20:12:45Z","main_file_link":[{"url":"https://upcommons.upc.edu/bitstream/handle/2117/363528/Pb%20mengyao.pdf?sequence=1&isAllowed=y","open_access":"1"}],"quality_controlled":"1","oa":1,"date_published":"2021-03-01T00:00:00Z","year":"2021","issue":"3","pmid":1,"_id":"9235","publisher":"American Chemical Society ","day":"01","volume":15,"article_type":"original","title":"Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide","keyword":["General Engineering","General Physics and Astronomy","General Materials Science"],"publication":"ACS Nano"},{"related_material":{"record":[{"id":"6884","status":"public","relation":"earlier_version"}]},"page":"133-144","external_id":{"arxiv":["1905.03835"],"isi":["000634149800009"]},"publication_identifier":{"issn":["0022-0000"],"eissn":["1090-2724"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","month":"03","scopus_import":"1","citation":{"chicago":"Avni, Guy, Thomas A Henzinger, and Đorđe Žikelić. “Bidding Mechanisms in Graph Games.” <i>Journal of Computer and System Sciences</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.jcss.2021.02.008\">https://doi.org/10.1016/j.jcss.2021.02.008</a>.","apa":"Avni, G., Henzinger, T. A., &#38; Žikelić, Đ. (2021). Bidding mechanisms in graph games. <i>Journal of Computer and System Sciences</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jcss.2021.02.008\">https://doi.org/10.1016/j.jcss.2021.02.008</a>","ama":"Avni G, Henzinger TA, Žikelić Đ. Bidding mechanisms in graph games. <i>Journal of Computer and System Sciences</i>. 2021;119(8):133-144. doi:<a href=\"https://doi.org/10.1016/j.jcss.2021.02.008\">10.1016/j.jcss.2021.02.008</a>","mla":"Avni, Guy, et al. “Bidding Mechanisms in Graph Games.” <i>Journal of Computer and System Sciences</i>, vol. 119, no. 8, Elsevier, 2021, pp. 133–44, doi:<a href=\"https://doi.org/10.1016/j.jcss.2021.02.008\">10.1016/j.jcss.2021.02.008</a>.","short":"G. Avni, T.A. Henzinger, Đ. Žikelić, Journal of Computer and System Sciences 119 (2021) 133–144.","ieee":"G. Avni, T. A. Henzinger, and Đ. Žikelić, “Bidding mechanisms in graph games,” <i>Journal of Computer and System Sciences</i>, vol. 119, no. 8. Elsevier, pp. 133–144, 2021.","ista":"Avni G, Henzinger TA, Žikelić Đ. 2021. Bidding mechanisms in graph games. Journal of Computer and System Sciences. 119(8), 133–144."},"language":[{"iso":"eng"}],"date_updated":"2025-07-10T11:53:57Z","department":[{"_id":"ToHe"}],"article_processing_charge":"No","author":[{"full_name":"Avni, Guy","last_name":"Avni","first_name":"Guy","id":"463C8BC2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5588-8287"},{"full_name":"Henzinger, Thomas A","last_name":"Henzinger","first_name":"Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2985-7724"},{"first_name":"Đorđe","full_name":"Žikelić, Đorđe","last_name":"Žikelić"}],"publication_status":"published","doi":"10.1016/j.jcss.2021.02.008","type":"journal_article","oa_version":"Preprint","isi":1,"status":"public","publication":"Journal of Computer and System Sciences","volume":119,"article_type":"original","title":"Bidding mechanisms in graph games","_id":"9239","arxiv":1,"publisher":"Elsevier","day":"03","date_published":"2021-03-03T00:00:00Z","year":"2021","issue":"8","oa":1,"abstract":[{"lang":"eng","text":"A graph game proceeds as follows: two players move a token through a graph to produce a finite or infinite path, which determines the payoff of the game. We study bidding games in which in each turn, an auction determines which player moves the token. Bidding games were largely studied in combination with two variants of first-price auctions called “Richman” and “poorman” bidding. We study taxman bidding, which span the spectrum between the two. The game is parameterized by a constant : portion τ of the winning bid is paid to the other player, and portion  to the bank. While finite-duration (reachability) taxman games have been studied before, we present, for the first time, results on infinite-duration taxman games: we unify, generalize, and simplify previous equivalences between bidding games and a class of stochastic games called random-turn games."}],"date_created":"2021-03-14T23:01:32Z","intvolume":"       119","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.1905.03835","open_access":"1"}],"quality_controlled":"1"},{"citation":{"mla":"Cornalba, Federico, et al. “Well-Posedness for a Regularised Inertial Dean–Kawasaki Model for Slender Particles in Several Space Dimensions.” <i>Journal of Differential Equations</i>, vol. 284, no. 5, Elsevier, 2021, pp. 253–83, doi:<a href=\"https://doi.org/10.1016/j.jde.2021.02.048\">10.1016/j.jde.2021.02.048</a>.","ista":"Cornalba F, Shardlow T, Zimmer J. 2021. Well-posedness for a regularised inertial Dean–Kawasaki model for slender particles in several space dimensions. Journal of Differential Equations. 284(5), 253–283.","ieee":"F. Cornalba, T. Shardlow, and J. Zimmer, “Well-posedness for a regularised inertial Dean–Kawasaki model for slender particles in several space dimensions,” <i>Journal of Differential Equations</i>, vol. 284, no. 5. Elsevier, pp. 253–283, 2021.","short":"F. Cornalba, T. Shardlow, J. Zimmer, Journal of Differential Equations 284 (2021) 253–283.","chicago":"Cornalba, Federico, Tony Shardlow, and Johannes Zimmer. “Well-Posedness for a Regularised Inertial Dean–Kawasaki Model for Slender Particles in Several Space Dimensions.” <i>Journal of Differential Equations</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.jde.2021.02.048\">https://doi.org/10.1016/j.jde.2021.02.048</a>.","apa":"Cornalba, F., Shardlow, T., &#38; Zimmer, J. (2021). Well-posedness for a regularised inertial Dean–Kawasaki model for slender particles in several space dimensions. <i>Journal of Differential Equations</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jde.2021.02.048\">https://doi.org/10.1016/j.jde.2021.02.048</a>","ama":"Cornalba F, Shardlow T, Zimmer J. Well-posedness for a regularised inertial Dean–Kawasaki model for slender particles in several space dimensions. <i>Journal of Differential Equations</i>. 2021;284(5):253-283. doi:<a href=\"https://doi.org/10.1016/j.jde.2021.02.048\">10.1016/j.jde.2021.02.048</a>"},"has_accepted_license":"1","language":[{"iso":"eng"}],"scopus_import":"1","project":[{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"}],"file_date_updated":"2021-03-22T07:18:01Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","month":"05","page":"253-283","acknowledgement":"All authors thank the anonymous referee for his/her careful reading of the manuscript and valuable suggestions. This paper was motivated by stimulating discussions at the First Berlin–Leipzig Workshop on Fluctuating Hydrodynamics in August 2019 with Ana Djurdjevac, Rupert Klein and Ralf Kornhuber. JZ gratefully acknowledges funding by a Royal Society Wolfson Research Merit Award. FC gratefully acknowledges funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 754411.","file":[{"content_type":"application/pdf","creator":"dernst","file_id":"9267","date_created":"2021-03-22T07:18:01Z","success":1,"access_level":"open_access","checksum":"c630b691fb9e716b02aa6103a9794ec8","relation":"main_file","file_size":473310,"date_updated":"2021-03-22T07:18:01Z","file_name":"2021_JourDiffEquations_Cornalba.pdf"}],"external_id":{"isi":["000634823300010"]},"publication_identifier":{"issn":["0022-0396"],"eissn":["1090-2732"]},"isi":1,"status":"public","publication_status":"published","doi":"10.1016/j.jde.2021.02.048","type":"journal_article","oa_version":"Published Version","author":[{"last_name":"Cornalba","full_name":"Cornalba, Federico","orcid":"0000-0002-6269-5149","id":"2CEB641C-A400-11E9-A717-D712E6697425","first_name":"Federico"},{"full_name":"Shardlow, Tony","last_name":"Shardlow","first_name":"Tony"},{"full_name":"Zimmer, Johannes","last_name":"Zimmer","first_name":"Johannes"}],"article_processing_charge":"Yes (via OA deal)","date_updated":"2025-04-14T07:43:51Z","department":[{"_id":"JuFi"}],"ddc":["510"],"_id":"9240","publisher":"Elsevier","day":"25","volume":284,"ec_funded":1,"article_type":"original","title":"Well-posedness for a regularised inertial Dean–Kawasaki model for slender particles in several space dimensions","publication":"Journal of Differential Equations","date_created":"2021-03-14T23:01:32Z","abstract":[{"text":"A stochastic PDE, describing mesoscopic fluctuations in systems of weakly interacting inertial particles of finite volume, is proposed and analysed in any finite dimension . It is a regularised and inertial version of the Dean–Kawasaki model. A high-probability well-posedness theory for this model is developed. This theory improves significantly on the spatial scaling restrictions imposed in an earlier work of the same authors, which applied only to significantly larger particles in one dimension. The well-posedness theory now applies in d-dimensions when the particle-width ϵ is proportional to  for  and N is the number of particles. This scaling is optimal in a certain Sobolev norm. Key tools of the analysis are fractional Sobolev spaces, sharp bounds on Bessel functions, separability of the regularisation in the d-spatial dimensions, and use of the Faà di Bruno's formula.","lang":"eng"}],"intvolume":"       284","quality_controlled":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"oa":1,"date_published":"2021-05-25T00:00:00Z","year":"2021","issue":"5"},{"isi":1,"status":"public","publication_status":"published","doi":"10.1364/OE.406095","type":"journal_article","oa_version":"Published Version","article_processing_charge":"No","author":[{"first_name":"Oskar","full_name":"Elek, Oskar","last_name":"Elek"},{"full_name":"Zhang, Ran","last_name":"Zhang","id":"4DDBCEB0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3808-281X","first_name":"Ran"},{"first_name":"Denis","last_name":"Sumin","full_name":"Sumin, Denis"},{"full_name":"Myszkowski, Karol","last_name":"Myszkowski","first_name":"Karol"},{"first_name":"Bernd","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","last_name":"Bickel","full_name":"Bickel, Bernd"},{"full_name":"Wilkie, Alexander","last_name":"Wilkie","first_name":"Alexander"},{"last_name":"Křivánek","full_name":"Křivánek, Jaroslav","first_name":"Jaroslav"},{"last_name":"Weyrich","full_name":"Weyrich, Tim","first_name":"Tim"}],"date_updated":"2025-03-31T15:58:16Z","department":[{"_id":"BeBi"}],"citation":{"mla":"Elek, Oskar, et al. “Robust and Practical Measurement of Volume Transport Parameters in Solid Photo-Polymer Materials for 3D Printing.” <i>Optics Express</i>, vol. 29, no. 5, The Optical Society, 2021, pp. 7568–88, doi:<a href=\"https://doi.org/10.1364/OE.406095\">10.1364/OE.406095</a>.","ieee":"O. Elek <i>et al.