[{"date_updated":"2026-06-18T07:57:21Z","publisher":"Springer Nature","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","month":"11","date_published":"2022-11-23T00:00:00Z","das_tickbox":"1","scopus_import":"1","main_file_link":[{"url":" https://doi.org/10.48550/arXiv.2103.09114","open_access":"1"}],"status":"public","volume":168,"title":"On a question of Vera T. Sós about size forcing of graphons","day":"23","department":[{"_id":"MaKw"}],"author":[{"full_name":"Cooley, Oliver","last_name":"Cooley","id":"43f4ddd0-a46b-11ec-8df6-ef3703bd721d","first_name":"Oliver"},{"full_name":"Kang, M.","first_name":"M.","last_name":"Kang"},{"first_name":"O.","last_name":"Pikhurko","full_name":"Pikhurko, O."}],"publication":"Acta Mathematica Hungarica","_id":"12151","article_processing_charge":"No","type":"journal_article","date_created":"2023-01-12T12:07:59Z","oa_version":"Preprint","keyword":["graphon","k-sample","graphon forcing","graph container"],"abstract":[{"lang":"eng","text":"The k-sample G(k,W) from a graphon W:[0,1]2→[0,1] is the random graph on {1,…,k}, where we sample x1,…,xk∈[0,1] uniformly at random and make each pair {i,j}⊆{1,…,k} an edge with probability W(xi,xj), with all these choices being mutually independent. Let the random variable Xk(W) be the number of edges in  G(k,W). Vera T. Sós asked in 2012 whether two graphons U, W are necessarily weakly isomorphic if the random variables Xk(U) and Xk(W) have the same distribution for every integer k≥2. This question when one of the graphons W is a constant function was answered positively by Endre Csóka and independently by Jacob Fox, Tomasz Łuczak and Vera T. Sós. Here we investigate the question when W is a 2-step graphon and prove that the answer is positive for a 3-dimensional family of such graphons. We also present some related results."}],"ddc":["500"],"oa":1,"external_id":{"isi":["000886839900006"],"arxiv":["2103.09114"]},"page":"1-26","isi":1,"intvolume":"       168","arxiv":1,"publication_identifier":{"eissn":["1588-2632"],"issn":["0236-5294"]},"language":[{"iso":"eng"}],"year":"2022","acknowledgement":"Supported by Austrian Science Fund (FWF) Grant I3747. Supported by ERC Advanced Grant 101020255 and Leverhulme Research Project Grant RPG-2018-424.\r\nAn extended abstract of this paper appeared in the Proceedings of the European Conference\r\non Combinatorics, Graph Theory and Applications (EuroComb 2021), CRM Research Perspectives, Springer.","quality_controlled":"1","doi":"10.1007/s10474-022-01265-8","citation":{"ama":"Cooley O, Kang M, Pikhurko O. On a question of Vera T. Sós about size forcing of graphons. <i>Acta Mathematica Hungarica</i>. 2022;168:1-26. doi:<a href=\"https://doi.org/10.1007/s10474-022-01265-8\">10.1007/s10474-022-01265-8</a>","short":"O. Cooley, M. Kang, O. Pikhurko, Acta Mathematica Hungarica 168 (2022) 1–26.","chicago":"Cooley, Oliver, M. Kang, and O. Pikhurko. “On a Question of Vera T. Sós about Size Forcing of Graphons.” <i>Acta Mathematica Hungarica</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s10474-022-01265-8\">https://doi.org/10.1007/s10474-022-01265-8</a>.","apa":"Cooley, O., Kang, M., &#38; Pikhurko, O. (2022). On a question of Vera T. Sós about size forcing of graphons. <i>Acta Mathematica Hungarica</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10474-022-01265-8\">https://doi.org/10.1007/s10474-022-01265-8</a>","mla":"Cooley, Oliver, et al. “On a Question of Vera T. Sós about Size Forcing of Graphons.” <i>Acta Mathematica Hungarica</i>, vol. 168, Springer Nature, 2022, pp. 1–26, doi:<a href=\"https://doi.org/10.1007/s10474-022-01265-8\">10.1007/s10474-022-01265-8</a>.","ieee":"O. Cooley, M. Kang, and O. Pikhurko, “On a question of Vera T. Sós about size forcing of graphons,” <i>Acta Mathematica Hungarica</i>, vol. 168. Springer Nature, pp. 1–26, 2022.","ista":"Cooley O, Kang M, Pikhurko O. 2022. On a question of Vera T. Sós about size forcing of graphons. Acta Mathematica Hungarica. 168, 1–26."}},{"isi":1,"external_id":{"isi":["000834349200010"]},"ddc":["530"],"oa":1,"abstract":[{"lang":"eng","text":"Spin-orbit coupling in thin HgTe quantum wells results in a relativistic-like electron band structure, making it a versatile solid state platform to observe and control nontrivial electrodynamic phenomena. Here we report an observation of universal terahertz (THz) transparency determined by fine-structure constant α≈1/137 in 6.5-nm-thick HgTe layer, close to the critical thickness separating phases with topologically different electronic band structure. Using THz spectroscopy in a magnetic field we obtain direct evidence of asymmetric spin splitting of the Dirac cone. This particle-hole asymmetry facilitates optical control of edge spin currents in the quantum wells."}],"file":[{"creator":"dernst","file_size":774455,"checksum":"115aff9e0cde2f806cb26953d7262791","date_updated":"2022-08-08T06:58:22Z","date_created":"2022-08-08T06:58:22Z","access_level":"open_access","file_id":"11743","relation":"main_file","file_name":"2022_PhysRevB_Dziom.pdf","content_type":"application/pdf","success":1}],"citation":{"ama":"Dziom U, Shuvaev A, Gospodarič J, et al. Universal transparency and asymmetric spin splitting near the Dirac point in HgTe quantum wells. <i>Physical Review B</i>. 2022;106(4). doi:<a href=\"https://doi.org/10.1103/PhysRevB.106.045302\">10.1103/PhysRevB.106.045302</a>","apa":"Dziom, U., Shuvaev, A., Gospodarič, J., Novik, E. G., Dobretsova, A. A., Mikhailov, N. N., … Pimenov, A. (2022). Universal transparency and asymmetric spin splitting near the Dirac point in HgTe quantum wells. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.106.045302\">https://doi.org/10.1103/PhysRevB.106.045302</a>","short":"U. Dziom, A. Shuvaev, J. Gospodarič, E.G. Novik, A.A. Dobretsova, N.N. Mikhailov, Z.D. Kvon, Z. Alpichshev, A. Pimenov, Physical Review B 106 (2022).","chicago":"Dziom, Uladzislau, A. Shuvaev, J. Gospodarič, E. G. Novik, A. A. Dobretsova, N. N. Mikhailov, Z. D. Kvon, Zhanybek Alpichshev, and A. Pimenov. “Universal Transparency and Asymmetric Spin Splitting near the Dirac Point in HgTe Quantum Wells.” <i>Physical Review B</i>. American Physical Society, 2022. <a href=\"https://doi.org/10.1103/PhysRevB.106.045302\">https://doi.org/10.1103/PhysRevB.106.045302</a>.","ieee":"U. Dziom <i>et al.</i>, “Universal transparency and asymmetric spin splitting near the Dirac point in HgTe quantum wells,” <i>Physical Review B</i>, vol. 106, no. 4. American Physical Society, 2022.","ista":"Dziom U, Shuvaev A, Gospodarič J, Novik EG, Dobretsova AA, Mikhailov NN, Kvon ZD, Alpichshev Z, Pimenov A. 2022. Universal transparency and asymmetric spin splitting near the Dirac point in HgTe quantum wells. Physical Review B. 106(4), 045302.","mla":"Dziom, Uladzislau, et al. “Universal Transparency and Asymmetric Spin Splitting near the Dirac Point in HgTe Quantum Wells.” <i>Physical Review B</i>, vol. 106, no. 4, 045302, American Physical Society, 2022, doi:<a href=\"https://doi.org/10.1103/PhysRevB.106.045302\">10.1103/PhysRevB.106.045302</a>."},"doi":"10.1103/PhysRevB.106.045302","quality_controlled":"1","acknowledgement":"This work was supported by the Austrian Science Funds (W 1243, I 3456-N27, I 5539-N).","year":"2022","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"language":[{"iso":"eng"}],"has_accepted_license":"1","intvolume":"       106","scopus_import":"1","month":"07","date_published":"2022-07-15T00:00:00Z","article_type":"original","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_status":"published","publisher":"American Physical Society","date_updated":"2026-07-02T09:51:59Z","oa_version":"Published Version","date_created":"2022-08-07T22:01:58Z","_id":"11737","issue":"4","type":"journal_article","article_processing_charge":"No","file_date_updated":"2022-08-08T06:58:22Z","publication":"Physical Review B","author":[{"orcid":"0000-0002-1648-0999","full_name":"Dziom, Uladzislau","last_name":"Dziom","first_name":"Uladzislau","id":"6A9A37C2-8C5C-11E9-AE53-F2FDE5697425"},{"full_name":"Shuvaev, A.","last_name":"Shuvaev","first_name":"A."},{"full_name":"Gospodarič, J.","first_name":"J.","last_name":"Gospodarič"},{"full_name":"Novik, E. G.","first_name":"E. G.","last_name":"Novik"},{"full_name":"Dobretsova, A. A.","last_name":"Dobretsova","first_name":"A. A."},{"full_name":"Mikhailov, N. N.","last_name":"Mikhailov","first_name":"N. N."},{"full_name":"Kvon, Z. D.","first_name":"Z. D.","last_name":"Kvon"},{"full_name":"Alpichshev, Zhanybek","orcid":"0000-0002-7183-5203","last_name":"Alpichshev","id":"45E67A2A-F248-11E8-B48F-1D18A9856A87","first_name":"Zhanybek"},{"last_name":"Pimenov","first_name":"A.","full_name":"Pimenov, A."}],"department":[{"_id":"ZhAl"}],"day":"15","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"title":"Universal transparency and asymmetric spin splitting near the Dirac point in HgTe quantum wells","volume":106,"article_number":"045302","status":"public"},{"publisher":"Oxford University Press","date_updated":"2023-05-08T11:01:18Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","month":"08","date_published":"2021-08-13T00:00:00Z","article_type":"original","scopus_import":"1","status":"public","title":"Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors","volume":72,"day":"13","department":[{"_id":"XiFe"}],"author":[{"full_name":"Ding, Pingtao","first_name":"Pingtao","last_name":"Ding"},{"last_name":"Sakai","first_name":"Toshiyuki","full_name":"Sakai, Toshiyuki"},{"full_name":"Krishna Shrestha, Ram","last_name":"Krishna Shrestha","first_name":"Ram"},{"first_name":"Nicolas","last_name":"Manosalva Perez","full_name":"Manosalva Perez, Nicolas"},{"full_name":"Guo, Wenbin","last_name":"Guo","first_name":"Wenbin"},{"last_name":"Ngou","first_name":"Bruno Pok Man","full_name":"Ngou, Bruno Pok Man"},{"full_name":"He, Shengbo","first_name":"Shengbo","last_name":"He"},{"full_name":"Liu, Chang","first_name":"Chang","last_name":"Liu"},{"last_name":"Feng","id":"e0164712-22ee-11ed-b12a-d80fcdf35958","first_name":"Xiaoqi","full_name":"Feng, Xiaoqi","orcid":"0000-0002-4008-1234"},{"full_name":"Zhang, Runxuan","first_name":"Runxuan","last_name":"Zhang"},{"full_name":"Vandepoele, Klaas","first_name":"Klaas","last_name":"Vandepoele"},{"full_name":"MacLean, Dan","first_name":"Dan","last_name":"MacLean"},{"last_name":"Jones","first_name":"Jonathan D G","full_name":"Jones, Jonathan D G"}],"type":"journal_article","_id":"12186","issue":"22","article_processing_charge":"No","publication":"Journal of Experimental Botany","oa_version":"None","date_created":"2023-01-16T09:14:35Z","abstract":[{"lang":"eng","text":"Activation of cell-surface and intracellular receptor-mediated immunity results in rapid transcriptional reprogramming that underpins disease resistance. However, the mechanisms by which co-activation of both immune systems lead to transcriptional changes are not clear. Here, we combine RNA-seq and ATAC-seq to define changes in gene expression and chromatin accessibility. Activation of cell-surface or intracellular receptor-mediated immunity, or both, increases chromatin accessibility at induced defence genes. Analysis of ATAC-seq and RNA-seq data combined with publicly available information on transcription factor DNA-binding motifs enabled comparison of individual gene regulatory networks activated by cell-surface or intracellular receptor-mediated immunity, or by both. These results and analyses reveal overlapping and conserved transcriptional regulatory mechanisms between the two immune systems."