</i>, “Robust and practical measurement of volume transport parameters in solid photo-polymer materials for 3D printing,” <i>Optics Express</i>, vol. 29, no. 5. The Optical Society, pp. 7568–7588, 2021.","ista":"Elek O, Zhang R, Sumin D, Myszkowski K, Bickel B, Wilkie A, Křivánek J, Weyrich T. 2021. Robust and practical measurement of volume transport parameters in solid photo-polymer materials for 3D printing. Optics Express. 29(5), 7568–7588.","short":"O. Elek, R. Zhang, D. Sumin, K. Myszkowski, B. Bickel, A. Wilkie, J. Křivánek, T. Weyrich, Optics Express 29 (2021) 7568–7588.","ama":"Elek O, Zhang R, Sumin D, et al. Robust and practical measurement of volume transport parameters in solid photo-polymer materials for 3D printing. <i>Optics Express</i>. 2021;29(5):7568-7588. doi:<a href=\"https://doi.org/10.1364/OE.406095\">10.1364/OE.406095</a>","chicago":"Elek, Oskar, Ran Zhang, Denis Sumin, Karol Myszkowski, Bernd Bickel, Alexander Wilkie, Jaroslav Křivánek, and Tim Weyrich. “Robust and Practical Measurement of Volume Transport Parameters in Solid Photo-Polymer Materials for 3D Printing.” <i>Optics Express</i>. The Optical Society, 2021. <a href=\"https://doi.org/10.1364/OE.406095\">https://doi.org/10.1364/OE.406095</a>.","apa":"Elek, O., Zhang, R., Sumin, D., Myszkowski, K., Bickel, B., Wilkie, A., … Weyrich, T. (2021). Robust and practical measurement of volume transport parameters in solid photo-polymer materials for 3D printing. <i>Optics Express</i>. The Optical Society. <a href=\"https://doi.org/10.1364/OE.406095\">https://doi.org/10.1364/OE.406095</a>"},"has_accepted_license":"1","language":[{"iso":"eng"}],"scopus_import":"1","project":[{"name":"Distributed 3D Object Design","call_identifier":"H2020","_id":"2508E324-B435-11E9-9278-68D0E5697425","grant_number":"642841"},{"grant_number":"715767","_id":"24F9549A-B435-11E9-9278-68D0E5697425","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling","call_identifier":"H2020"}],"file_date_updated":"2021-03-22T08:15:28Z","month":"03","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"checksum":"a9697ad83136c19ad87e46aa2db63cfd","relation":"main_file","file_size":10873700,"file_name":"2021_OpticsExpress_Elek.pdf","date_updated":"2021-03-22T08:15:28Z","content_type":"application/pdf","creator":"dernst","file_id":"9269","date_created":"2021-03-22T08:15:28Z","access_level":"open_access","success":1}],"page":"7568-7588","acknowledgement":"H2020 Marie Skłodowska-Curie Actions (642841); European Research Council (715767); Grantová Agentura České Republiky (16-08111S, 16-18964S); Univerzita Karlova v Praze (SVV-2017-260452); Engineering and Physical Sciences Research Council (EP/K023578/1).\r\nWe are grateful to Stratasys Ltd. for access to the voxel-level print interface of the J750\r\nmachine.","external_id":{"isi":["000624968100103"]},"publication_identifier":{"eissn":["1094-4087"]},"date_created":"2021-03-14T23:01:33Z","intvolume":"        29","abstract":[{"lang":"eng","text":"Volumetric light transport is a pervasive physical phenomenon, and therefore its accurate simulation is important for a broad array of disciplines. While suitable mathematical models for computing the transport are now available, obtaining the necessary material parameters needed to drive such simulations is a challenging task: direct measurements of these parameters from material samples are seldom possible. Building on the inverse scattering paradigm, we present a novel measurement approach which indirectly infers the transport parameters from extrinsic observations of multiple-scattered radiance. The novelty of the proposed approach lies in replacing structured illumination with a structured reflector bonded to the sample, and a robust fitting procedure that largely compensates for potential systematic errors in the calibration of the setup. We show the feasibility of our approach by validating simulations of complex 3D compositions of the measured materials against physical prints, using photo-polymer resins. As presented in this paper, our technique yields colorspace data suitable for accurate appearance reproduction in the area of 3D printing. Beyond that, and without fundamental changes to the basic measurement methodology, it could equally well be used to obtain spectral measurements that are useful for other application areas."}],"quality_controlled":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"oa":1,"date_published":"2021-03-01T00:00:00Z","year":"2021","issue":"5","ddc":["000"],"_id":"9241","publisher":"The Optical Society","day":"01","volume":29,"ec_funded":1,"article_type":"original","title":"Robust and practical measurement of volume transport parameters in solid photo-polymer materials for 3D printing","publication":"Optics Express"},{"publication_status":"published","doi":"10.1103/PhysRevA.103.023708","type":"journal_article","oa_version":"Preprint","isi":1,"status":"public","date_updated":"2023-08-07T14:11:18Z","department":[{"_id":"JoFi"}],"author":[{"last_name":"Rueda Sanchez","full_name":"Rueda Sanchez, Alfredo R","first_name":"Alfredo R","id":"3B82B0F8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6249-5860"}],"article_processing_charge":"No","scopus_import":"1","citation":{"short":"A.R. Rueda Sanchez, Physical Review A 103 (2021).","ieee":"A. R. Rueda Sanchez, “Frequency-multiplexed hybrid optical entangled source based on the Pockels effect,” <i>Physical Review A</i>, vol. 103, no. 2. American Physical Society, 2021.","ista":"Rueda Sanchez AR. 2021. Frequency-multiplexed hybrid optical entangled source based on the Pockels effect. Physical Review A. 103(2), 023708.","mla":"Rueda Sanchez, Alfredo R. “Frequency-Multiplexed Hybrid Optical Entangled Source Based on the Pockels Effect.” <i>Physical Review A</i>, vol. 103, no. 2, 023708, American Physical Society, 2021, doi:<a href=\"https://doi.org/10.1103/PhysRevA.103.023708\">10.1103/PhysRevA.103.023708</a>.","apa":"Rueda Sanchez, A. R. (2021). Frequency-multiplexed hybrid optical entangled source based on the Pockels effect. <i>Physical Review A</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevA.103.023708\">https://doi.org/10.1103/PhysRevA.103.023708</a>","chicago":"Rueda Sanchez, Alfredo R. “Frequency-Multiplexed Hybrid Optical Entangled Source Based on the Pockels Effect.” <i>Physical Review A</i>. American Physical Society, 2021. <a href=\"https://doi.org/10.1103/PhysRevA.103.023708\">https://doi.org/10.1103/PhysRevA.103.023708</a>.","ama":"Rueda Sanchez AR. Frequency-multiplexed hybrid optical entangled source based on the Pockels effect. <i>Physical Review A</i>. 2021;103(2). doi:<a href=\"https://doi.org/10.1103/PhysRevA.103.023708\">10.1103/PhysRevA.103.023708</a>"},"article_number":"023708","language":[{"iso":"eng"}],"acknowledgement":"I thank Prof. Shabir Barzanjeh and Dr. Ulrich Vogl for the fruitful discussions.\r\n","external_id":{"isi":["000617037900013"],"arxiv":["2010.05356"]},"publication_identifier":{"issn":["2469-9926"],"eissn":["2469-9934"]},"month":"02","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":"       103","abstract":[{"lang":"eng","text":"In the recent years important experimental advances in resonant electro-optic modulators as high-efficiency sources for coherent frequency combs and as devices for quantum information transfer have been realized, where strong optical and microwave mode coupling were achieved. These features suggest electro-optic-based devices as candidates for entangled optical frequency comb sources. In the present work, I study the generation of entangled optical frequency combs in millimeter-sized resonant electro-optic modulators. These devices profit from the experimentally proven advantages such as nearly constant optical free spectral ranges over several gigahertz, and high optical and microwave quality factors. The generation of frequency multiplexed quantum channels with spectral bandwidth in the MHz range for conservative parameter values paves the way towards novel uses in long-distance hybrid quantum networks, quantum key distribution, enhanced optical metrology, and quantum computing."}],"date_created":"2021-03-14T23:01:33Z","main_file_link":[{"url":"https://arxiv.org/abs/2010.05356","open_access":"1"}],"quality_controlled":"1","date_published":"2021-02-11T00:00:00Z","year":"2021","issue":"2","oa":1,"_id":"9242","publisher":"American Physical Society","arxiv":1,"day":"11","publication":"Physical Review A","volume":103,"title":"Frequency-multiplexed hybrid optical entangled source based on the Pockels effect","article_type":"original"},{"department":[{"_id":"MaLo"}],"date_updated":"2024-10-22T10:04:21Z","article_processing_charge":"No","author":[{"full_name":"Hernández-Rocamora, Víctor M.","last_name":"Hernández-Rocamora","first_name":"Víctor M."},{"first_name":"Natalia S.","id":"38661662-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3086-9124","last_name":"Baranova","full_name":"Baranova, Natalia S."},{"first_name":"Katharina","full_name":"Peters, Katharina","last_name":"Peters"},{"first_name":"Eefjan","last_name":"Breukink","full_name":"Breukink, Eefjan"},{"id":"462D4284-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7309-9724","first_name":"Martin","full_name":"Loose, Martin","last_name":"Loose"},{"full_name":"Vollmer, Waldemar","last_name":"Vollmer","first_name":"Waldemar"}],"oa_version":"Published Version","type":"journal_article","doi":"10.7554/eLife.61525","publication_status":"published","status":"public","isi":1,"publication_identifier":{"eissn":["2050-084X"]},"external_id":{"isi":["000627596400001"]},"acknowledgement":"We thank Alexander Egan (Newcastle University) for purified proteins LpoB(sol) and LpoPPa(sol), Federico Corona (Newcastle University) for purified MepM, and Oliver Birkholz and Jacob Piehler (Department of Biology and Center of Cellular Nanoanalytics, University of Osnabru¨ ck) for their help with PBP1B reconstitution into polymer-SLBs and initial guidance on single particle tracking. We also acknowledge Christian P Richter and Changjiang You (Department of Biology and Center of Cellular Nanoanalytics, University of Osnabru¨ ck) for providing SLIMfast software and tris-DODA-NTA reagent, respectively. This work was funded by the BBSRC grant BB/R017409/1 (to WV), the European Research Council through grant ERC-2015-StG-679239 (to ML), and long-term fellowships HFSP LT 000824/2016-L4 and EMBO ALTF 1163–2015 (to NB). ","file":[{"checksum":"79897a09bfecd9914d39c4aea2841855","relation":"main_file","file_size":2314698,"file_name":"2021_eLife_HernandezRocamora.pdf","date_updated":"2021-03-22T07:36:08Z","creator":"dernst","content_type":"application/pdf","file_id":"9268","date_created":"2021-03-22T07:36:08Z","success":1,"access_level":"open_access"}],"month":"02","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file_date_updated":"2021-03-22T07:36:08Z","project":[{"grant_number":"679239","call_identifier":"H2020","name":"Self-Organization of the Bacterial Cell","_id":"2595697A-B435-11E9-9278-68D0E5697425"},{"grant_number":"ALTF 2015-1163","_id":"2596EAB6-B435-11E9-9278-68D0E5697425","name":"Synthesis of bacterial cell wall"},{"grant_number":"LT000824/2016","_id":"259B655A-B435-11E9-9278-68D0E5697425","name":"Reconstitution of bacterial cell wall synthesis"}],"scopus_import":"1","language":[{"iso":"eng"}],"article_number":"1-32","has_accepted_license":"1","citation":{"ieee":"V. M. Hernández-Rocamora, N. S. Baranova, K. Peters, E. Breukink, M. Loose, and W. Vollmer, “Real time monitoring of peptidoglycan synthesis by membrane-reconstituted penicillin binding proteins,” <i>eLife</i>, vol. 10. eLife Sciences Publications, 2021.","short":"V.M. Hernández-Rocamora, N.S. Baranova, K. Peters, E. Breukink, M. Loose, W. Vollmer, ELife 10 (2021).","ista":"Hernández-Rocamora VM, Baranova NS, Peters K, Breukink E, Loose M, Vollmer W. 2021. Real time monitoring of peptidoglycan synthesis by membrane-reconstituted penicillin binding proteins. eLife. 10, 1–32.","mla":"Hernández-Rocamora, Víctor M., et al. “Real Time Monitoring of Peptidoglycan Synthesis by Membrane-Reconstituted Penicillin Binding Proteins.” <i>ELife</i>, vol. 10, 1–32, eLife Sciences Publications, 2021, doi:<a href=\"https://doi.org/10.7554/eLife.61525\">10.7554/eLife.61525</a>.","ama":"Hernández-Rocamora VM, Baranova NS, Peters K, Breukink E, Loose M, Vollmer W. Real time monitoring of peptidoglycan synthesis by membrane-reconstituted penicillin binding proteins. <i>eLife</i>. 2021;10. doi:<a href=\"https://doi.org/10.7554/eLife.61525\">10.7554/eLife.61525</a>","apa":"Hernández-Rocamora, V. M., Baranova, N. S., Peters, K., Breukink, E., Loose, M., &#38; Vollmer, W. (2021). Real time monitoring of peptidoglycan synthesis by membrane-reconstituted penicillin binding proteins. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.61525\">https://doi.org/10.7554/eLife.61525</a>","chicago":"Hernández-Rocamora, Víctor M., Natalia S. Baranova, Katharina Peters, Eefjan Breukink, Martin Loose, and Waldemar Vollmer. “Real Time Monitoring of Peptidoglycan Synthesis by Membrane-Reconstituted Penicillin Binding Proteins.” <i>ELife</i>. eLife Sciences Publications, 2021. <a href=\"https://doi.org/10.7554/eLife.61525\">https://doi.org/10.7554/eLife.61525</a>."},"year":"2021","date_published":"2021-02-24T00:00:00Z","oa":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"quality_controlled":"1","intvolume":"        10","abstract":[{"text":"Peptidoglycan is an essential component of the bacterial cell envelope that surrounds the cytoplasmic membrane to protect the cell from osmotic lysis. Important antibiotics such as β-lactams and glycopeptides target peptidoglycan biosynthesis. Class A penicillin-binding proteins (PBPs) are bifunctional membrane-bound peptidoglycan synthases that polymerize glycan chains and connect adjacent stem peptides by transpeptidation. How these enzymes work in their physiological membrane environment is poorly understood. Here, we developed a novel Förster resonance energy transfer-based assay to follow in real time both reactions of class A PBPs reconstituted in liposomes or supported lipid bilayers and applied this assay with PBP1B homologues from Escherichia coli, Pseudomonas aeruginosa, and Acinetobacter baumannii in the presence or absence of their cognate lipoprotein activator. Our assay will allow unravelling the mechanisms of peptidoglycan synthesis in a lipid-bilayer environment and can be further developed to be used for high-throughput screening for new antimicrobials.","lang":"eng"}],"date_created":"2021-03-14T23:01:33Z","publication":"eLife","article_type":"original","title":"Real time monitoring of peptidoglycan synthesis by membrane-reconstituted penicillin binding proteins","ec_funded":1,"volume":10,"day":"24","publisher":"eLife Sciences Publications","_id":"9243","ddc":["570"]},{"oa_version":"Published Version","type":"journal_article","doi":"10.1007/s00205-021-01616-9","publication_status":"published","status":"public","isi":1,"department":[{"_id":"RoSe"}],"date_updated":"2025-06-12T06:35:22Z","article_processing_charge":"No","author":[{"last_name":"Leopold","full_name":"Leopold, Nikolai K","first_name":"Nikolai K","id":"4BC40BEC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0495-6822"},{"id":"cbddacee-2b11-11eb-a02e-a2e14d04e52d","first_name":"David Johannes","last_name":"Mitrouskas","full_name":"Mitrouskas, David Johannes"},{"first_name":"Robert","orcid":"0000-0002-6781-0521","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","full_name":"Seiringer, Robert"}],"project":[{"call_identifier":"H2020","name":"Analysis of quantum many-body systems","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","grant_number":"694227"}],"file_date_updated":"2021-03-22T08:31:29Z","scopus_import":"1","language":[{"iso":"eng"}],"has_accepted_license":"1","citation":{"ieee":"N. K. Leopold, D. J. Mitrouskas, and R. Seiringer, “Derivation of the Landau–Pekar equations in a many-body mean-field limit,” <i>Archive for Rational Mechanics and Analysis</i>, vol. 240. Springer Nature, pp. 383–417, 2021.","ista":"Leopold NK, Mitrouskas DJ, Seiringer R. 2021. Derivation of the Landau–Pekar equations in a many-body mean-field limit. Archive for Rational Mechanics and Analysis. 240, 383–417.","short":"N.K. Leopold, D.J. Mitrouskas, R. Seiringer, Archive for Rational Mechanics and Analysis 240 (2021) 383–417.","mla":"Leopold, Nikolai K., et al. “Derivation of the Landau–Pekar Equations in a Many-Body Mean-Field Limit.” <i>Archive for Rational Mechanics and Analysis</i>, vol. 240, Springer Nature, 2021, pp. 383–417, doi:<a href=\"https://doi.org/10.1007/s00205-021-01616-9\">10.1007/s00205-021-01616-9</a>.","apa":"Leopold, N. K., Mitrouskas, D. J., &#38; Seiringer, R. (2021). Derivation of the Landau–Pekar equations in a many-body mean-field limit. <i>Archive for Rational Mechanics and Analysis</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00205-021-01616-9\">https://doi.org/10.1007/s00205-021-01616-9</a>","chicago":"Leopold, Nikolai K, David Johannes Mitrouskas, and Robert Seiringer. “Derivation of the Landau–Pekar Equations in a Many-Body Mean-Field Limit.” <i>Archive for Rational Mechanics and Analysis</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/s00205-021-01616-9\">https://doi.org/10.1007/s00205-021-01616-9</a>.","ama":"Leopold NK, Mitrouskas DJ, Seiringer R. Derivation of the Landau–Pekar equations in a many-body mean-field limit. <i>Archive for Rational Mechanics and Analysis</i>. 2021;240:383-417. doi:<a href=\"https://doi.org/10.1007/s00205-021-01616-9\">10.1007/s00205-021-01616-9</a>"},"publication_identifier":{"eissn":["1432-0673"],"issn":["0003-9527"]},"external_id":{"pmid":["33785964"],"isi":["000622226200001"],"arxiv":["2001.03993"]},"page":"383-417","file":[{"date_updated":"2021-03-22T08:31:29Z","file_name":"2021_ArchRationalMechAnal_Leopold.pdf","checksum":"23449e44dc5132501a5c86e70638800f","relation":"main_file","file_size":558006,"file_id":"9270","date_created":"2021-03-22T08:31:29Z","access_level":"open_access","success":1,"creator":"dernst","content_type":"application/pdf"}],"acknowledgement":"Financial support by the European Research Council (ERC) under the\r\nEuropean Union’s Horizon 2020 research and innovation programme (Grant Agreement\r\nNo 694227; N.L and R.S.), the SNSF Eccellenza Project PCEFP2 181153 (N.L) and the\r\nDeutsche Forschungsgemeinschaft (DFG) through the Research TrainingGroup 1838: Spectral\r\nTheory and Dynamics of Quantum Systems (D.M.) is gratefully acknowledged. N.L.