}],"keyword":["Plant Science","Physiology"],"external_id":{"pmid":["34387350"]},"page":"7927-7941","pmid":1,"intvolume":"        72","language":[{"iso":"eng"}],"publication_identifier":{"issn":["0022-0957","1460-2431"]},"year":"2021","acknowledgement":"We thank the Gatsby Foundation (UK) for funding to the JDGJ laboratory. PD acknowledges support from the European Union’s Horizon 2020 Research and Innovation Program under Marie Skłodowska Curie Actions (grant agreement: 656243) and a Future Leader Fellowship from the Biotechnology and Biological Sciences Research Council (BBSRC) (grant agreement: BB/R012172/1). TS, RKS, DM, and JDGJ were supported by the Gatsby Foundation funding to the\r\nSainsbury Laboratory. NMP and KV were supported by a BOF grant from Ghent University (grant agreement: BOF24Y2019001901). WG and RZ were supported by the Scottish Government Rural and Environment Science and Analytical Services division (RESAS), and RZ also acknowledges the support from a BBSRC Bioinformatics and Biological Resources Fund (grant agreement: BB/S020160/1).BPMN was supported by the Norwich Research Park (NRP) Biosciences Doctoral Training Partnership (DTP) funded by the BBSRC (grant agreement: BB/M011216/1). SH and XF were supported by a BBSRC Responsive Mode grant (grant agreement: BB/S009620/1) and a European Research Council Starting grant ‘SexMeth’ (grant agreement: 804981). CL was supported by Deutsche Forschungsgemeinschaft (grant agreement: LI 2862/4). ","extern":"1","doi":"10.1093/jxb/erab373","citation":{"short":"P. Ding, T. Sakai, R. Krishna Shrestha, N. Manosalva Perez, W. Guo, B.P.M. Ngou, S. He, C. Liu, X. Feng, R. Zhang, K. Vandepoele, D. MacLean, J.D.G. Jones, Journal of Experimental Botany 72 (2021) 7927–7941.","chicago":"Ding, Pingtao, Toshiyuki Sakai, Ram Krishna Shrestha, Nicolas Manosalva Perez, Wenbin Guo, Bruno Pok Man Ngou, Shengbo He, et al. “Chromatin Accessibility Landscapes Activated by Cell-Surface and Intracellular Immune Receptors.” <i>Journal of Experimental Botany</i>. Oxford University Press, 2021. <a href=\"https://doi.org/10.1093/jxb/erab373\">https://doi.org/10.1093/jxb/erab373</a>.","apa":"Ding, P., Sakai, T., Krishna Shrestha, R., Manosalva Perez, N., Guo, W., Ngou, B. P. M., … Jones, J. D. G. (2021). Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors. <i>Journal of Experimental Botany</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/jxb/erab373\">https://doi.org/10.1093/jxb/erab373</a>","mla":"Ding, Pingtao, et al. “Chromatin Accessibility Landscapes Activated by Cell-Surface and Intracellular Immune Receptors.” <i>Journal of Experimental Botany</i>, vol. 72, no. 22, Oxford University Press, 2021, pp. 7927–41, doi:<a href=\"https://doi.org/10.1093/jxb/erab373\">10.1093/jxb/erab373</a>.","ista":"Ding P, Sakai T, Krishna Shrestha R, Manosalva Perez N, Guo W, Ngou BPM, He S, Liu C, Feng X, Zhang R, Vandepoele K, MacLean D, Jones JDG. 2021. Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors. Journal of Experimental Botany. 72(22), 7927–7941.","ieee":"P. Ding <i>et al.</i>, “Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors,” <i>Journal of Experimental Botany</i>, vol. 72, no. 22. Oxford University Press, pp. 7927–7941, 2021.","ama":"Ding P, Sakai T, Krishna Shrestha R, et al. Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors. <i>Journal of Experimental Botany</i>. 2021;72(22):7927-7941. doi:<a href=\"https://doi.org/10.1093/jxb/erab373\">10.1093/jxb/erab373</a>"},"quality_controlled":"1"},{"article_processing_charge":"No","_id":"12187","type":"journal_article","issue":"6550","publication":"Science","oa_version":"None","date_created":"2023-01-16T09:15:14Z","department":[{"_id":"XiFe"}],"author":[{"full_name":"Long, Jincheng","first_name":"Jincheng","last_name":"Long"},{"last_name":"Walker","first_name":"James","full_name":"Walker, James"},{"first_name":"Wenjing","last_name":"She","full_name":"She, Wenjing"},{"full_name":"Aldridge, Billy","first_name":"Billy","last_name":"Aldridge"},{"full_name":"Gao, Hongbo","first_name":"Hongbo","last_name":"Gao"},{"full_name":"Deans, Samuel","last_name":"Deans","first_name":"Samuel"},{"last_name":"Vickers","first_name":"Martin","full_name":"Vickers, Martin"},{"last_name":"Feng","id":"e0164712-22ee-11ed-b12a-d80fcdf35958","first_name":"Xiaoqi","full_name":"Feng, Xiaoqi","orcid":"0000-0002-4008-1234"}],"day":"02","status":"public","title":"Nurse cell--derived small RNAs define paternal epigenetic inheritance in Arabidopsis","volume":373,"scopus_import":"1","month":"07","date_published":"2021-07-02T00:00:00Z","article_type":"original","publisher":"American Association for the Advancement of Science (AAAS)","date_updated":"2023-05-08T10:56:39Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","extern":"1","citation":{"apa":"Long, J., Walker, J., She, W., Aldridge, B., Gao, H., Deans, S., … Feng, X. (2021). Nurse cell--derived small RNAs define paternal epigenetic inheritance in Arabidopsis. <i>Science</i>. American Association for the Advancement of Science (AAAS). <a href=\"https://doi.org/10.1126/science.abh0556\">https://doi.org/10.1126/science.abh0556</a>","short":"J. Long, J. Walker, W. She, B. Aldridge, H. Gao, S. Deans, M. Vickers, X. Feng, Science 373 (2021).","chicago":"Long, Jincheng, James Walker, Wenjing She, Billy Aldridge, Hongbo Gao, Samuel Deans, Martin Vickers, and Xiaoqi Feng. “Nurse Cell--Derived Small RNAs Define Paternal Epigenetic Inheritance in Arabidopsis.” <i>Science</i>. American Association for the Advancement of Science (AAAS), 2021. <a href=\"https://doi.org/10.1126/science.abh0556\">https://doi.org/10.1126/science.abh0556</a>.","ista":"Long J, Walker J, She W, Aldridge B, Gao H, Deans S, Vickers M, Feng X. 2021. Nurse cell--derived small RNAs define paternal epigenetic inheritance in Arabidopsis. Science. 373(6550).","ieee":"J. Long <i>et al.</i>, “Nurse cell--derived small RNAs define paternal epigenetic inheritance in Arabidopsis,” <i>Science</i>, vol. 373, no. 6550. American Association for the Advancement of Science (AAAS), 2021.","mla":"Long, Jincheng, et al. “Nurse Cell--Derived Small RNAs Define Paternal Epigenetic Inheritance in Arabidopsis.” <i>Science</i>, vol. 373, no. 6550, American Association for the Advancement of Science (AAAS), 2021, doi:<a href=\"https://doi.org/10.1126/science.abh0556\">10.1126/science.abh0556</a>.","ama":"Long J, Walker J, She W, et al. Nurse cell--derived small RNAs define paternal epigenetic inheritance in Arabidopsis. <i>Science</i>. 2021;373(6550). doi:<a href=\"https://doi.org/10.1126/science.abh0556\">10.1126/science.abh0556</a>"},"doi":"10.1126/science.abh0556","quality_controlled":"1","acknowledgement":"We thank the John Innes Centre Bioimaging Facility (S. Lopez, E. Wegel, and K. Findlay) for their assistance with microscopy and the Norwich BioScience Institute Partnership Computing Infrastructure for Science Group for high-performance computing resources. Funding: This work was funded by a European Research Council Starting Grant (“SexMeth” 804981; J.L., J.W., and X.F.), a Sainsbury Charitable Foundation studentship (J.W.), two Biotechnology and Biological Sciences Research Council (BBSRC) grants (BBS0096201 and BBP0135111; W.S., M.V., and X.F.), two John Innes Foundation studentships (B.A. and S.D.), and a BBSRC David Phillips Fellowship (BBL0250431; H.G. and X.F.). Author contributions: J.L., J.W., and X.F. designed the study and wrote the manuscript; J.L., W.S., B.A., H.G., and S.D. performed the experiments; and J.L., J.W., B.A., H.G., S.D., M.V., and X.F. analyzed the data. Competing interests: The authors declare no competing interests. Data and material availability: All sequencing data have been deposited in the Gene Expression Omnibus (GEO) under accession no. GSE161625. Accession nos. of published datasets used in this study are listed in table S6. Published software used in this study include Bowtie v1.2.2 (https://doi.org/10.1002/0471250953.bi1107s32), Bismark v0.22.2 (https://doi.org/10.1093/bioinformatics/btr167), Kallisto v0.43.0 (https://doi.org/10.1038/nbt0816-888d), Shortstack v3.8.5 (https://doi.org/10.1534/g3.116.030452), and Cutadapt v1.15 (https://doi.org/10.1089/cmb.2017.0096). TrimGalore v0.4.1 and MarkDuplicates v1.141 are available from https://github.com/FelixKrueger/TrimGalore and https://github.com/broadinstitute/picard, respectively. All remaining data are in the main paper or the supplementary materials.","language":[{"iso":"eng"}],"publication_identifier":{"issn":["0036-8075","1095-9203"]},"year":"2021","pmid":1,"intvolume":"       373","external_id":{"pmid":["34210850"]},"keyword":["Multidisciplinary"],"abstract":[{"lang":"eng","text":"Genomes of germ cells present an existential vulnerability to organisms because germ cell mutations will propagate to future generations. Transposable elements are one source of such mutations. In the small flowering plant Arabidopsis, Long et al. found that genome methylation in the male germline is directed by small interfering RNAs (siRNAs) imperfectly transcribed from transposons (see the Perspective by Mosher). These germline siRNAs silence germline transposons and establish inherited methylation patterns in sperm, thus maintaining the integrity of the plant genome across generations."}]},{"_id":"12767","type":"conference","article_processing_charge":"No","file_date_updated":"2023-03-28T11:00:33Z","publication":"27th International Conference on Tools and Algorithms for the Construction and Analysis of Systems","project":[{"_id":"0599E47C-7A3F-11EA-A408-12923DDC885E","name":"Formal Methods for Stochastic Models: Algorithms and Applications","call_identifier":"H2020","grant_number":"863818"}],"oa_version":"Published Version","date_created":"2023-03-26T22:01:09Z","department":[{"_id":"KrCh"}],"author":[{"full_name":"Bansal, Suguman","last_name":"Bansal","first_name":"Suguman"},{"orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee"},{"first_name":"Moshe Y.","last_name":"Vardi","full_name":"Vardi, Moshe Y."