\r\ngratefully acknowledges support from the NCCRSwissMAP and would like to thank Simone\r\nRademacher and Benjamin Schlein for interesting discussions about the time-evolution of\r\nthe polaron at strong coupling. D.M. thanks Marcel Griesemer and Andreas Wünsch for\r\nextensive discussions about the Fröhlich polaron.","month":"02","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","quality_controlled":"1","intvolume":"       240","abstract":[{"lang":"eng","text":"We consider the Fröhlich Hamiltonian in a mean-field limit where many bosonic particles weakly couple to the quantized phonon field. For large particle numbers and a suitably small coupling, we show that the dynamics of the system is approximately described by the Landau–Pekar equations. These describe a Bose–Einstein condensate interacting with a classical polarization field, whose dynamics is effected by the condensate, i.e., the back-reaction of the phonons that are created by the particles during the time evolution is of leading order."}],"date_created":"2021-03-14T23:01:34Z","year":"2021","date_published":"2021-02-26T00:00:00Z","oa":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"day":"26","publisher":"Springer Nature","arxiv":1,"_id":"9246","pmid":1,"ddc":["510"],"publication":"Archive for Rational Mechanics and Analysis","title":"Derivation of the Landau–Pekar equations in a many-body mean-field limit","article_type":"original","ec_funded":1,"volume":240},{"ddc":["570"],"pmid":1,"_id":"9252","day":"01","publisher":"Wiley","volume":75,"title":"Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary model","article_type":"original","keyword":["Genetics","Ecology","Evolution","Behavior and Systematics","General Agricultural and Biological Sciences"],"publication":"Evolution","date_created":"2021-03-20T08:22:10Z","intvolume":"        75","abstract":[{"lang":"eng","text":"This paper analyses the conditions for local adaptation in a metapopulation with infinitely many islands under a model of hard selection, where population size depends on local fitness. Each island belongs to one of two distinct ecological niches or habitats. Fitness is influenced by an additive trait which is under habitat‐dependent directional selection. Our analysis is based on the diffusion approximation and accounts for both genetic drift and demographic stochasticity. By neglecting linkage disequilibria, it yields the joint distribution of allele frequencies and population size on each island. We find that under hard selection, the conditions for local adaptation in a rare habitat are more restrictive for more polygenic traits: even moderate migration load per locus at very many loci is sufficient for population sizes to decline. This further reduces the efficacy of selection at individual loci due to increased drift and because smaller populations are more prone to swamping due to migration, causing a positive feedback between increasing maladaptation and declining population sizes. Our analysis also highlights the importance of demographic stochasticity, which exacerbates the decline in numbers of maladapted populations, leading to population collapse in the rare habitat at significantly lower migration than predicted by deterministic arguments."}],"quality_controlled":"1","tmp":{"short":"CC BY-NC-ND (4.0)","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"},"oa":1,"date_published":"2021-05-01T00:00:00Z","issue":"5","year":"2021","has_accepted_license":"1","citation":{"short":"E. Szep, H. Sachdeva, N.H. Barton, Evolution 75 (2021) 1030–1045.","ieee":"E. Szep, H. Sachdeva, and N. H. Barton, “Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary model,” <i>Evolution</i>, vol. 75, no. 5. Wiley, pp. 1030–1045, 2021.","ista":"Szep E, Sachdeva H, Barton NH. 2021. Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary model. Evolution. 75(5), 1030–1045.","mla":"Szep, Eniko, et al. “Polygenic Local Adaptation in Metapopulations: A Stochastic Eco‐evolutionary Model.” <i>Evolution</i>, vol. 75, no. 5, Wiley, 2021, pp. 1030–45, doi:<a href=\"https://doi.org/10.1111/evo.14210\">10.1111/evo.14210</a>.","ama":"Szep E, Sachdeva H, Barton NH. Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary model. <i>Evolution</i>. 2021;75(5):1030-1045. doi:<a href=\"https://doi.org/10.1111/evo.14210\">10.1111/evo.14210</a>","apa":"Szep, E., Sachdeva, H., &#38; Barton, N. H. (2021). Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary model. <i>Evolution</i>. Wiley. <a href=\"https://doi.org/10.1111/evo.14210\">https://doi.org/10.1111/evo.14210</a>","chicago":"Szep, Eniko, Himani Sachdeva, and Nicholas H Barton. “Polygenic Local Adaptation in Metapopulations: A Stochastic Eco‐evolutionary Model.” <i>Evolution</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/evo.14210\">https://doi.org/10.1111/evo.14210</a>."},"language":[{"iso":"eng"}],"scopus_import":"1","file_date_updated":"2021-08-11T13:39:19Z","corr_author":"1","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","month":"05","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"isi":["000636966300001"],"pmid":["33742441"]},"related_material":{"record":[{"relation":"research_data","status":"public","id":"13062"}]},"file":[{"content_type":"application/pdf","creator":"kschuh","file_id":"9886","access_level":"open_access","success":1,"date_created":"2021-08-11T13:39:19Z","relation":"main_file","checksum":"b90fb5767d623602046fed03725e16ca","file_size":734102,"file_name":"2021_Evolution_Szep.pdf","date_updated":"2021-08-11T13:39:19Z"}],"acknowledgement":"We thank the reviewers for their helpful comments, and also our colleagues, for illuminating discussions over the long gestation of this paper.","page":"1030-1045","publication_identifier":{"eissn":["1558-5646"],"issn":["0014-3820"]},"isi":1,"status":"public","doi":"10.1111/evo.14210","publication_status":"published","oa_version":"Published Version","type":"journal_article","author":[{"full_name":"Szep, Eniko","last_name":"Szep","first_name":"Eniko","id":"485BB5A4-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Himani","id":"42377A0A-F248-11E8-B48F-1D18A9856A87","full_name":"Sachdeva, Himani","last_name":"Sachdeva"},{"first_name":"Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","last_name":"Barton"}],"article_processing_charge":"Yes (via OA deal)","date_updated":"2025-06-12T06:35:39Z","department":[{"_id":"NiBa"}]},{"conference":{"end_date":"2020-12-13","start_date":"2020-12-10","location":"Atlanta, GA, United States","name":"Big Data: International Conference on Big Data"},"month":"03","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"isbn":["9781728162515"]},"external_id":{"isi":["000662554703032"],"arxiv":["2008.10064"]},"page":"3123-3132","language":[{"iso":"eng"}],"citation":{"chicago":"Heiler, Georg, Tobias Reisch, Jan Hurt, Mohammad Forghani, Aida Omani, Allan Hanbury, and Farid Karimipour. “Country-Wide Mobility Changes Observed Using Mobile Phone Data during COVID-19 Pandemic.” In <i>2020 IEEE International Conference on Big Data</i>, 3123–32. IEEE, 2021. <a href=\"https://doi.org/10.1109/bigdata50022.2020.9378374\">https://doi.org/10.1109/bigdata50022.2020.9378374</a>.","apa":"Heiler, G., Reisch, T., Hurt, J., Forghani, M., Omani, A., Hanbury, A., &#38; Karimipour, F. (2021). Country-wide mobility changes observed using mobile phone data during COVID-19 pandemic. In <i>2020 IEEE International Conference on Big Data</i> (pp. 3123–3132). Atlanta, GA, United States: IEEE. <a href=\"https://doi.org/10.1109/bigdata50022.2020.9378374\">https://doi.org/10.1109/bigdata50022.2020.9378374</a>","ama":"Heiler G, Reisch T, Hurt J, et al. Country-wide mobility changes observed using mobile phone data during COVID-19 pandemic. In: <i>2020 IEEE International Conference on Big Data</i>. IEEE; 2021:3123-3132. doi:<a href=\"https://doi.org/10.1109/bigdata50022.2020.9378374\">10.1109/bigdata50022.2020.9378374</a>","mla":"Heiler, Georg, et al. “Country-Wide Mobility Changes Observed Using Mobile Phone Data during COVID-19 Pandemic.” <i>2020 IEEE International Conference on Big Data</i>, IEEE, 2021, pp. 3123–32, doi:<a href=\"https://doi.org/10.1109/bigdata50022.2020.9378374\">10.1109/bigdata50022.2020.9378374</a>.","ieee":"G. Heiler <i>et al.</i>, “Country-wide mobility changes observed using mobile phone data during COVID-19 pandemic,” in <i>2020 IEEE International Conference on Big Data</i>, Atlanta, GA, United States, 2021, pp. 3123–3132.","short":"G. Heiler, T. Reisch, J. Hurt, M. Forghani, A. Omani, A. Hanbury, F. Karimipour, in:, 2020 IEEE International Conference on Big Data, IEEE, 2021, pp. 3123–3132.","ista":"Heiler G, Reisch T, Hurt J, Forghani M, Omani A, Hanbury A, Karimipour F. 2021. Country-wide mobility changes observed using mobile phone data during COVID-19 pandemic. 2020 IEEE International Conference on Big Data. Big Data: International Conference on Big Data, 3123–3132."