}],"day":"21","status":"public","title":"On satisficing in quantitative games","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"volume":12651,"scopus_import":"1","month":"03","date_published":"2021-03-21T00:00:00Z","publisher":"Springer Nature","date_updated":"2025-07-14T09:09:51Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","citation":{"apa":"Bansal, S., Chatterjee, K., &#38; Vardi, M. Y. (2021). On satisficing in quantitative games. In <i>27th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i> (Vol. 12651, pp. 20–37). Luxembourg City, Luxembourg: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-72016-2\">https://doi.org/10.1007/978-3-030-72016-2</a>","short":"S. Bansal, K. Chatterjee, M.Y. Vardi, in:, 27th International Conference on Tools and Algorithms for the Construction and Analysis of Systems, Springer Nature, 2021, pp. 20–37.","chicago":"Bansal, Suguman, Krishnendu Chatterjee, and Moshe Y. Vardi. “On Satisficing in Quantitative Games.” In <i>27th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>, 12651:20–37. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/978-3-030-72016-2\">https://doi.org/10.1007/978-3-030-72016-2</a>.","ista":"Bansal S, Chatterjee K, Vardi MY. 2021. On satisficing in quantitative games. 27th International Conference on Tools and Algorithms for the Construction and Analysis of Systems. TACAS: Tools and Algorithms for the Construction and Analysis of Systems, LNCS, vol. 12651, 20–37.","ieee":"S. Bansal, K. Chatterjee, and M. Y. Vardi, “On satisficing in quantitative games,” in <i>27th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>, Luxembourg City, Luxembourg, 2021, vol. 12651, pp. 20–37.","mla":"Bansal, Suguman, et al. “On Satisficing in Quantitative Games.” <i>27th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>, vol. 12651, Springer Nature, 2021, pp. 20–37, doi:<a href=\"https://doi.org/10.1007/978-3-030-72016-2\">10.1007/978-3-030-72016-2</a>.","ama":"Bansal S, Chatterjee K, Vardi MY. On satisficing in quantitative games. In: <i>27th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>. Vol 12651. Springer Nature; 2021:20-37. doi:<a href=\"https://doi.org/10.1007/978-3-030-72016-2\">10.1007/978-3-030-72016-2</a>"},"doi":"10.1007/978-3-030-72016-2","quality_controlled":"1","ec_funded":1,"conference":{"end_date":"2021-04-01","start_date":"2021-03-27","location":"Luxembourg City, Luxembourg","name":"TACAS: Tools and Algorithms for the Construction and Analysis of Systems"},"acknowledgement":"We thank anonymous reviewers for valuable inputs. This work is supported in part by NSF grant 2030859 to the CRA for the CIFellows Project, NSF grants IIS-1527668, CCF-1704883, IIS-1830549, the ERC CoG 863818 (ForM-SMArt), and an award from the Maryland Procurement Office.","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["1611-3349"],"isbn":["9783030720155"],"issn":["0302-9743"]},"year":"2021","arxiv":1,"intvolume":"     12651","has_accepted_license":"1","external_id":{"arxiv":["2101.02594"]},"page":"20-37","alternative_title":["LNCS"],"file":[{"checksum":"b020b78b23587ce7610b1aafb4e63438","file_size":747418,"creator":"dernst","date_updated":"2023-03-28T11:00:33Z","file_id":"12777","access_level":"open_access","date_created":"2023-03-28T11:00:33Z","success":1,"content_type":"application/pdf","relation":"main_file","file_name":"2021_LNCS_Bansal.pdf"}],"ddc":["000"],"oa":1,"abstract":[{"text":"Several problems in planning and reactive synthesis can be reduced to the analysis of two-player quantitative graph games. Optimization is one form of analysis. We argue that in many cases it may be better to replace the optimization problem with the satisficing problem, where instead of searching for optimal solutions, the goal is to search for solutions that adhere to a given threshold bound.\r\nThis work defines and investigates the satisficing problem on a two-player graph game with the discounted-sum cost model. We show that while the satisficing problem can be solved using numerical methods just like the optimization problem, this approach does not render compelling benefits over optimization. When the discount factor is, however, an integer, we present another approach to satisficing, which is purely based on automata methods. We show that this approach is algorithmically more performant – both theoretically and empirically – and demonstrates the broader applicability of satisficing over optimization.","lang":"eng"}]},{"abstract":[{"text":"Chromosomal inversion polymorphisms, segments of chromosomes that are flipped in orientation and occur in reversed order in some individuals, have long been recognized to play an important role in local adaptation. They can reduce recombination in heterozygous individuals and thus help to maintain sets of locally adapted alleles. In a wide range of organisms, populations adapted to different habitats differ in frequency of inversion arrangements. However, getting a full understanding of the importance of inversions for adaptation requires confirmation of their influence on traits under divergent selection. Here, we studied a marine snail, Littorina saxatilis, that has evolved ecotypes adapted to wave exposure or crab predation. These two types occur in close proximity on different parts of the shore. Gene flow between them exists in contact zones. However, they exhibit strong phenotypic divergence in several traits under habitat-specific selection, including size, shape and behaviour. We used crosses between these ecotypes to identify genomic regions that explain variation in these traits by using QTL analysis and variance partitioning across linkage groups. We could show that previously detected inversion regions contribute to adaptive divergence. Some inversions influenced multiple traits suggesting that they contain sets of locally adaptive alleles. Our study also identified regions without known inversions that are important for phenotypic divergence. Thus, we provide a more complete overview of the importance of inversions in relation to the remaining genome.","lang":"eng"}],"oa":1,"ddc":["570"],"month":"04","date_published":"2021-04-10T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-08-08T13:34:07Z","publisher":"Dryad","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.zgmsbccb4"}],"license":"https://creativecommons.org/publicdomain/zero/1.0/","day":"10","year":"2021","has_accepted_license":"1","tmp":{"image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)","short":"CC0 (1.0)"},"title":"Data from: Genetic variation for adaptive traits is associated with polymorphic inversions in Littorina saxatilis","status":"public","oa_version":"Published Version","date_created":"2023-05-16T12:34:09Z","doi":"10.5061/DRYAD.ZGMSBCCB4","citation":{"ieee":"E. Koch <i>et al.</i>, “Data from: Genetic variation for adaptive traits is associated with polymorphic inversions in Littorina saxatilis.” Dryad, 2021.","ista":"Koch E, Morales HE, Larsson J, Westram AM, Faria R, Lemmon AR, Lemmon EM, Johannesson K, Butlin RK. 2021. Data from: Genetic variation for adaptive traits is associated with polymorphic inversions in Littorina saxatilis, Dryad, <a href=\"https://doi.org/10.5061/DRYAD.ZGMSBCCB4\">10.5061/DRYAD.ZGMSBCCB4</a>.","mla":"Koch, Eva, et al. <i>Data from: Genetic Variation for Adaptive Traits Is Associated with Polymorphic Inversions in Littorina Saxatilis</i>. Dryad, 2021, doi:<a href=\"https://doi.org/10.5061/DRYAD.ZGMSBCCB4\">10.5061/DRYAD.ZGMSBCCB4</a>.","apa":"Koch, E., Morales, H. E., Larsson, J., Westram, A. M., Faria, R., Lemmon, A. R., … Butlin, R. K. (2021). Data from: Genetic variation for adaptive traits is associated with polymorphic inversions in Littorina saxatilis. Dryad. <a href=\"https://doi.org/10.5061/DRYAD.ZGMSBCCB4\">https://doi.org/10.5061/DRYAD.ZGMSBCCB4</a>","chicago":"Koch, Eva, Hernán E. Morales, Jenny Larsson, Anja M Westram, Rui Faria, Alan R. Lemmon, E. Moriarty Lemmon, Kerstin Johannesson, and Roger K. Butlin. “Data from: Genetic Variation for Adaptive Traits Is Associated with Polymorphic Inversions in Littorina Saxatilis.” Dryad, 2021. <a href=\"https://doi.org/10.5061/DRYAD.ZGMSBCCB4\">https://doi.org/10.5061/DRYAD.ZGMSBCCB4</a>.","short":"E. Koch, H.E. Morales, J. Larsson, A.M. Westram, R. Faria, A.R. Lemmon, E.M. Lemmon, K. Johannesson, R.K. Butlin, (2021).","ama":"Koch E, Morales HE, Larsson J, et al. Data from: Genetic variation for adaptive traits is associated with polymorphic inversions in Littorina saxatilis. 2021. doi:<a href=\"https://doi.org/10.5061/DRYAD.ZGMSBCCB4\">10.5061/DRYAD.ZGMSBCCB4</a>"},"article_processing_charge":"No","_id":"12987","type":"research_data_reference","author":[{"last_name":"Koch","first_name":"Eva","full_name":"Koch, Eva"},{"full_name":"Morales, Hernán E.","first_name":"Hernán E.","last_name":"Morales"},{"full_name":"Larsson, Jenny","last_name":"Larsson","first_name":"Jenny"},{"last_name":"Westram","id":"3C147470-F248-11E8-B48F-1D18A9856A87","first_name":"Anja M","full_name":"Westram, Anja M","orcid":"0000-0003-1050-4969"},{"last_name":"Faria","first_name":"Rui","full_name":"Faria, Rui"},{"first_name":"Alan R.","last_name":"Lemmon","full_name":"Lemmon, Alan R."},{"full_name":"Lemmon, E. Moriarty","first_name":"E. Moriarty","last_name":"Lemmon"},{"last_name":"Johannesson","first_name":"Kerstin","full_name":"Johannesson, Kerstin"},{"last_name":"Butlin","first_name":"Roger K.","full_name":"Butlin, Roger K."}],"related_material":{"record":[{"relation":"used_in_publication","id":"9394","status":"public"}]},"department":[{"_id":"NiBa"}]},{"author":[{"orcid":"0000-0002-3415-4628","full_name":"Peruzzo, Matilda","id":"3F920B30-F248-11E8-B48F-1D18A9856A87","first_name":"Matilda","last_name":"Peruzzo"},{"full_name":"Hassani, Farid","orcid":"0000-0001-6937-5773","first_name":"Farid","id":"2AED110C-F248-11E8-B48F-1D18A9856A87","last_name":"Hassani"},{"full_name":"Szep, Grisha","first_name":"Grisha","last_name":"Szep"},{"first_name":"Andrea","id":"42F71B44-F248-11E8-B48F-1D18A9856A87","last_name":"Trioni","full_name":"Trioni, Andrea"},{"full_name":"Redchenko, Elena","id":"2C21D6E8-F248-11E8-B48F-1D18A9856A87","first_name":"Elena","last_name":"Redchenko"},{"id":"2DCF8DE6-F248-11E8-B48F-1D18A9856A87","first_name":"Martin","last_name":"Zemlicka","full_name":"Zemlicka, Martin"},{"full_name":"Fink, Johannes M","orcid":"0000-0001-8112-028X","first_name":"Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","last_name":"Fink"}],"related_material":{"record":[{"id":"9928","status":"public","relation":"used_in_publication"}]},"department":[{"_id":"JoFi"}],"oa_version":"Published Version","date_created":"2023-05-23T13:42:27Z","citation":{"ista":"Peruzzo M, Hassani F, Szep G, Trioni A, Redchenko E, Zemlicka M, Fink JM. 2021. Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.5592103\">10.5281/ZENODO.5592103</a>.","ieee":"M. Peruzzo <i>et al.</i>, “Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction.” Zenodo, 2021.","mla":"Peruzzo, Matilda, et al. <i>Geometric Superinductance Qubits: Controlling Phase Delocalization across a Single Josephson Junction</i>. Zenodo, 2021, doi:<a href=\"https://doi.org/10.5281/ZENODO.5592103\">10.5281/ZENODO.5592103</a>.","apa":"Peruzzo, M., Hassani, F., Szep, G., Trioni, A., Redchenko, E., Zemlicka, M., &#38; Fink, J. M. (2021). Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.5592103\">https://doi.org/10.5281/ZENODO.5592103</a>","chicago":"Peruzzo, Matilda, Farid Hassani, Grisha Szep, Andrea Trioni, Elena Redchenko, Martin Zemlicka, and Johannes M Fink. “Geometric Superinductance Qubits: Controlling Phase Delocalization across a Single Josephson Junction.” Zenodo, 2021. <a href=\"https://doi.org/10.5281/ZENODO.5592103\">https://doi.org/10.5281/ZENODO.5592103</a>.","short":"M. Peruzzo, F. Hassani, G. Szep, A. Trioni, E. Redchenko, M. Zemlicka, J.M. Fink, (2021).","ama":"Peruzzo M, Hassani F, Szep G, et al. Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. 2021. doi:<a href=\"https://doi.org/10.5281/ZENODO.5592103\">10.5281/ZENODO.5592103</a>"},"doi":"10.5281/ZENODO.5592103","_id":"13057","type":"research_data_reference","article_processing_charge":"No","title":"Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"status":"public","day":"22","year":"2021","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.5592104"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-08-11T10:44:21Z","publisher":"Zenodo","abstract":[{"text":"This dataset comprises all data shown in the figures of the submitted article \"Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction\". Additional raw data are available from the corresponding author on reasonable request.","lang":"eng"}],"oa":1,"ddc":["530"],"month":"10","date_published":"2021-10-22T00:00:00Z"},{"related_material":{"record":[{"status":"public","id":"10402","relation":"used_in_publication"}]},"author":[{"orcid":"0000-0003-0506-4217","full_name":"Ucar, Mehmet C","first_name":"Mehmet C","id":"50B2A802-6007-11E9-A42B-EB23E6697425","last_name":"Ucar"}],"department":[{"_id":"EdHa"}],"doi":"10.5281/ZENODO.5257160","citation":{"ama":"Ucar MC. Source data for the manuscript “Theory of branching morphogenesis by local interactions and global guidance.” 2021. doi:<a href=\"https://doi.org/10.5281/ZENODO.5257160\">10.5281/ZENODO.5257160</a>","apa":"Ucar, M. C. (2021). Source data for the manuscript “Theory of branching morphogenesis by local interactions and global guidance.” Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.5257160\">https://doi.org/10.5281/ZENODO.5257160</a>","short":"M.C. Ucar, (2021).","chicago":"Ucar, Mehmet C. “Source Data for the Manuscript ‘Theory of Branching Morphogenesis by Local Interactions and Global Guidance.’” Zenodo, 2021. <a href=\"https://doi.org/10.5281/ZENODO.5257160\">https://doi.org/10.5281/ZENODO.5257160</a>.","ieee":"M. C. Ucar, “Source data for the manuscript ‘Theory of branching morphogenesis by local interactions and global guidance.’” Zenodo, 2021.","ista":"Ucar MC. 2021. Source data for the manuscript ‘Theory of branching morphogenesis by local interactions and global guidance’, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.5257160\">10.5281/ZENODO.5257160</a>.","mla":"Ucar, Mehmet C. <i>Source Data for the Manuscript “Theory of Branching Morphogenesis by Local Interactions and Global Guidance.”</i> Zenodo, 2021, doi:<a href=\"https://doi.org/10.5281/ZENODO.5257160\">10.5281/ZENODO.5257160</a>."},"date_created":"2023-05-23T13:46:34Z","oa_version":"Published Version","_id":"13058","article_processing_charge":"No","type":"research_data_reference","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"title":"Source data for the manuscript \"Theory of branching morphogenesis by local interactions and global guidance\"","status":"public","day":"25","year":"2021","main_file_link":[{"url":"https://doi.org/10.5281/zenodo.5257161","open_access":"1"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Zenodo","date_updated":"2023-08-14T13:18:46Z","oa":1,"ddc":["570"],"abstract":[{"text":"The zip file includes source data used in the main text of the manuscript \"Theory of branching morphogenesis by local interactions and global guidance\", as well as a representative Jupyter notebook to reproduce the main figures. A sample script for the simulations of branching and annihilating random walks is also included (Sample_script_for_simulations_of_BARWs.ipynb) to generate exemplary branched networks under external guidance. A detailed description of the simulation setup is provided in the supplementary information of the manuscipt.","lang":"eng"}],"month":"08","date_published":"2021-08-25T00:00:00Z"},{"status":"public","title":"Early queen infection shapes developmental dynamics and induces long-term disease protection in incipient ant colonies","tmp":{"image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)","short":"CC0 (1.0)"},"day":"29","year":"2021","department":[{"_id":"SyCr"}],"author":[{"full_name":"Casillas Perez, Barbara E","last_name":"Casillas Perez","first_name":"Barbara E","id":"351ED2AA-F248-11E8-B48F-1D18A9856A87"},{"id":"3C7F4840-F248-11E8-B48F-1D18A9856A87","first_name":"Christopher","last_name":"Pull","full_name":"Pull, Christopher","orcid":"0000-0003-1122-3982"},{"full_name":"Naiser, Filip","first_name":"Filip","last_name":"Naiser"},{"full_name":"Naderlinger, Elisabeth","first_name":"Elisabeth","last_name":"Naderlinger"},{"full_name":"Matas, Jiri","first_name":"Jiri","last_name":"Matas"},{"last_name":"Cremer","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","first_name":"Sylvia","orcid":"0000-0002-2193-3868","full_name":"Cremer, Sylvia"}],"related_material":{"record":[{"id":"10284","status":"public","relation":"used_in_publication"}]},"_id":"13061","type":"research_data_reference","article_processing_charge":"No","date_created":"2023-05-23T16:14:35Z","oa_version":"Published Version","ec_funded":1,"doi":"10.5061/DRYAD.7PVMCVDTJ","project":[{"grant_number":"771402","call_identifier":"H2020","_id":"2649B4DE-B435-11E9-9278-68D0E5697425","name":"Epidemics in ant societies on a chip"}],"citation":{"mla":"Casillas Perez, Barbara E., et al. <i>Early Queen Infection Shapes Developmental Dynamics and Induces Long-Term Disease Protection in Incipient Ant Colonies</i>. Dryad, 2021, doi:<a href=\"https://doi.org/10.5061/DRYAD.7PVMCVDTJ\">10.5061/DRYAD.7PVMCVDTJ</a>.","ieee":"B. E. Casillas Perez, C. Pull, F. Naiser, E. Naderlinger, J. Matas, and S. Cremer, “Early queen infection shapes developmental dynamics and induces long-term disease protection in incipient ant colonies.” Dryad, 2021.","ista":"Casillas Perez BE, Pull C, Naiser F, Naderlinger E, Matas J, Cremer S. 2021. Early queen infection shapes developmental dynamics and induces long-term disease protection in incipient ant colonies, Dryad, <a href=\"https://doi.org/10.5061/DRYAD.7PVMCVDTJ\">10.5061/DRYAD.7PVMCVDTJ</a>.","short":"B.E. Casillas Perez, C. Pull, F. Naiser, E. Naderlinger, J. Matas, S. Cremer, (2021).","chicago":"Casillas Perez, Barbara E, Christopher Pull, Filip Naiser, Elisabeth Naderlinger, Jiri Matas, and Sylvia Cremer. “Early Queen Infection Shapes Developmental Dynamics and Induces Long-Term Disease Protection in Incipient Ant Colonies.” Dryad, 2021. <a href=\"https://doi.org/10.5061/DRYAD.7PVMCVDTJ\">https://doi.org/10.5061/DRYAD.7PVMCVDTJ</a>.","apa":"Casillas Perez, B. E., Pull, C., Naiser, F., Naderlinger, E., Matas, J., &#38; Cremer, S. (2021). Early queen infection shapes developmental dynamics and induces long-term disease protection in incipient ant colonies. Dryad. <a href=\"https://doi.org/10.5061/DRYAD.7PVMCVDTJ\">https://doi.org/10.5061/DRYAD.7PVMCVDTJ</a>","ama":"Casillas Perez BE, Pull C, Naiser F, Naderlinger E, Matas J, Cremer S. Early queen infection shapes developmental dynamics and induces long-term disease protection in incipient ant colonies. 2021. doi:<a href=\"https://doi.org/10.5061/DRYAD.7PVMCVDTJ\">10.5061/DRYAD.7PVMCVDTJ</a>"},"date_updated":"2023-08-14T11:45:28Z","publisher":"Dryad","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2021-10-29T00:00:00Z","month":"10","abstract":[{"lang":"eng","text":"Infections early in life can have enduring effects on an organism’s development and immunity. In this study, we show that this equally applies to developing “superorganisms” – incipient social insect colonies. When we exposed newly mated Lasius niger ant queens to a low pathogen dose, their colonies grew more slowly than controls before winter, but reached similar sizes afterwards. Independent of exposure, queen hibernation survival improved when the ratio of pupae to workers was small. Queens that reared fewer pupae before worker emergence exhibited lower pathogen levels, indicating that high brood rearing efforts interfere with the ability of the queen’s immune system to suppress pathogen proliferation. Early-life queen pathogen-exposure also improved the immunocompetence of her worker offspring, as demonstrated by challenging the workers to the same pathogen a year later. Transgenerational transfer of the queen’s pathogen experience to her workforce can hence durably reduce the disease susceptibility of the whole superorganism."}],"ddc":["570"],"oa":1,"main_file_link":[{"url":"https://doi.org/10.5061/dryad.7pvmcvdtj","open_access":"1"}]},{"oa":1,"ddc":["570"],"abstract":[{"text":"This paper analyzes 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.","lang":"eng"}],"month":"03","date_published":"2021-03-02T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Dryad","date_updated":"2023-09-05T15:44:05Z","main_file_link":[{"url":"https://doi.org/10.5061/dryad.8gtht76p1","open_access":"1"}],"day":"02","year":"2021","tmp":{"image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)","short":"CC0 (1.0)"},"title":"Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model","status":"public","citation":{"ama":"Szep E, Sachdeva H, Barton NH. Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model. 2021. doi:<a href=\"https://doi.org/10.5061/DRYAD.8GTHT76P1\">10.5061/DRYAD.8GTHT76P1</a>","chicago":"Szep, Eniko, Himani Sachdeva, and Nicholas H Barton. “Supplementary Code for: Polygenic Local Adaptation in Metapopulations: A Stochastic Eco-Evolutionary Model.” Dryad, 2021. <a href=\"https://doi.org/10.5061/DRYAD.8GTHT76P1\">https://doi.org/10.5061/DRYAD.8GTHT76P1</a>.","short":"E. Szep, H. Sachdeva, N.H. Barton, (2021).","apa":"Szep, E., Sachdeva, H., &#38; Barton, N. H. (2021). Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model. Dryad. <a href=\"https://doi.org/10.5061/DRYAD.8GTHT76P1\">https://doi.org/10.5061/DRYAD.8GTHT76P1</a>","mla":"Szep, Eniko, et al. <i>Supplementary Code for: Polygenic Local Adaptation in Metapopulations: A Stochastic Eco-Evolutionary Model</i>. Dryad, 2021, doi:<a href=\"https://doi.org/10.5061/DRYAD.8GTHT76P1\">10.5061/DRYAD.8GTHT76P1</a>.","ista":"Szep E, Sachdeva H, Barton NH. 2021. Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model, Dryad, <a href=\"https://doi.org/10.5061/DRYAD.8GTHT76P1\">10.5061/DRYAD.8GTHT76P1</a>.","ieee":"E. Szep, H. Sachdeva, and N. H. Barton, “Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model.” Dryad, 2021."},"doi":"10.5061/DRYAD.8GTHT76P1","date_created":"2023-05-23T16:17:02Z","oa_version":"Published Version","_id":"13062","article_processing_charge":"No","type":"research_data_reference","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"9252"}]},"author":[{"full_name":"Szep, Eniko","last_name":"Szep","first_name":"Eniko","id":"485BB5A4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Sachdeva, Himani","last_name":"Sachdeva","id":"42377A0A-F248-11E8-B48F-1D18A9856A87","first_name":"Himani"},{"orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H","first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton"}],"department":[{"_id":"NiBa"}]},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Dryad","date_updated":"2023-09-26T10:36:15Z","oa":1,"ddc":["570"],"abstract":[{"text":"We develop a Bayesian model (BayesRR-RC) that provides robust SNP-heritability estimation, an alternative to marker discovery, and accurate genomic prediction, taking 22 seconds per iteration to estimate 8.4 million SNP-effects and 78 SNP-heritability parameters in the UK Biobank. We find that only $\\leq$ 10\\% of the genetic variation captured for height, body mass index, cardiovascular disease, and type 2 diabetes is attributable to proximal regulatory regions within 10kb upstream of genes, while 12-25% is attributed to coding regions, 32-44% to introns, and 22-28% to distal 10-500kb upstream regions. Up to 24% of all cis and coding regions of each chromosome are associated with each trait, with over 3,100 independent exonic and intronic regions and over 5,400 independent regulatory regions having &gt;95% probability of contributing &gt;0.001% to the genetic variance of these four traits. Our open-source software (GMRM) provides a scalable alternative to current approaches for biobank data.","lang":"eng"}],"month":"11","date_published":"2021-11-04T00:00:00Z","main_file_link":[{"url":"https://doi.org/10.5061/dryad.sqv9s4n51","open_access":"1"}],"tmp":{"image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)","short":"CC0 (1.0)"},"title":"Probabilistic inference of the genetic architecture of functional enrichment of complex traits","status":"public","day":"04","year":"2021","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"8429"}],"link":[{"relation":"software","url":"https://github.com/medical-genomics-group/gmrm"}]},"author":[{"last_name":"Robinson","first_name":"Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","orcid":"0000-0001-8982-8813","full_name":"Robinson, Matthew Richard"}],"department":[{"_id":"MaRo"}],"doi":"10.5061/dryad.sqv9s4n51","citation":{"ieee":"M. R. Robinson, “Probabilistic inference of the genetic architecture of functional enrichment of complex traits.” Dryad, 2021.","ista":"Robinson MR. 2021. Probabilistic inference of the genetic architecture of functional enrichment of complex traits, Dryad, <a href=\"https://doi.org/10.5061/dryad.sqv9s4n51\">10.5061/dryad.sqv9s4n51</a>.","mla":"Robinson, Matthew Richard. <i>Probabilistic Inference of the Genetic Architecture of Functional Enrichment of Complex Traits</i>. Dryad, 2021, doi:<a href=\"https://doi.org/10.5061/dryad.sqv9s4n51\">10.5061/dryad.sqv9s4n51</a>.","apa":"Robinson, M. R. (2021). Probabilistic inference of the genetic architecture of functional enrichment of complex traits. Dryad. <a href=\"https://doi.org/10.5061/dryad.sqv9s4n51\">https://doi.org/10.5061/dryad.sqv9s4n51</a>","chicago":"Robinson, Matthew Richard. “Probabilistic Inference of the Genetic Architecture of Functional Enrichment of Complex Traits.” Dryad, 2021. <a href=\"https://doi.org/10.5061/dryad.sqv9s4n51\">https://doi.org/10.5061/dryad.sqv9s4n51</a>.","short":"M.R. Robinson, (2021).","ama":"Robinson MR. Probabilistic inference of the genetic architecture of functional enrichment of complex traits. 2021. doi:<a href=\"https://doi.org/10.5061/dryad.sqv9s4n51\">10.5061/dryad.sqv9s4n51</a>"},"oa_version":"Published Version","date_created":"2023-05-23T16:20:16Z","_id":"13063","article_processing_charge":"No","type":"research_data_reference"},{"status":"public","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"title":"Spatiotemporal dynamics of self-organized branching in pancreas-derived organoids","year":"2021","day":"30","department":[{"_id":"EdHa"}],"related_material":{"record":[{"id":"12217","status":"public","relation":"used_in_publication"}]},"author":[{"full_name":"Randriamanantsoa, Samuel","last_name":"Randriamanantsoa","first_name":"Samuel"},{"full_name":"Papargyriou, Aristeidis","last_name":"Papargyriou","first_name":"Aristeidis"},{"first_name":"Carlo","last_name":"Maurer","full_name":"Maurer, Carlo"},{"first_name":"Katja","last_name":"Peschke","full_name":"Peschke, Katja"},{"full_name":"Schuster, Maximilian","first_name":"Maximilian","last_name":"Schuster"},{"full_name":"Zecchin, Giulia","last_name":"Zecchin","first_name":"Giulia"},{"full_name":"Steiger, Katja","last_name":"Steiger","first_name":"Katja"},{"full_name":"Öllinger, Rupert","first_name":"Rupert","last_name":"Öllinger"},{"last_name":"Saur","first_name":"Dieter","full_name":"Saur, Dieter"},{"full_name":"Scheel, Christina","first_name":"Christina","last_name":"Scheel"},{"last_name":"Rad","first_name":"Roland","full_name":"Rad, Roland"},{"orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B","last_name":"Hannezo","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","first_name":"Edouard B"},{"full_name":"Reichert, Maximilian","first_name":"Maximilian","last_name":"Reichert"},{"first_name":"Andreas R.","last_name":"Bausch","full_name":"Bausch, Andreas R."}],"_id":"13068","article_processing_charge":"No","type":"research_data_reference","doi":"10.5281/ZENODO.5148117","citation":{"chicago":"Randriamanantsoa, Samuel, Aristeidis Papargyriou, Carlo Maurer, Katja Peschke, Maximilian Schuster, Giulia Zecchin, Katja Steiger, et al. “Spatiotemporal Dynamics of Self-Organized Branching in Pancreas-Derived Organoids.” Zenodo, 2021. <a href=\"https://doi.org/10.5281/ZENODO.5148117\">https://doi.org/10.5281/ZENODO.5148117</a>.","short":"S. Randriamanantsoa, A. Papargyriou, C. Maurer, K. Peschke, M. Schuster, G. Zecchin, K. Steiger, R. Öllinger, D. Saur, C. Scheel, R. Rad, E.B. Hannezo, M. Reichert, A.R. Bausch, (2021).","apa":"Randriamanantsoa, S., Papargyriou, A., Maurer, C., Peschke, K., Schuster, M., Zecchin, G., … Bausch, A. R. (2021). Spatiotemporal dynamics of self-organized branching in pancreas-derived organoids. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.5148117\">https://doi.org/10.5281/ZENODO.5148117</a>","mla":"Randriamanantsoa, Samuel, et al. <i>Spatiotemporal Dynamics of Self-Organized Branching in Pancreas-Derived Organoids</i>. Zenodo, 2021, doi:<a href=\"https://doi.org/10.5281/ZENODO.5148117\">10.5281/ZENODO.5148117</a>.","ieee":"S. Randriamanantsoa <i>et al.</i>, “Spatiotemporal dynamics of self-organized branching in pancreas-derived organoids.” Zenodo, 2021.","ista":"Randriamanantsoa S, Papargyriou A, Maurer C, Peschke K, Schuster M, Zecchin G, Steiger K, Öllinger R, Saur D, Scheel C, Rad R, Hannezo EB, Reichert M, Bausch AR. 2021. Spatiotemporal dynamics of self-organized branching in pancreas-derived organoids, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.5148117\">10.5281/ZENODO.5148117</a>.","ama":"Randriamanantsoa S, Papargyriou A, Maurer C, et al. Spatiotemporal dynamics of self-organized branching in pancreas-derived organoids. 2021. doi:<a href=\"https://doi.org/10.5281/ZENODO.5148117\">10.5281/ZENODO.5148117</a>"},"oa_version":"Published Version","date_created":"2023-05-23T16:39:24Z","publisher":"Zenodo","date_updated":"2023-08-04T09:25:23Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"07","date_published":"2021-07-30T00:00:00Z","ddc":["570"],"oa":1,"abstract":[{"lang":"eng","text":"Source data and source code for the graphs in \"Spatiotemporal dynamics of self-organized branching pancreatic cancer-derived organoids\"."}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.6577226"}]},{"year":"2021","day":"25","status":"public","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"title":"Neuronal HSF-1 coordinates the propagation of fat desaturation across tissues to enable adaptation to high temperatures in C. elegans","article_processing_charge":"No","_id":"13069","type":"research_data_reference","citation":{"ama":"Chauve L, Hodge F, Murdoch S, et al. Neuronal HSF-1 coordinates the propagation of fat desaturation across tissues to enable adaptation to high temperatures in C. elegans. 2021. doi:<a href=\"https://doi.org/10.5281/ZENODO.5519410\">10.5281/ZENODO.5519410</a>","chicago":"Chauve, Laetitia, Francesca Hodge, Sharlene Murdoch, Fatemah Masoudzadeh, Harry-Jack Mann, Andrea Lopez-Clavijo, Hanneke Okkenhaug, et al. “Neuronal HSF-1 Coordinates the Propagation of Fat Desaturation across Tissues to Enable Adaptation to High Temperatures in C. Elegans.” Zenodo, 2021. <a href=\"https://doi.org/10.5281/ZENODO.5519410\">https://doi.org/10.5281/ZENODO.5519410</a>.","short":"L. Chauve, F. Hodge, S. Murdoch, F. Masoudzadeh, H.-J. Mann, A. Lopez-Clavijo, H. Okkenhaug, G. West, B.C. Sousa, A. Segonds-Pichon, C. Li, S. Wingett, H. Kienberger, K. Kleigrewe, M. de Bono, M. Wakelam, O. Casanueva, (2021).","apa":"Chauve, L., Hodge, F., Murdoch, S., Masoudzadeh, F., Mann, H.-J., Lopez-Clavijo, A., … Casanueva, O. (2021). Neuronal HSF-1 coordinates the propagation of fat desaturation across tissues to enable adaptation to high temperatures in C. elegans. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.5519410\">https://doi.org/10.5281/ZENODO.5519410</a>","mla":"Chauve, Laetitia, et al. <i>Neuronal HSF-1 Coordinates the Propagation of Fat Desaturation across Tissues to Enable Adaptation to High Temperatures in C. Elegans</i>. Zenodo, 2021, doi:<a href=\"https://doi.org/10.5281/ZENODO.5519410\">10.5281/ZENODO.5519410</a>.","ieee":"L. Chauve <i>et al.</i>, “Neuronal HSF-1 coordinates the propagation of fat desaturation across tissues to enable adaptation to high temperatures in C. elegans.” Zenodo, 2021.","ista":"Chauve L, Hodge F, Murdoch S, Masoudzadeh F, Mann H-J, Lopez-Clavijo A, Okkenhaug H, West G, Sousa BC, Segonds-Pichon A, Li C, Wingett S, Kienberger H, Kleigrewe K, de Bono M, Wakelam M, Casanueva O. 2021. Neuronal HSF-1 coordinates the propagation of fat desaturation across tissues to enable adaptation to high temperatures in C. elegans, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.5519410\">10.5281/ZENODO.5519410</a>."