},"scopus_import":"1","article_processing_charge":"No","author":[{"first_name":"Georg","full_name":"Heiler, Georg","last_name":"Heiler"},{"first_name":"Tobias","last_name":"Reisch","full_name":"Reisch, Tobias"},{"first_name":"Jan","last_name":"Hurt","full_name":"Hurt, Jan"},{"first_name":"Mohammad","last_name":"Forghani","full_name":"Forghani, Mohammad"},{"full_name":"Omani, Aida","last_name":"Omani","first_name":"Aida"},{"last_name":"Hanbury","full_name":"Hanbury, Allan","first_name":"Allan"},{"orcid":"0000-0001-6746-4174","id":"2A2BCDC4-CF62-11E9-BE5E-3B1EE6697425","first_name":"Farid","full_name":"Karimipour, Farid","last_name":"Karimipour"}],"department":[{"_id":"HeEd"}],"date_updated":"2023-08-07T14:00:13Z","status":"public","isi":1,"oa_version":"Preprint","type":"conference","doi":"10.1109/bigdata50022.2020.9378374","publication_status":"published","title":"Country-wide mobility changes observed using mobile phone data during COVID-19 pandemic","publication":"2020 IEEE International Conference on Big Data","day":"19","publisher":"IEEE","arxiv":1,"_id":"9253","oa":1,"year":"2021","date_published":"2021-03-19T00:00:00Z","quality_controlled":"1","main_file_link":[{"url":"https://arxiv.org/abs/2008.10064","open_access":"1"}],"abstract":[{"text":"In March 2020, the Austrian government introduced a widespread lock-down in response to the COVID-19 pandemic. Based on subjective impressions and anecdotal evidence, Austrian public and private life came to a sudden halt. Here we assess the effect of the lock-down quantitatively for all regions in Austria and present an analysis of daily changes of human mobility throughout Austria using near-real-time anonymized mobile phone data. We describe an efficient data aggregation pipeline and analyze the mobility by quantifying mobile-phone traffic at specific point of interests (POIs), analyzing individual trajectories and investigating the cluster structure of the origin-destination graph. We found a reduction of commuters at Viennese metro stations of over 80% and the number of devices with a radius of gyration of less than 500 m almost doubled. The results of studying crowd-movement behavior highlight considerable changes in the structure of mobility networks, revealed by a higher modularity and an increase from 12 to 20 detected communities. We demonstrate the relevance of mobility data for epidemiological studies by showing a significant correlation of the outflow from the town of Ischgl (an early COVID-19 hotspot) and the reported COVID-19 cases with an 8-day time lag. This research indicates that mobile phone usage data permits the moment-by-moment quantification of mobility behavior for a whole country. We emphasize the need to improve the availability of such data in anonymized form to empower rapid response to combat COVID-19 and future pandemics.","lang":"eng"}],"date_created":"2021-03-21T11:34:07Z"},{"article_type":"original","title":"Semi-device-independent random number generation with flexible assumptions","volume":7,"publication":"npj Quantum Information","ddc":["530"],"publisher":"Springer Nature","day":"15","_id":"9255","oa":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"year":"2021","date_published":"2021-03-15T00:00:00Z","quality_controlled":"1","date_created":"2021-03-21T23:01:19Z","abstract":[{"lang":"eng","text":"Our ability to trust that a random number is truly random is essential for fields as diverse as cryptography and fundamental tests of quantum mechanics. Existing solutions both come with drawbacks—device-independent quantum random number generators (QRNGs) are highly impractical and standard semi-device-independent QRNGs are limited to a specific physical implementation and level of trust. Here we propose a framework for semi-device-independent randomness certification, using a source of trusted vacuum in the form of a signal shutter. It employs a flexible set of assumptions and levels of trust, allowing it to be applied in a wide range of physical scenarios involving both quantum and classical entropy sources. We experimentally demonstrate our protocol with a photonic setup and generate secure random bits under three different assumptions with varying degrees of security and resulting data rates."}],"intvolume":"         7","month":"03","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"eissn":["2056-6387"]},"file":[{"file_name":"2021_NPJQuantumInformation_Pivoluska.pdf","date_updated":"2021-03-22T11:09:34Z","file_size":1360271,"relation":"main_file","checksum":"26d3f2a2c8c8fa8c1002028326b45f64","access_level":"open_access","success":1,"date_created":"2021-03-22T11:09:34Z","file_id":"9274","content_type":"application/pdf","creator":"dernst"}],"acknowledgement":"We would like to thank Robert Fickler for discussions about the experimental realization and Marek Sýs for running the NIST randomness test on the data we acquired in the experiment. We would like to thank Ugo Zanforlin, Gerald Buller, Daniel White, and Cristian Bonato for their help with the experiment. M. Pivoluska, M. Plesch, and M.M. acknowledge Czech-Austrian project MultiQUEST (I3053-N27 and GF17-33780L). M. Pivoluska and M. Plesch additionally acknowledge the support of VEGA project 2/0136/19. M.F. acknowledges support from the Polish NCN grant Sonata UMO-2014/14/E/ST2/00020, the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program ERC AdG CERQUTE (grant agreement No 834266), the State Research Agency (AEI) TRANQI (PID2019-106888GB-I00/10.13039/501100011033), the Government of Spain (FIS2020-TRANQI; Severo Ochoa CEX2019-000910-S), Fundació Cellex, Fundació Mir-Puig, and Generalitat de Catalunya (CERCA, AGAUR). M.M., W.M., N.H.V., and C.F. acknowledge support from the QuantERA ERA-NET Co-fund (FWF Project I3773-N36) and the UK Engineering and Physical Sciences Research Council (EPSRC) (EP/P024114/1).","external_id":{"isi":["000629173100001"]},"language":[{"iso":"eng"}],"citation":{"ama":"Pivoluska M, Plesch M, Farkas M, et al. Semi-device-independent random number generation with flexible assumptions. <i>npj Quantum Information</i>. 2021;7. doi:<a href=\"https://doi.org/10.1038/s41534-021-00387-1\">10.1038/s41534-021-00387-1</a>","apa":"Pivoluska, M., Plesch, M., Farkas, M., Ruzickova, N., Flegel, C., Valencia, N. H., … Aguilar, E. A. (2021). Semi-device-independent random number generation with flexible assumptions. <i>Npj Quantum Information</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41534-021-00387-1\">https://doi.org/10.1038/s41534-021-00387-1</a>","chicago":"Pivoluska, Matej, Martin Plesch, Máté Farkas, Natalia Ruzickova, Clara Flegel, Natalia Herrera Valencia, Will Mccutcheon, Mehul Malik, and Edgar A. Aguilar. “Semi-Device-Independent Random Number Generation with Flexible Assumptions.” <i>Npj Quantum Information</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1038/s41534-021-00387-1\">https://doi.org/10.1038/s41534-021-00387-1</a>.","short":"M. Pivoluska, M. Plesch, M. Farkas, N. Ruzickova, C. Flegel, N.H. Valencia, W. Mccutcheon, M. Malik, E.A. Aguilar, Npj Quantum Information 7 (2021).","ieee":"M. Pivoluska <i>et al.</i>, “Semi-device-independent random number generation with flexible assumptions,” <i>npj Quantum Information</i>, vol. 7. Springer Nature, 2021.","ista":"Pivoluska M, Plesch M, Farkas M, Ruzickova N, Flegel C, Valencia NH, Mccutcheon W, Malik M, Aguilar EA. 2021. Semi-device-independent random number generation with flexible assumptions. npj Quantum Information. 7, 50.","mla":"Pivoluska, Matej, et al. “Semi-Device-Independent Random Number Generation with Flexible Assumptions.” <i>Npj Quantum Information</i>, vol. 7, 50, Springer Nature, 2021, doi:<a href=\"https://doi.org/10.1038/s41534-021-00387-1\">10.1038/s41534-021-00387-1</a>."},"article_number":"50","has_accepted_license":"1","file_date_updated":"2021-03-22T11:09:34Z","scopus_import":"1","article_processing_charge":"No","author":[{"first_name":"Matej","last_name":"Pivoluska","full_name":"Pivoluska, Matej"},{"full_name":"Plesch, Martin","last_name":"Plesch","first_name":"Martin"},{"first_name":"Máté","last_name":"Farkas","full_name":"Farkas, Máté"},{"id":"D2761128-D73D-11E9-A1BF-BA0DE6697425","first_name":"Natalia","full_name":"Ruzickova, Natalia","last_name":"Ruzickova"},{"first_name":"Clara","last_name":"Flegel","full_name":"Flegel, Clara"},{"full_name":"Valencia, Natalia Herrera","last_name":"Valencia","first_name":"Natalia Herrera"},{"last_name":"Mccutcheon","full_name":"Mccutcheon, Will","first_name":"Will"},{"last_name":"Malik","full_name":"Malik, Mehul","first_name":"Mehul"},{"first_name":"Edgar A.","last_name":"Aguilar","full_name":"Aguilar, Edgar A."}],"department":[{"_id":"FyKo"}],"date_updated":"2023-08-07T14:17:26Z","status":"public","isi":1,"type":"journal_article","oa_version":"Published Version","publication_status":"published","doi":"10.1038/s41534-021-00387-1"},{"publication_status":"published","doi":"10.1073/pnas.2024083118","type":"journal_article","oa_version":"Published Version","isi":1,"status":"public","date_updated":"2025-05-14T10:58:42Z","department":[{"_id":"CaGo"}],"author":[{"id":"EB352CD2-F68A-11E9-89C5-A432E6697425","orcid":"0000-0002-1307-5074","first_name":"Carl Peter","last_name":"Goodrich","full_name":"Goodrich, Carl Peter"},{"full_name":"King, Ella M.","last_name":"King","first_name":"Ella M."},{"last_name":"Schoenholz","full_name":"Schoenholz, Samuel S.","first_name":"Samuel S."},{"full_name":"Cubuk, Ekin D.","last_name":"Cubuk","first_name":"Ekin D."},{"first_name":"Michael P.","last_name":"Brenner","full_name":"Brenner, Michael P."}],"article_processing_charge":"No","scopus_import":"1","file_date_updated":"2021-03-22T12:23:54Z","citation":{"short":"C.P. Goodrich, E.M. King, S.S. Schoenholz, E.D. Cubuk, M.P. Brenner, Proceedings of the National Academy of Sciences of the United States of America 118 (2021).","ista":"Goodrich CP, King EM, Schoenholz SS, Cubuk ED, Brenner MP. 2021. Designing self-assembling kinetics with differentiable statistical physics models. Proceedings of the National Academy of Sciences of the United States of America. 118(10), e2024083118.","ieee":"C. P. Goodrich, E. M. King, S. S. Schoenholz, E. D. Cubuk, and M. P. Brenner, “Designing self-assembling kinetics with differentiable statistical physics models,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 118, no. 10. National Academy of Sciences, 2021.","mla":"Goodrich, Carl Peter, et al. “Designing Self-Assembling Kinetics with Differentiable Statistical Physics Models.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 118, no. 10, e2024083118, National Academy of Sciences, 2021, doi:<a href=\"https://doi.org/10.1073/pnas.2024083118\">10.1073/pnas.2024083118</a>.","apa":"Goodrich, C. P., King, E. M., Schoenholz, S. S., Cubuk, E. D., &#38; Brenner, M. P. (2021). Designing self-assembling kinetics with differentiable statistical physics models. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2024083118\">https://doi.org/10.1073/pnas.2024083118</a>","chicago":"Goodrich, Carl Peter, Ella M. King, Samuel S. Schoenholz, Ekin D. Cubuk, and Michael P. Brenner. “Designing Self-Assembling Kinetics with Differentiable Statistical Physics Models.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2021. <a href=\"https://doi.org/10.1073/pnas.2024083118\">https://doi.org/10.1073/pnas.2024083118</a>.","ama":"Goodrich CP, King EM, Schoenholz SS, Cubuk ED, Brenner MP. Designing self-assembling kinetics with differentiable statistical physics models. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2021;118(10). doi:<a href=\"https://doi.org/10.1073/pnas.2024083118\">10.1073/pnas.2024083118</a>"},"article_number":"e2024083118","has_accepted_license":"1","language":[{"iso":"eng"}],"file":[{"relation":"main_file","checksum":"5be8da2b1c0757feb1057f1a515cf9e0","file_size":1047954,"date_updated":"2021-03-22T12:23:54Z","file_name":"2021_PNAS_Goodrich.pdf","content_type":"application/pdf","creator":"dernst","file_id":"9278","access_level":"open_access","success":1,"date_created":"2021-03-22T12:23:54Z"}],"acknowledgement":"We thank Agnese Curatolo, Megan Engel, Ofer Kimchi, Seong Ho Pahng, and Roy Frostig for helpful discussions. This material is based on work supported by NSF Graduate Research Fellowship Grant DGE1745303. This research was funded by NSF Grant DMS-1715477, Materials Research Science and Engineering Centers Grant DMR-1420570, and Office of Naval Research Grant N00014-17-1-3029. M.P.B. is an investigator of the Simons Foundation.","external_id":{"pmid":["33653960"],"isi":["000627429100097"]},"publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"03","abstract":[{"lang":"eng","text":"The inverse problem of designing component interactions to target emergent structure is fundamental to numerous applications in biotechnology, materials science, and statistical physics. Equally important is the inverse problem of designing emergent kinetics, but this has received considerably less attention. Using recent advances in automatic differentiation, we show how kinetic pathways can be precisely designed by directly differentiating through statistical physics models, namely free energy calculations and molecular dynamics simulations. We consider two systems that are crucial to our understanding of structural self-assembly: bulk crystallization and small nanoclusters. In each case, we are able to assemble precise dynamical features. Using gradient information, we manipulate interactions among constituent particles to tune the rate at which these systems yield specific structures of interest. Moreover, we use this approach to learn nontrivial features about the high-dimensional design space, allowing us to accurately predict when multiple kinetic features can be simultaneously and independently controlled. These results provide a concrete and generalizable foundation for studying nonstructural self-assembly, including kinetic properties as well as other complex emergent properties, in a vast array of systems."}],"intvolume":"       118","date_created":"2021-03-21T23:01:20Z","quality_controlled":"1","date_published":"2021-03-09T00:00:00Z","year":"2021","issue":"10","tmp":{"short":"CC BY-NC-ND (4.0)","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"},"oa":1,"_id":"9257","publisher":"National Academy of Sciences","day":"09","ddc":["530"],"pmid":1,"publication":"Proceedings of the National Academy of Sciences of the United States of America","volume":118,"title":"Designing self-assembling kinetics with differentiable statistical physics models","article_type":"original"},{"month":"03","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"issn":["1548-7091"],"eissn":["1548-7105"]},"external_id":{"isi":["000625600600007"],"pmid":["33674797"]},"acknowledgement":"We thank S. van der Walt and K. Marchuk for discussion during development. This project was funded by Packard Fellowship and Chan Zuckerberg Biohub Investigator Awards to L.W.; STROBE: A NSF Science and Technology Center; an NSF Graduate Research Fellowship awarded to H.P.; a Berkeley Institute for Data Science/UCSF Bakar Computational Health Sciences Institute Fellowship awarded to H.P. with support from the Koret Foundation, the Gordon and Betty Moore Foundation, and the Alfred P. Sloan Foundation to the University of California, Berkeley. K.W.E., B.L. and M.T. were funded by the Chan Zuckerberg Initiative and NIH grant P41GM135019.","page":"226-228","language":[{"iso":"eng"}],"citation":{"apa":"Pinkard, H., Stuurman, N., Ivanov, I. E., Anthony, N. M., Ouyang, W., Li, B., … Waller, L. (2021). Pycro-Manager: Open-source software for customized and reproducible microscope control. <i>Nature Methods</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41592-021-01087-6\">https://doi.org/10.1038/s41592-021-01087-6</a>","chicago":"Pinkard, Henry, Nico Stuurman, Ivan E. Ivanov, Nicholas M. Anthony, Wei Ouyang, Bin Li, Bin Yang, et al. “Pycro-Manager: Open-Source Software for Customized and Reproducible Microscope Control.” <i>Nature Methods</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1038/s41592-021-01087-6\">https://doi.org/10.1038/s41592-021-01087-6</a>.","ama":"Pinkard H, Stuurman N, Ivanov IE, et al. Pycro-Manager: Open-source software for customized and reproducible microscope control. <i>Nature Methods</i>. 2021;18(3):226-228. doi:<a href=\"https://doi.org/10.1038/s41592-021-01087-6\">10.1038/s41592-021-01087-6</a>","short":"H. Pinkard, N. Stuurman, I.E. Ivanov, N.M. Anthony, W. Ouyang, B. Li, B. Yang, M.A. Tsuchida, B. Chhun, G. Zhang, R. Mei, M. Anderson, D.P. Shepherd, I. Hunt-Isaak, R.L. Dunn, W. Jahr, S. Kato, L.A. Royer, J.R. Thiagarajah, K.W. Eliceiri, E. Lundberg, S.B. Mehta, L. Waller, Nature Methods 18 (2021) 226–228.","ieee":"H. Pinkard <i>et al.</i>, “Pycro-Manager: Open-source software for customized and reproducible microscope control,” <i>Nature Methods</i>, vol. 18, no. 3. Springer Nature, pp. 226–228, 2021.","ista":"Pinkard H, Stuurman N, Ivanov IE, Anthony NM, Ouyang W, Li B, Yang B, Tsuchida MA, Chhun B, Zhang G, Mei R, Anderson M, Shepherd DP, Hunt-Isaak I, Dunn RL, Jahr W, Kato S, Royer LA, Thiagarajah JR, Eliceiri KW, Lundberg E, Mehta SB, Waller L. 2021. Pycro-Manager: Open-source software for customized and reproducible microscope control. Nature Methods. 18(3), 226–228.","mla":"Pinkard, Henry, et al. “Pycro-Manager: Open-Source Software for Customized and Reproducible Microscope Control.” <i>Nature Methods</i>, vol. 18, no. 3, Springer Nature, 2021, pp. 226–28, doi:<a href=\"https://doi.org/10.1038/s41592-021-01087-6\">10.1038/s41592-021-01087-6</a>."},"scopus_import":"1","article_processing_charge":"No","author":[{"full_name":"Pinkard, Henry","last_name":"Pinkard","first_name":"Henry"},{"full_name":"Stuurman, Nico","last_name":"Stuurman","first_name":"Nico"},{"last_name":"Ivanov","full_name":"Ivanov, Ivan E.","first_name":"Ivan E."},{"full_name":"Anthony, Nicholas M.","last_name":"Anthony","first_name":"Nicholas M."},{"first_name":"Wei","last_name":"Ouyang","full_name":"Ouyang, Wei"},{"last_name":"Li","full_name":"Li, Bin","first_name":"Bin"},{"first_name":"Bin","last_name":"Yang","full_name":"Yang, Bin"},{"last_name":"Tsuchida","full_name":"Tsuchida, Mark A.","first_name":"Mark A."},{"first_name":"Bryant","last_name":"Chhun","full_name":"Chhun, Bryant"},{"last_name":"Zhang","full_name":"Zhang, Grace","first_name":"Grace"},{"first_name":"Ryan","full_name":"Mei, Ryan","last_name":"Mei"},{"first_name":"Michael","last_name":"Anderson","full_name":"Anderson, Michael"},{"first_name":"Douglas P.","full_name":"Shepherd, Douglas P.","last_name":"Shepherd"},{"last_name":"Hunt-Isaak","full_name":"Hunt-Isaak, Ian","first_name":"Ian"},{"first_name":"Raymond L.","last_name":"Dunn","full_name":"Dunn, Raymond L."},{"first_name":"Wiebke","id":"425C1CE8-F248-11E8-B48F-1D18A9856A87","full_name":"Jahr, Wiebke","last_name":"Jahr"},{"first_name":"Saul","last_name":"Kato","full_name":"Kato, Saul"},{"first_name":"Loïc A.","full_name":"Royer, Loïc A.","last_name":"Royer"},{"last_name":"Thiagarajah","full_name":"Thiagarajah, Jay R.","first_name":"Jay R."},{"full_name":"Eliceiri, Kevin W.","last_name":"Eliceiri","first_name":"Kevin W."},{"last_name":"Lundberg","full_name":"Lundberg, Emma","first_name":"Emma"},{"last_name":"Mehta","full_name":"Mehta, Shalin B.","first_name":"Shalin B."