},"doi":"10.5281/ZENODO.5519410","oa_version":"Published Version","date_created":"2023-05-23T16:40:56Z","department":[{"_id":"MaDe"}],"related_material":{"record":[{"status":"public","id":"10322","relation":"used_in_publication"}]},"author":[{"full_name":"Chauve, Laetitia","last_name":"Chauve","first_name":"Laetitia"},{"full_name":"Hodge, Francesca","first_name":"Francesca","last_name":"Hodge"},{"first_name":"Sharlene","last_name":"Murdoch","full_name":"Murdoch, Sharlene"},{"last_name":"Masoudzadeh","first_name":"Fatemah","full_name":"Masoudzadeh, Fatemah"},{"last_name":"Mann","first_name":"Harry-Jack","full_name":"Mann, Harry-Jack"},{"first_name":"Andrea","last_name":"Lopez-Clavijo","full_name":"Lopez-Clavijo, Andrea"},{"first_name":"Hanneke","last_name":"Okkenhaug","full_name":"Okkenhaug, Hanneke"},{"full_name":"West, Greg","first_name":"Greg","last_name":"West"},{"first_name":"Bebiana C.","last_name":"Sousa","full_name":"Sousa, Bebiana C."},{"last_name":"Segonds-Pichon","first_name":"Anne","full_name":"Segonds-Pichon, Anne"},{"full_name":"Li, Cheryl","first_name":"Cheryl","last_name":"Li"},{"full_name":"Wingett, Steven","last_name":"Wingett","first_name":"Steven"},{"last_name":"Kienberger","first_name":"Hermine","full_name":"Kienberger, Hermine"},{"first_name":"Karin","last_name":"Kleigrewe","full_name":"Kleigrewe, Karin"},{"id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","first_name":"Mario","last_name":"de Bono","orcid":"0000-0001-8347-0443","full_name":"de Bono, Mario"},{"last_name":"Wakelam","first_name":"Michael","full_name":"Wakelam, Michael"},{"last_name":"Casanueva","first_name":"Olivia","full_name":"Casanueva, Olivia"}],"month":"12","date_published":"2021-12-25T00:00:00Z","ddc":["570"],"oa":1,"abstract":[{"lang":"eng","text":"To survive elevated temperatures, ectotherms adjust the fluidity of membranes by fine-tuning lipid desaturation levels in a process previously described to be cell-autonomous. We have discovered that, in Caenorhabditis elegans, neuronal Heat shock Factor 1 (HSF-1), the conserved master regulator of the heat shock response (HSR)- causes extensive fat remodelling in peripheral tissues. These changes include a decrease in fat desaturase and acid lipase expression in the intestine, and a global shift in the saturation levels of plasma membrane’s phospholipids. The observed remodelling of plasma membrane is in line with ectothermic adaptive responses and gives worms a cumulative advantage to warm temperatures. We have determined that at least six TAX-2/TAX-4 cGMP gated channel expressing sensory neurons and TGF-β/BMP are required for signalling across tissues to modulate fat desaturation. We also find neuronal hsf-1  is not only sufficient but also partially necessary to control the fat remodelling response and for survival at warm temperatures. This is the first study to show that a thermostat-based mechanism can cell non-autonomously coordinate membrane saturation and composition across tissues in a multicellular animal."}],"publisher":"Zenodo","date_updated":"2023-08-14T11:53:26Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"url":"https://doi.org/10.5281/zenodo.5547464","open_access":"1"}]},{"author":[{"last_name":"McCartney","first_name":"Daniel L","full_name":"McCartney, Daniel L"},{"first_name":"Robert F","last_name":"Hillary","full_name":"Hillary, Robert F"},{"first_name":"Eleanor LS","last_name":"Conole","full_name":"Conole, Eleanor LS"},{"full_name":"Trejo Banos, Daniel","last_name":"Trejo Banos","first_name":"Daniel"},{"full_name":"Gadd, Danni A","last_name":"Gadd","first_name":"Danni A"},{"full_name":"Walker, Rosie M","first_name":"Rosie M","last_name":"Walker"},{"full_name":"Nangle, Cliff","last_name":"Nangle","first_name":"Cliff"},{"full_name":"Flaig, Robin","last_name":"Flaig","first_name":"Robin"},{"full_name":"Campbell, Archie","last_name":"Campbell","first_name":"Archie"},{"full_name":"Murray, Alison D","first_name":"Alison D","last_name":"Murray"},{"first_name":"Susana","last_name":"Munoz Maniega","full_name":"Munoz Maniega, Susana"},{"last_name":"del C Valdes-Hernandez","first_name":"Maria","full_name":"del C Valdes-Hernandez, Maria"},{"full_name":"Harris, Mathew A","last_name":"Harris","first_name":"Mathew A"},{"full_name":"Bastin, Mark E","first_name":"Mark E","last_name":"Bastin"},{"first_name":"Joanna M","last_name":"Wardlaw","full_name":"Wardlaw, Joanna M"},{"full_name":"Harris, Sarah E","first_name":"Sarah E","last_name":"Harris"},{"last_name":"Porteous","first_name":"David J","full_name":"Porteous, David J"},{"full_name":"Tucker-Drob, Elliot M","last_name":"Tucker-Drob","first_name":"Elliot M"},{"first_name":"Andrew M","last_name":"McIntosh","full_name":"McIntosh, Andrew M"},{"full_name":"Evans, Kathryn L","first_name":"Kathryn L","last_name":"Evans"},{"full_name":"Deary, Ian J","first_name":"Ian J","last_name":"Deary"},{"full_name":"Cox, Simon R","last_name":"Cox","first_name":"Simon R"},{"last_name":"Robinson","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","first_name":"Matthew Richard","full_name":"Robinson, Matthew Richard","orcid":"0000-0001-8982-8813"},{"last_name":"Marioni","first_name":"Riccardo E","full_name":"Marioni, Riccardo E"}],"related_material":{"record":[{"status":"public","id":"10702","relation":"used_in_publication"}]},"department":[{"_id":"MaRo"}],"date_created":"2023-05-23T16:46:20Z","oa_version":"Published Version","citation":{"ama":"McCartney DL, Hillary RF, Conole EL, et al. Blood-based epigenome-wide analyses of cognitive abilities. 2021. doi:<a href=\"https://doi.org/10.5281/ZENODO.5794028\">10.5281/ZENODO.5794028</a>","apa":"McCartney, D. L., Hillary, R. F., Conole, E. L., Trejo Banos, D., Gadd, D. A., Walker, R. M., … Marioni, R. E. (2021). Blood-based epigenome-wide analyses of cognitive abilities. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.5794028\">https://doi.org/10.5281/ZENODO.5794028</a>","chicago":"McCartney, Daniel L, Robert F Hillary, Eleanor LS Conole, Daniel Trejo Banos, Danni A Gadd, Rosie M Walker, Cliff Nangle, et al. “Blood-Based Epigenome-Wide Analyses of Cognitive Abilities.” Zenodo, 2021. <a href=\"https://doi.org/10.5281/ZENODO.5794028\">https://doi.org/10.5281/ZENODO.5794028</a>.","short":"D.L. McCartney, R.F. Hillary, E.L. Conole, D. Trejo Banos, D.A. Gadd, R.M. Walker, C. Nangle, R. Flaig, A. Campbell, A.D. Murray, S. Munoz Maniega, M. del C Valdes-Hernandez, M.A. Harris, M.E. Bastin, J.M. Wardlaw, S.E. Harris, D.J. Porteous, E.M. Tucker-Drob, A.M. McIntosh, K.L. Evans, I.J. Deary, S.R. Cox, M.R. Robinson, R.E. Marioni, (2021).","ieee":"D. L. McCartney <i>et al.</i>, “Blood-based epigenome-wide analyses of cognitive abilities.” Zenodo, 2021.","ista":"McCartney DL, Hillary RF, Conole EL, Trejo Banos D, Gadd DA, Walker RM, Nangle C, Flaig R, Campbell A, Murray AD, Munoz Maniega S, del C Valdes-Hernandez M, Harris MA, Bastin ME, Wardlaw JM, Harris SE, Porteous DJ, Tucker-Drob EM, McIntosh AM, Evans KL, Deary IJ, Cox SR, Robinson MR, Marioni RE. 2021. Blood-based epigenome-wide analyses of cognitive abilities, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.5794028\">10.5281/ZENODO.5794028</a>.","mla":"McCartney, Daniel L., et al. <i>Blood-Based Epigenome-Wide Analyses of Cognitive Abilities</i>. Zenodo, 2021, doi:<a href=\"https://doi.org/10.5281/ZENODO.5794028\">10.5281/ZENODO.5794028</a>."},"doi":"10.5281/ZENODO.5794028","type":"research_data_reference","_id":"13072","article_processing_charge":"No","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"title":"Blood-based epigenome-wide analyses of cognitive abilities","status":"public","day":"20","year":"2021","main_file_link":[{"url":"https://doi.org/10.5281/zenodo.5794029","open_access":"1"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-08-02T14:05:12Z","publisher":"Zenodo","abstract":[{"lang":"eng","text":"CpGs and corresponding mean weights for DNAm-based prediction of cognitive abilities (6 traits)"}],"ddc":["570"],"oa":1,"date_published":"2021-12-20T00:00:00Z","month":"12"},{"main_file_link":[{"url":"https://doi.org/10.5281/zenodo.4592460","open_access":"1"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-08-08T14:08:07Z","publisher":"Zenodo","abstract":[{"lang":"eng","text":"Data for the manuscript 'Closing of the Induced Gap in a Hybrid Superconductor-Semiconductor Nanowire' ([2006.01275] Closing of the Induced Gap in a Hybrid Superconductor-Semiconductor Nanowire (arxiv.org))\r\n\r\nWe upload a pdf with extended data sets, and the raw data for these extended datasets as well."}],"ddc":["530"],"oa":1,"date_published":"2021-03-09T00:00:00Z","month":"03","author":[{"id":"4D495994-AE37-11E9-AC72-31CAE5697425","first_name":"Denise","last_name":"Puglia","full_name":"Puglia, Denise"},{"last_name":"Martinez","first_name":"Esteban","full_name":"Martinez, Esteban"},{"full_name":"Menard, Gerbold","last_name":"Menard","first_name":"Gerbold"},{"full_name":"Pöschl, Andreas","last_name":"Pöschl","first_name":"Andreas"},{"first_name":"Sergei","last_name":"Gronin","full_name":"Gronin, Sergei"},{"last_name":"Gardner","first_name":"Geoffrey","full_name":"Gardner, Geoffrey"},{"last_name":"Kallaher","first_name":"Ray","full_name":"Kallaher, Ray"},{"full_name":"Manfra, Michael","last_name":"Manfra","first_name":"Michael"},{"full_name":"Marcus, Charles","first_name":"Charles","last_name":"Marcus"},{"last_name":"Higginbotham","id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","first_name":"Andrew P","orcid":"0000-0003-2607-2363","full_name":"Higginbotham, Andrew P"},{"first_name":"Lucas","last_name":"Casparis","full_name":"Casparis, Lucas"}],"related_material":{"link":[{"url":"https://github.com/caslu85/Induced-Gap-Closing-Shared/tree/1.1.3","relation":"software"}],"record":[{"relation":"used_in_publication","status":"public","id":"9570"}]},"department":[{"_id":"AnHi"}],"date_created":"2023-05-23T17:11:28Z","oa_version":"Published Version","citation":{"ama":"Puglia D, Martinez E, Menard G, et al. Data for ’Closing of the Induced Gap in a Hybrid Superconductor-Semiconductor Nanowire. 2021. doi:<a href=\"https://doi.org/10.5281/ZENODO.4592435\">10.5281/ZENODO.4592435</a>","short":"D. Puglia, E. Martinez, G. Menard, A. Pöschl, S. Gronin, G. Gardner, R. Kallaher, M. Manfra, C. Marcus, A.P. Higginbotham, L. Casparis, (2021).","chicago":"Puglia, Denise, Esteban Martinez, Gerbold Menard, Andreas Pöschl, Sergei Gronin, Geoffrey Gardner, Ray Kallaher, et al. “Data for ’Closing of the Induced Gap in a Hybrid Superconductor-Semiconductor Nanowire.” Zenodo, 2021. <a href=\"https://doi.org/10.5281/ZENODO.4592435\">https://doi.org/10.5281/ZENODO.4592435</a>.","apa":"Puglia, D., Martinez, E., Menard, G., Pöschl, A., Gronin, S., Gardner, G., … Casparis, L. (2021). Data for ’Closing of the Induced Gap in a Hybrid Superconductor-Semiconductor Nanowire. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.4592435\">https://doi.org/10.5281/ZENODO.4592435</a>","mla":"Puglia, Denise, et al. <i>Data for ’Closing of the Induced Gap in a Hybrid Superconductor-Semiconductor Nanowire</i>. Zenodo, 2021, doi:<a href=\"https://doi.org/10.5281/ZENODO.4592435\">10.5281/ZENODO.4592435</a>.","ieee":"D. Puglia <i>et al.</i>, “Data for ’Closing of the Induced Gap in a Hybrid Superconductor-Semiconductor Nanowire.” Zenodo, 2021.","ista":"Puglia D, Martinez E, Menard G, Pöschl A, Gronin S, Gardner G, Kallaher R, Manfra M, Marcus C, Higginbotham AP, Casparis L. 2021. Data for ’Closing of the Induced Gap in a Hybrid Superconductor-Semiconductor Nanowire, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.4592435\">10.5281/ZENODO.4592435</a>."},"doi":"10.5281/ZENODO.4592435","article_processing_charge":"No","_id":"13080","type":"research_data_reference","title":"Data for 'Closing of the Induced Gap in a Hybrid Superconductor-Semiconductor Nanowire","status":"public","year":"2021","day":"09"},{"author":[{"full_name":"Nguyen, Quynh","last_name":"Nguyen","first_name":"Quynh"},{"first_name":"Marco","id":"27EB676C-8706-11E9-9510-7717E6697425","last_name":"Mondelli","orcid":"0000-0002-3242-7020","full_name":"Mondelli, Marco"},{"full_name":"Montufar, Guido","first_name":"Guido","last_name":"Montufar"}],"department":[{"_id":"MaMo"}],"oa_version":"Published Version","date_created":"2023-06-18T22:00:48Z","project":[{"_id":"059876FA-7A3F-11EA-A408-12923DDC885E","name":"Prix Lopez-Loretta 2019 - Marco Mondelli"}],"file_date_updated":"2023-06-19T10:49:12Z","publication":"Proceedings of the 38th International Conference on Machine Learning","_id":"13146","article_processing_charge":"No","type":"conference","title":"Tight bounds on the smallest Eigenvalue of the neural tangent kernel for deep ReLU networks","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"volume":139,"status":"public","day":"01","scopus_import":"1","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2024-09-10T13:03:17Z","publisher":"ML Research Press","date_published":"2021-07-01T00:00:00Z","month":"07","acknowledgement":"The authors would like to thank the anonymous reviewers for their helpful comments. MM was partially supported by the 2019 Lopez-Loreta Prize. QN and GM acknowledge support from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement no 757983).","conference":{"end_date":"2021-07-24","start_date":"2021-07-18","location":"Virtual","name":"International Conference on Machine Learning"},"quality_controlled":"1","citation":{"apa":"Nguyen, Q., Mondelli, M., &#38; Montufar, G. (2021). Tight bounds on the smallest Eigenvalue of the neural tangent kernel for deep ReLU networks. In <i>Proceedings of the 38th International Conference on Machine Learning</i> (Vol. 139, pp. 8119–8129). Virtual: ML Research Press.","chicago":"Nguyen, Quynh, Marco Mondelli, and Guido Montufar. “Tight Bounds on the Smallest Eigenvalue of the Neural Tangent Kernel for Deep ReLU Networks.” In <i>Proceedings of the 38th International Conference on Machine Learning</i>, 139:8119–29. ML Research Press, 2021.","short":"Q. Nguyen, M. Mondelli, G. Montufar, in:, Proceedings of the 38th International Conference on Machine Learning, ML Research Press, 2021, pp. 8119–8129.","ieee":"Q. Nguyen, M. Mondelli, and G. Montufar, “Tight bounds on the smallest Eigenvalue of the neural tangent kernel for deep ReLU networks,” in <i>Proceedings of the 38th International Conference on Machine Learning</i>, Virtual, 2021, vol. 139, pp. 8119–8129.","ista":"Nguyen Q, Mondelli M, Montufar G. 2021. Tight bounds on the smallest Eigenvalue of the neural tangent kernel for deep ReLU networks. Proceedings of the 38th International Conference on Machine Learning. International Conference on Machine Learning vol. 139, 8119–8129.","mla":"Nguyen, Quynh, et al. “Tight Bounds on the Smallest Eigenvalue of the Neural Tangent Kernel for Deep ReLU Networks.” <i>Proceedings of the 38th International Conference on Machine Learning</i>, vol. 139, ML Research Press, 2021, pp. 8119–29.","ama":"Nguyen Q, Mondelli M, Montufar G. Tight bounds on the smallest Eigenvalue of the neural tangent kernel for deep ReLU networks. In: <i>Proceedings of the 38th International Conference on Machine Learning</i>. Vol 139. ML Research Press; 2021:8119-8129."},"has_accepted_license":"1","intvolume":"       139","arxiv":1,"year":"2021","publication_identifier":{"isbn":["9781713845065"],"eissn":["2640-3498"]},"language":[{"iso":"eng"}],"page":"8119-8129","external_id":{"arxiv":["2012.11654"]},"abstract":[{"lang":"eng","text":"A recent line of work has analyzed the theoretical properties of deep neural networks via the Neural Tangent Kernel (NTK). In particular, the smallest eigenvalue of the NTK has been related to the memorization capacity, the global convergence of gradient descent algorithms and the generalization of deep nets. However, existing results either provide bounds in the two-layer setting or assume that the spectrum of the NTK matrices is bounded away from 0 for multi-layer networks. In this paper, we provide tight bounds on the smallest eigenvalue of NTK matrices for deep ReLU nets, both in the limiting case of infinite widths and for finite widths. In the finite-width setting, the network architectures we consider are fairly general: we require the existence of a wide layer with roughly order of N neurons, N being the number of data samples; and the scaling of the remaining layer widths is arbitrary (up to logarithmic factors). To obtain our results, we analyze various quantities of independent interest: we give lower bounds on the smallest singular value of hidden feature matrices, and upper bounds on the Lipschitz constant of input-output feature maps."}],"ddc":["000"],"oa":1,"file":[{"date_created":"2023-06-19T10:49:12Z","access_level":"open_access","file_id":"13155","file_name":"2021_PMLR_Nguyen.pdf","relation":"main_file","success":1,"content_type":"application/pdf","creator":"dernst","checksum":"19489cf5e16a0596b1f92e317d97c9b0","file_size":591332,"date_updated":"2023-06-19T10:49:12Z"}]},{"arxiv":1,"intvolume":"       139","has_accepted_license":"1","publication_identifier":{"isbn":["9781713845065"],"eissn":["2640-3498"]},"language":[{"iso":"eng"}],"year":"2021","conference":{"start_date":"2021-07-18","end_date":"2021-07-24","location":"Virtual","name":"International Conference on Machine Learning"},"acknowledgement":"The authors would like to thank Janne Korhonen, Aurelien Lucchi, Celestine MendlerDunner and Antonio Orvieto for helpful discussions. FA ¨and DA were supported during this work by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 805223 ScaleML). PD was supported by the European Union’s Horizon 2020 programme under the Marie Skłodowska-Curie grant agreement No. 754411.","citation":{"mla":"Alimisis, Foivos, et al. “Communication-Efficient Distributed Optimization with Quantized Preconditioners.” <i>Proceedings of the 38th International Conference on Machine Learning</i>, vol. 139, ML Research Press, 2021, pp. 196–206.","ieee":"F. Alimisis, P. Davies, and D.-A. Alistarh, “Communication-efficient distributed optimization with quantized preconditioners,” in <i>Proceedings of the 38th International Conference on Machine Learning</i>, Virtual, 2021, vol. 139, pp. 196–206.","ista":"Alimisis F, Davies P, Alistarh D-A. 2021. Communication-efficient distributed optimization with quantized preconditioners. Proceedings of the 38th International Conference on Machine Learning. International Conference on Machine Learning vol. 139, 196–206.","chicago":"Alimisis, Foivos, Peter Davies, and Dan-Adrian Alistarh. “Communication-Efficient Distributed Optimization with Quantized Preconditioners.” In <i>Proceedings of the 38th International Conference on Machine Learning</i>, 139:196–206. ML Research Press, 2021.","short":"F. Alimisis, P. Davies, D.-A. Alistarh, in:, Proceedings of the 38th International Conference on Machine Learning, ML Research Press, 2021, pp. 196–206.","apa":"Alimisis, F., Davies, P., &#38; Alistarh, D.-A. (2021). Communication-efficient distributed optimization with quantized preconditioners. In <i>Proceedings of the 38th International Conference on Machine Learning</i> (Vol. 139, pp. 196–206). Virtual: ML Research Press.","ama":"Alimisis F, Davies P, Alistarh D-A. Communication-efficient distributed optimization with quantized preconditioners. In: <i>Proceedings of the 38th International Conference on Machine Learning</i>. Vol 139. ML Research Press; 2021:196-206."},"ec_funded":1,"quality_controlled":"1","file":[{"file_id":"13154","access_level":"open_access","date_created":"2023-06-19T10:41:05Z","success":1,"content_type":"application/pdf","relation":"main_file","file_name":"2021_PMLR_Alimisis.pdf","checksum":"7ec0d59bac268b49c76bf2e036dedd7a","file_size":429087,"creator":"dernst","date_updated":"2023-06-19T10:41:05Z"}],"oa":1,"ddc":["000"],"abstract":[{"text":"We investigate fast and communication-efficient algorithms for the classic problem of minimizing a sum of strongly convex and smooth functions that are distributed among n\r\n different nodes, which can communicate using a limited number of bits. Most previous communication-efficient approaches for this problem are limited to first-order optimization, and therefore have \\emph{linear} dependence on the condition number in their communication complexity. We show that this dependence is not inherent: communication-efficient methods can in fact have sublinear dependence on the condition number. For this, we design and analyze the first communication-efficient distributed variants of preconditioned gradient descent for Generalized Linear Models, and for Newton’s method. Our results rely on a new technique for quantizing both the preconditioner and the descent direction at each step of the algorithms, while controlling their convergence rate. We also validate our findings experimentally, showing faster convergence and reduced communication relative to previous methods.","lang":"eng"}],"external_id":{"arxiv":["2102.07214"]},"page":"196-206","status":"public","title":"Communication-efficient distributed optimization with quantized