},{"last_name":"Waller","full_name":"Waller, Laura","first_name":"Laura"}],"department":[{"_id":"JoDa"}],"date_updated":"2023-08-07T14:19:08Z","status":"public","isi":1,"oa_version":"Published Version","type":"journal_article","doi":"10.1038/s41592-021-01087-6","publication_status":"published","article_type":"letter_note","title":"Pycro-Manager: Open-source software for customized and reproducible microscope control","volume":18,"publication":"Nature Methods","pmid":1,"day":"01","publisher":"Springer Nature","_id":"9258","oa":1,"issue":"3","year":"2021","date_published":"2021-03-01T00:00:00Z","quality_controlled":"1","main_file_link":[{"url":"https://doi.org/10.1038/s41592-021-01087-6","open_access":"1"}],"date_created":"2021-03-21T23:01:20Z","intvolume":"        18"},{"_id":"9259","publisher":"Frontiers","day":"25","ddc":["570"],"pmid":1,"publication":"Frontiers in Immunology","volume":12,"ec_funded":1,"title":"Shape and function of interstitial chemokine CCL21 gradients are independent of heparan sulfates produced by lymphatic endothelium","article_type":"original","date_created":"2021-03-21T23:01:20Z","intvolume":"        12","abstract":[{"text":"Gradients of chemokines and growth factors guide migrating cells and morphogenetic processes. Migration of antigen-presenting dendritic cells from the interstitium into the lymphatic system is dependent on chemokine CCL21, which is secreted by endothelial cells of the lymphatic capillary, binds heparan sulfates and forms gradients decaying into the interstitium. Despite the importance of CCL21 gradients, and chemokine gradients in general, the mechanisms of gradient formation are unclear. Studies on fibroblast growth factors have shown that limited diffusion is crucial for gradient formation. Here, we used the mouse dermis as a model tissue to address the necessity of CCL21 anchoring to lymphatic capillary heparan sulfates in the formation of interstitial CCL21 gradients. Surprisingly, the absence of lymphatic endothelial heparan sulfates resulted only in a modest decrease of CCL21 levels at the lymphatic capillaries and did neither affect interstitial CCL21 gradient shape nor dendritic cell migration toward lymphatic capillaries. Thus, heparan sulfates at the level of the lymphatic endothelium are dispensable for the formation of a functional CCL21 gradient.","lang":"eng"}],"quality_controlled":"1","date_published":"2021-02-25T00:00:00Z","year":"2021","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"oa":1,"scopus_import":"1","corr_author":"1","project":[{"grant_number":"724373","name":"Cellular Navigation Along Spatial Gradients","_id":"25FE9508-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"name":"Cytoskeletal force generation and force transduction of migrating leukocytes","_id":"25A8E5EA-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"Y 564-B12"}],"file_date_updated":"2021-03-22T12:08:26Z","citation":{"ama":"Vaahtomeri K, Moussion C, Hauschild R, Sixt MK. Shape and function of interstitial chemokine CCL21 gradients are independent of heparan sulfates produced by lymphatic endothelium. <i>Frontiers in Immunology</i>. 2021;12. doi:<a href=\"https://doi.org/10.3389/fimmu.2021.630002\">10.3389/fimmu.2021.630002</a>","apa":"Vaahtomeri, K., Moussion, C., Hauschild, R., &#38; Sixt, M. K. (2021). Shape and function of interstitial chemokine CCL21 gradients are independent of heparan sulfates produced by lymphatic endothelium. <i>Frontiers in Immunology</i>. Frontiers. <a href=\"https://doi.org/10.3389/fimmu.2021.630002\">https://doi.org/10.3389/fimmu.2021.630002</a>","chicago":"Vaahtomeri, Kari, Christine Moussion, Robert Hauschild, and Michael K Sixt. “Shape and Function of Interstitial Chemokine CCL21 Gradients Are Independent of Heparan Sulfates Produced by Lymphatic Endothelium.” <i>Frontiers in Immunology</i>. Frontiers, 2021. <a href=\"https://doi.org/10.3389/fimmu.2021.630002\">https://doi.org/10.3389/fimmu.2021.630002</a>.","ista":"Vaahtomeri K, Moussion C, Hauschild R, Sixt MK. 2021. Shape and function of interstitial chemokine CCL21 gradients are independent of heparan sulfates produced by lymphatic endothelium. Frontiers in Immunology. 12, 630002.","ieee":"K. Vaahtomeri, C. Moussion, R. Hauschild, and M. K. Sixt, “Shape and function of interstitial chemokine CCL21 gradients are independent of heparan sulfates produced by lymphatic endothelium,” <i>Frontiers in Immunology</i>, vol. 12. Frontiers, 2021.","short":"K. Vaahtomeri, C. Moussion, R. Hauschild, M.K. Sixt, Frontiers in Immunology 12 (2021).","mla":"Vaahtomeri, Kari, et al. “Shape and Function of Interstitial Chemokine CCL21 Gradients Are Independent of Heparan Sulfates Produced by Lymphatic Endothelium.” <i>Frontiers in Immunology</i>, vol. 12, 630002, Frontiers, 2021, doi:<a href=\"https://doi.org/10.3389/fimmu.2021.630002\">10.3389/fimmu.2021.630002</a>."},"article_number":"630002","has_accepted_license":"1","language":[{"iso":"eng"}],"file":[{"checksum":"663f5a48375e42afa4bfef58d42ec186","relation":"main_file","file_size":3740146,"date_updated":"2021-03-22T12:08:26Z","file_name":"2021_FrontiersImmumo_Vaahtomeri.pdf","creator":"dernst","content_type":"application/pdf","file_id":"9277","date_created":"2021-03-22T12:08:26Z","success":1,"access_level":"open_access"}],"acknowledgement":"This work was supported by Sigrid Juselius fellowship (KV), University of Helsinki 3-year research grant (KV), Academy of Finland Research fellow funding (315710, to KV), the European Research Council (ERC CoG 724373 to MS), and by the Austrian Science foundation (FWF) (Y564-B12 START award to MS).\r\nTaija Mäkinen is acknowledged for providing Prox1CreERT2 transgenic mice and Yu Yamaguchi for providing the conditional Ext1 mouse strain.","external_id":{"isi":["000627134400001"],"pmid":["33717158"]},"publication_identifier":{"eissn":["1664-3224"]},"month":"02","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_status":"published","doi":"10.3389/fimmu.2021.630002","type":"journal_article","oa_version":"Published Version","isi":1,"status":"public","date_updated":"2025-04-14T07:42:07Z","department":[{"_id":"MiSi"},{"_id":"Bio"}],"author":[{"full_name":"Vaahtomeri, Kari","last_name":"Vaahtomeri","first_name":"Kari","id":"368EE576-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7829-3518"},{"last_name":"Moussion","full_name":"Moussion, Christine","first_name":"Christine","id":"3356F664-F248-11E8-B48F-1D18A9856A87"},{"id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9843-3522","first_name":"Robert","full_name":"Hauschild, Robert","last_name":"Hauschild"},{"orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael K","full_name":"Sixt, Michael K","last_name":"Sixt"}],"article_processing_charge":"No"},{"publication_identifier":{"issn":["0025-5874"],"eissn":["1432-1823"]},"acknowledgement":"While working on this paper the authors were both supported by EPSRC grant EP/P026710/1, and the second author received additional support from the NWO Veni Grant 016.Veni.192.047. Thanks are due to Marta Pieropan, Arne Smeets and Sho Tanimoto for useful conversations related to this topic, and to the anonymous referee for numerous helpful suggestions.","page":"1071–1101","file":[{"creator":"dernst","content_type":"application/pdf","file_id":"9279","access_level":"open_access","success":1,"date_created":"2021-03-22T12:41:26Z","relation":"main_file","checksum":"8ed9f49568806894744096dbbca0ad7b","file_size":492685,"file_name":"2021_MathZeitschrift_Browning.pdf","date_updated":"2021-03-22T12:41:26Z"}],"external_id":{"isi":["000625573800002"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","month":"03","project":[{"_id":"26A8D266-B435-11E9-9278-68D0E5697425","name":"Between rational and integral points","grant_number":"EP-P026710-2"}],"file_date_updated":"2021-03-22T12:41:26Z","scopus_import":"1","language":[{"iso":"eng"}],"citation":{"apa":"Browning, T. D., &#38; Yamagishi, S. (2021). Arithmetic of higher-dimensional orbifolds and a mixed Waring problem. <i>Mathematische Zeitschrift</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00209-021-02695-w\">https://doi.org/10.1007/s00209-021-02695-w</a>","chicago":"Browning, Timothy D, and Shuntaro Yamagishi. “Arithmetic of Higher-Dimensional Orbifolds and a Mixed Waring Problem.” <i>Mathematische Zeitschrift</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/s00209-021-02695-w\">https://doi.org/10.1007/s00209-021-02695-w</a>.","ama":"Browning TD, Yamagishi S. Arithmetic of higher-dimensional orbifolds and a mixed Waring problem. <i>Mathematische Zeitschrift</i>. 2021;299:1071–1101. doi:<a href=\"https://doi.org/10.1007/s00209-021-02695-w\">10.1007/s00209-021-02695-w</a>","ista":"Browning TD, Yamagishi S. 2021. Arithmetic of higher-dimensional orbifolds and a mixed Waring problem. Mathematische Zeitschrift. 299, 1071–1101.","ieee":"T. D. Browning and S. Yamagishi, “Arithmetic of higher-dimensional orbifolds and a mixed Waring problem,” <i>Mathematische Zeitschrift</i>, vol. 299. Springer Nature, pp. 1071–1101, 2021.","short":"T.D. Browning, S. Yamagishi, Mathematische Zeitschrift 299 (2021) 1071–1101.","mla":"Browning, Timothy D., and Shuntaro Yamagishi. “Arithmetic of Higher-Dimensional Orbifolds and a Mixed Waring Problem.” <i>Mathematische Zeitschrift</i>, vol. 299, Springer Nature, 2021, pp. 1071–1101, doi:<a href=\"https://doi.org/10.1007/s00209-021-02695-w\">10.1007/s00209-021-02695-w</a>."},"has_accepted_license":"1","department":[{"_id":"TiBr"}],"date_updated":"2025-04-14T09:25:44Z","author":[{"full_name":"Browning, Timothy D","last_name":"Browning","first_name":"Timothy D","id":"35827D50-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8314-0177"},{"full_name":"Yamagishi, Shuntaro","last_name":"Yamagishi","first_name":"Shuntaro"}],"article_processing_charge":"No","type":"journal_article","oa_version":"Published Version","publication_status":"published","doi":"10.1007/s00209-021-02695-w","status":"public","isi":1,"publication":"Mathematische Zeitschrift","article_type":"original","title":"Arithmetic of higher-dimensional orbifolds and a mixed Waring problem","volume":299,"publisher":"Springer Nature","day":"05","_id":"9260","ddc":["510"],"year":"2021","date_published":"2021-03-05T00:00:00Z","oa":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"quality_controlled":"1","intvolume":"       299","abstract":[{"lang":"eng","text":"We study the density of rational points on a higher-dimensional orbifold (Pn−1,Δ) when Δ is a Q-divisor involving hyperplanes. This allows us to address a question of Tanimoto about whether the set of rational points on such an orbifold constitutes a thin set. Our approach relies on the Hardy–Littlewood circle method to first study an asymptotic version of Waring’s problem for mixed powers. In doing so we make crucial use of the recent resolution of the main conjecture in Vinogradov’s mean value theorem, due to Bourgain–Demeter–Guth and Wooley."}],"date_created":"2021-03-21T23:01:21Z"},{"publication_identifier":{"issn":["2375-2548"]},"external_id":{"pmid":["33741589"],"isi":["000633443000011"]},"file":[{"date_updated":"2021-03-22T12:49:00Z","file_name":"2021_ScienceAdv_Mbianda.pdf","file_size":837156,"relation":"main_file","checksum":"737624cd0e630ffa7c52797a690500e3","access_level":"open_access","success":1,"date_created":"2021-03-22T12:49:00Z","file_id":"9280","content_type":"application/pdf","creator":"dernst"}],"acknowledgement":"We thank the Synchrotron SOLEIL, the European Synchrotron Radiation Facility (ESRF), and the French Infrastructure for Integrated Structural Biology (FRISBI) ANR-10-INBS-05. We are particularly grateful to A. Clavier and A. Campalans for help in setting up and performing the cell penetration assays. Funding: Research was funded by the French Centre National de Recherche Scientifique (CNRS), the Commissariat à l’Energie Atomique (CEA), University of Bordeaux, University Paris-Saclay, and the Synchrotron Soleil. The project was supported by the ANR 2007 BREAKABOUND (JC-07-216078), 2011 BIPBIP (ANR-10-BINF-0003), 2012 CHAPINHIB (ANR-12-BSV5-0022-01), 2015 CHIPSET (ANR-15-CE11-008-01), 2015 HIMPP2I (ANR-15-CE07-0010), and the program labeled by the ARC foundation 2016 PGA1*20160203953). M.B. was supported by Canceropole (Paris, France) and a grant for young researchers from La Ligue contre le Cancer. J.M. was supported by La Ligue contre le Cancer.","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","month":"03","file_date_updated":"2021-03-22T12:49:00Z","license":"https://creativecommons.org/licenses/by-nc/4.0/","language":[{"iso":"eng"}],"article_number":"eabd9153","has_accepted_license":"1","citation":{"short":"J. Mbianda, M.M. Bakail, C. André, G. Moal, M.E. Perrin, G. Pinna, R. Guerois, F. Becher, P. Legrand, S. Traoré, C. Douat, G. Guichard, F. Ochsenbein, Science Advances 7 (2021).","ista":"Mbianda J, Bakail MM, André C, Moal G, Perrin ME, Pinna G, Guerois R, Becher F, Legrand P, Traoré S, Douat C, Guichard G, Ochsenbein F. 2021. Optimal anchoring of a foldamer inhibitor of ASF1 histone chaperone through backbone plasticity. Science Advances. 7(12), eabd9153.","ieee":"J. Mbianda <i>et al.</i>, “Optimal anchoring of a foldamer inhibitor of ASF1 histone chaperone through backbone plasticity,” <i>Science Advances</i>, vol. 7, no. 12. American Association for the Advancement of Science, 2021.","mla":"Mbianda, Johanne, et al. “Optimal Anchoring of a Foldamer Inhibitor of ASF1 Histone Chaperone through Backbone Plasticity.” <i>Science Advances</i>, vol. 7, no. 12, eabd9153, American Association for the Advancement of Science, 2021, doi:<a href=\"https://doi.org/10.1126/sciadv.abd9153\">10.1126/sciadv.abd9153</a>.","ama":"Mbianda J, Bakail MM, André C, et al. Optimal anchoring of a foldamer inhibitor of ASF1 histone chaperone through backbone plasticity. <i>Science Advances</i>. 2021;7(12). doi:<a href=\"https://doi.org/10.1126/sciadv.abd9153\">10.1126/sciadv.abd9153</a>","apa":"Mbianda, J., Bakail, M. M., André, C., Moal, G., Perrin, M. E., Pinna, G., … Ochsenbein, F. (2021). Optimal anchoring of a foldamer inhibitor of ASF1 histone chaperone through backbone plasticity. <i>Science Advances</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/sciadv.abd9153\">https://doi.org/10.1126/sciadv.abd9153</a>","chicago":"Mbianda, Johanne, May M Bakail, Christophe André, Gwenaëlle Moal, Marie E. Perrin, Guillaume Pinna, Raphaël Guerois, et al. “Optimal Anchoring of a Foldamer Inhibitor of ASF1 Histone Chaperone through Backbone Plasticity.” <i>Science Advances</i>. American Association for the Advancement of Science, 2021. <a href=\"https://doi.org/10.1126/sciadv.abd9153\">https://doi.org/10.1126/sciadv.abd9153</a>."},"department":[{"_id":"CampIT"}],"date_updated":"2023-08-07T14:20:26Z","author":[{"full_name":"Mbianda, Johanne","last_name":"Mbianda","first_name":"Johanne"},{"last_name":"Bakail","full_name":"Bakail, May M","first_name":"May M","orcid":"0000-0002-9592-1587","id":"FB3C3F8E-522F-11EA-B186-22963DDC885E"},{"first_name":"Christophe","full_name":"André, Christophe","last_name":"André"},{"first_name":"Gwenaëlle","full_name":"Moal, Gwenaëlle","last_name":"Moal"},{"first_name":"Marie E.","full_name":"Perrin, Marie E.","last_name":"Perrin"},{"last_name":"Pinna","full_name":"Pinna, Guillaume","first_name":"Guillaume"},{"first_name":"Raphaël","last_name":"Guerois","full_name":"Guerois, Raphaël"},{"last_name":"Becher","full_name":"Becher, Francois","first_name":"Francois"},{"first_name":"Pierre","full_name":"Legrand, Pierre","last_name":"Legrand"},{"first_name":"Seydou","full_name":"Traoré, Seydou","last_name":"Traoré"},{"first_name":"Céline","last_name":"Douat","full_name":"Douat, Céline"},{"first_name":"Gilles","last_name":"Guichard","full_name":"Guichard, Gilles"},{"first_name":"Françoise","full_name":"Ochsenbein, Françoise","last_name":"Ochsenbein"}],"article_processing_charge":"No","oa_version":"Published Version","type":"journal_article","doi":"10.1126/sciadv.abd9153","publication_status":"published","status":"public","isi":1,"publication":"Science Advances","article_type":"original","title":"Optimal anchoring of a foldamer inhibitor of ASF1 histone chaperone through backbone plasticity","volume":7,"day":"19","publisher":"American Association for the Advancement of Science","_id":"9262","pmid":1,"ddc":["570"],"issue":"12","year":"2021","date_published":"2021-03-19T00:00:00Z","oa":1,"tmp":{"short":"CC BY-NC (4.0)","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","image":"/images/cc_by_nc.png"},"quality_controlled":"1","abstract":[{"lang":"eng","text":"Sequence-specific oligomers with predictable folding patterns, i.e., foldamers, provide new opportunities to mimic α-helical peptides and design inhibitors of protein-protein interactions. One major hurdle of this strategy is to retain the correct orientation of key side chains involved in protein surface recognition. Here, we show that the structural plasticity of a foldamer backbone may notably contribute to the required spatial adjustment for optimal interaction with the protein surface. By using oligoureas as α helix mimics, we designed a foldamer/peptide hybrid inhibitor of histone chaperone ASF1, a key regulator of chromatin dynamics. The crystal structure of its complex with ASF1 reveals a notable plasticity of the urea backbone, which adapts to the ASF1 surface to maintain the same binding interface. One additional benefit of generating ASF1 ligands with nonpeptide oligourea segments is the resistance to proteolysis in human plasma, which was highly improved compared to the cognate α-helical peptide."}],"date_created":"2021-03-22T07:14:03Z","intvolume":"         7"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"03","title":"Formal verification of Zagier's one-sentence proof","ec_funded":1,"external_id":{"arxiv":["2103.11389"]},"related_material":{"record":[{"status":"public","relation":"other","id":"9946"}]},"publication":"arXiv","article_number":"2103.11389","citation":{"short":"G. Dubach, F. Mühlböck, ArXiv (n.d.).","ieee":"G. Dubach and F. Mühlböck, “Formal verification of Zagier’s one-sentence proof,” <i>arXiv</i>. .","ista":"Dubach G, Mühlböck F. Formal verification of Zagier’s one-sentence proof. arXiv, 2103.11389.","mla":"Dubach, Guillaume, and Fabian Mühlböck. “Formal Verification of Zagier’s One-Sentence Proof.” <i>ArXiv</i>, 2103.11389, doi:<a href=\"https://doi.org/10.48550/arXiv.2103.11389\">10.48550/arXiv.2103.11389</a>.","ama":"Dubach G, Mühlböck F. Formal verification of Zagier’s one-sentence proof. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2103.11389\">10.48550/arXiv.2103.11389</a>","apa":"Dubach, G., &#38; Mühlböck, F. (n.d.). Formal verification of Zagier’s one-sentence proof. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2103.11389\">https://doi.org/10.48550/arXiv.2103.11389</a>","chicago":"Dubach, Guillaume, and Fabian Mühlböck. “Formal Verification of Zagier’s One-Sentence Proof.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2103.11389\">https://doi.org/10.48550/arXiv.2103.11389</a>."},"language":[{"iso":"eng"}],"_id":"9281","day":"21","project":[{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"}],"arxiv":1,"corr_author":"1","article_processing_charge":"No","author":[{"full_name":"Dubach, Guillaume","last_name":"Dubach","first_name":"Guillaume","id":"D5C6A458-10C4-11EA-ABF4-A4B43DDC885E","orcid":"0000-0001-6892-8137"},{"last_name":"Mühlböck","full_name":"Mühlböck, Fabian","first_name":"Fabian","id":"6395C5F6-89DF-11E9-9C97-6BDFE5697425","orcid":"0000-0003-1548-0177"}],"oa":1,"date_updated":"2025-04-15T06:26:12Z","date_published":"2021-03-21T00:00:00Z","department":[{"_id":"LaEr"},{"_id":"ToHe"}],"year":"2021","status":"public","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2103.11389"}],"doi":"10.48550/arXiv.2103.11389","date_created":"2021-03-23T05:38:48Z","publication_status":"submitted","abstract":[{"text":"We comment on two formal proofs of Fermat's sum of two squares theorem, written using the Mathematical Components libraries of the Coq proof assistant. The first one follows Zagier's celebrated one-sentence proof; the second follows David Christopher's recent new proof relying on partition-theoretic arguments. Both formal proofs rely on a general property of involutions of finite sets, of independent interest. The proof technique consists for the most part of automating recurrent tasks (such as case distinctions and computations on natural numbers) via ad hoc tactics.","lang":"eng"}],"oa_version":"Preprint","type":"preprint"}]