preconditioners","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"volume":139,"day":"01","department":[{"_id":"DaAl"}],"author":[{"full_name":"Alimisis, Foivos","last_name":"Alimisis","first_name":"Foivos"},{"first_name":"Peter","id":"11396234-BB50-11E9-B24C-90FCE5697425","last_name":"Davies","full_name":"Davies, Peter","orcid":"0000-0002-5646-9524"},{"last_name":"Alistarh","first_name":"Dan-Adrian","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3650-940X","full_name":"Alistarh, Dan-Adrian"}],"_id":"13147","article_processing_charge":"No","type":"conference","file_date_updated":"2023-06-19T10:41:05Z","publication":"Proceedings of the 38th International Conference on Machine Learning","project":[{"_id":"268A44D6-B435-11E9-9278-68D0E5697425","name":"Elastic Coordination for Scalable Machine Learning","call_identifier":"H2020","grant_number":"805223"},{"name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020"}],"date_created":"2023-06-18T22:00:48Z","oa_version":"Published Version","publisher":"ML Research Press","date_updated":"2023-06-19T10:44:38Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","date_published":"2021-07-01T00:00:00Z","month":"07","scopus_import":"1"},{"abstract":[{"lang":"eng","text":"We investigate how the critical driving amplitude at the Floquet many-body localized (MBL) to ergodic phase transition differs between smooth and nonsmooth drives. To this end, we numerically study a disordered spin-1/2 chain which is periodically driven by a sine or square-wave drive over a wide range of driving frequencies. In both cases the critical driving amplitude increases monotonically with the frequency, and at large frequencies it is identical for the two drives. However, at low and intermediate frequencies the critical amplitude of the square-wave drive depends strongly on the frequency, while that of the sinusoidal drive is almost constant over a wide frequency range. By analyzing the density of drive-induced resonances we conclude that this difference is due to resonances induced by the higher harmonics which are present (absent) in the Fourier spectrum of the square-wave (sine) drive. Furthermore, we suggest a numerically efficient method for estimating the frequency dependence of the critical driving amplitudes for different drives which is based on calculating the density of drive-induced resonances. We conclude that delocalization occurs once the density of drive-induced resonances reaches a critical value determined only by the static system."}],"oa":1,"isi":1,"external_id":{"arxiv":["2007.14879"],"isi":["000664429700005"]},"year":"2021","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["24699969"],"issn":["24699950"]},"arxiv":1,"intvolume":"       103","ec_funded":1,"quality_controlled":"1","citation":{"ama":"Diringer AA, Gulden T. Impact of drive harmonics on the stability of Floquet many-body localization. <i>Physical Review B</i>. 2021;103(21). doi:<a href=\"https://doi.org/10.1103/PhysRevB.103.214204\">10.1103/PhysRevB.103.214204</a>","short":"A.A. Diringer, T. Gulden, Physical Review B 103 (2021).","chicago":"Diringer, Asaf A., and Tobias Gulden. “Impact of Drive Harmonics on the Stability of Floquet Many-Body Localization.” <i>Physical Review B</i>. American Physical Society, 2021. <a href=\"https://doi.org/10.1103/PhysRevB.103.214204\">https://doi.org/10.1103/PhysRevB.103.214204</a>.","apa":"Diringer, A. A., &#38; Gulden, T. (2021). Impact of drive harmonics on the stability of Floquet many-body localization. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.103.214204\">https://doi.org/10.1103/PhysRevB.103.214204</a>","mla":"Diringer, Asaf A., and Tobias Gulden. “Impact of Drive Harmonics on the Stability of Floquet Many-Body Localization.” <i>Physical Review B</i>, vol. 103, no. 21, 214204, American Physical Society, 2021, doi:<a href=\"https://doi.org/10.1103/PhysRevB.103.214204\">10.1103/PhysRevB.103.214204</a>.","ista":"Diringer AA, Gulden T. 2021. Impact of drive harmonics on the stability of Floquet many-body localization. Physical Review B. 103(21), 214204.","ieee":"A. A. Diringer and T. Gulden, “Impact of drive harmonics on the stability of Floquet many-body localization,” <i>Physical Review B</i>, vol. 103, no. 21. American Physical Society, 2021."},"doi":"10.1103/PhysRevB.103.214204","acknowledgement":"We thank Y. Bar Lev, T. Biadse, and, particularly, E. Bairey and B. Katzir for illuminating discussions and their many insights and help. The authors thank N. Lindner for his support throughout this project. We are further grateful to M. Serbyn, A. Kamenev, A. Turner, and S. de Nicola for reading the manuscript and providing good feedback and suggestions. We acknowledge financial support from the Defense Advanced Research Projects Agency through the DRINQS program, Grant No. D18AC00025. T.G. was in part supported by an Aly Kaufman Fellowship at the Technion. T.G. acknowledges funding from the Institute of Science and Technology (IST) Austria and from the European Union’s Horizon 2020 research and innovation program under Marie SkłodowskaCurie Grant Agreement No. 754411.under the Marie Skłodowska-Curie Grant Agreement No.754411.","article_type":"original","date_published":"2021-06-21T00:00:00Z","month":"06","publication_status":"published","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T10:56:33Z","publisher":"American Physical Society","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2007.14879"}],"day":"21","title":"Impact of drive harmonics on the stability of Floquet many-body localization","volume":103,"status":"public","article_number":"214204","oa_version":"Preprint","date_created":"2020-08-04T13:03:40Z","project":[{"call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"}],"publication":"Physical Review B","type":"journal_article","_id":"8198","article_processing_charge":"No","issue":"21","author":[{"last_name":"Diringer","first_name":"Asaf A.","full_name":"Diringer, Asaf A."},{"full_name":"Gulden, Tobias","orcid":"0000-0001-6814-7541","id":"1083E038-9F73-11E9-A4B5-532AE6697425","first_name":"Tobias","last_name":"Gulden"}],"department":[{"_id":"MaSe"}]},{"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1007/s00454-020-00233-9"}],"scopus_import":"1","article_type":"original","month":"09","date_published":"2021-09-01T00:00:00Z","date_updated":"2024-03-07T14:54:59Z","publisher":"Springer Nature","publication_status":"published","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publication":"Discrete and Computational Geometry","_id":"8248","article_processing_charge":"Yes (via OA deal)","type":"journal_article","oa_version":"Published Version","date_created":"2020-08-11T07:11:51Z","project":[{"name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"754411"}],"department":[{"_id":"HeEd"}],"author":[{"full_name":"Boissonnat, Jean-Daniel","first_name":"Jean-Daniel","last_name":"Boissonnat"},{"full_name":"Dyer, Ramsay","last_name":"Dyer","first_name":"Ramsay"},{"full_name":"Ghosh, Arijit","last_name":"Ghosh","first_name":"Arijit"},{"full_name":"Lieutier, Andre","first_name":"Andre","last_name":"Lieutier"},{"full_name":"Wintraecken, Mathijs","orcid":"0000-0002-7472-2220","id":"307CFBC8-F248-11E8-B48F-1D18A9856A87","first_name":"Mathijs","last_name":"Wintraecken"}],"day":"01","status":"public","title":"Local conditions for triangulating submanifolds of Euclidean space","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"volume":66,"external_id":{"isi":["000558119300001"]},"isi":1,"page":"666-686","abstract":[{"lang":"eng","text":"We consider the following setting: suppose that we are given a manifold M in Rd with positive reach. Moreover assume that we have an embedded simplical complex A without boundary, whose vertex set lies on the manifold, is sufficiently dense and such that all simplices in A have sufficient quality. We prove that if, locally, interiors of the projection of the simplices onto the tangent space do not intersect, then A is a triangulation of the manifold, that is, they are homeomorphic."}],"ddc":["510"],"oa":1,"ec_funded":1,"quality_controlled":"1","doi":"10.1007/s00454-020-00233-9","citation":{"chicago":"Boissonnat, Jean-Daniel, Ramsay Dyer, Arijit Ghosh, Andre Lieutier, and Mathijs Wintraecken. “Local Conditions for Triangulating Submanifolds of Euclidean Space.” <i>Discrete and Computational Geometry</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/s00454-020-00233-9\">https://doi.org/10.1007/s00454-020-00233-9</a>.","short":"J.-D. Boissonnat, R. Dyer, A. Ghosh, A. Lieutier, M. Wintraecken, Discrete and Computational Geometry 66 (2021) 666–686.","apa":"Boissonnat, J.-D., Dyer, R., Ghosh, A., Lieutier, A., &#38; Wintraecken, M. (2021). Local conditions for triangulating submanifolds of Euclidean space. <i>Discrete and Computational Geometry</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00454-020-00233-9\">https://doi.org/10.1007/s00454-020-00233-9</a>","mla":"Boissonnat, Jean-Daniel, et al. “Local Conditions for Triangulating Submanifolds of Euclidean Space.” <i>Discrete and Computational Geometry</i>, vol. 66, Springer Nature, 2021, pp. 666–86, doi:<a href=\"https://doi.org/10.1007/s00454-020-00233-9\">10.1007/s00454-020-00233-9</a>.","ista":"Boissonnat J-D, Dyer R, Ghosh A, Lieutier A, Wintraecken M. 2021. Local conditions for triangulating submanifolds of Euclidean space. Discrete and Computational Geometry. 66, 666–686.","ieee":"J.-D. Boissonnat, R. Dyer, A. Ghosh, A. Lieutier, and M. Wintraecken, “Local conditions for triangulating submanifolds of Euclidean space,” <i>Discrete and Computational Geometry</i>, vol. 66. Springer Nature, pp. 666–686, 2021.","ama":"Boissonnat J-D, Dyer R, Ghosh A, Lieutier A, Wintraecken M. Local conditions for triangulating submanifolds of Euclidean space. <i>Discrete and Computational Geometry</i>. 2021;66:666-686. doi:<a href=\"https://doi.org/10.1007/s00454-020-00233-9\">10.1007/s00454-020-00233-9</a>"},"acknowledgement":"Open access funding provided by the Institute of Science and Technology (IST Austria). Arijit Ghosh is supported by the Ramanujan Fellowship (No. SB/S2/RJN-064/2015), India.\r\nThis work has been funded by the European Research Council under the European Union’s ERC Grant Agreement number 339025 GUDHI (Algorithmic Foundations of Geometric Understanding in Higher Dimensions). The third author is supported by Ramanujan Fellowship (No. SB/S2/RJN-064/2015), India. The fifth author also received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411.","publication_identifier":{"issn":["0179-5376"],"eissn":["1432-0444"]},"language":[{"iso":"eng"}],"year":"2021","intvolume":"        66","has_accepted_license":"1"},{"external_id":{"pmid":["33513328"],"isi":["000663433900003"]},"isi":1,"page":"899-925","file":[{"date_updated":"2022-04-08T06:05:39Z","creator":"dernst","checksum":"eac5a51c24c8989ae7cf9ae32ec3bc95","file_size":1611614,"relation":"main_file","file_name":"2021_NeuralComputation_Zenke.pdf","content_type":"application/pdf","success":1,"access_level":"open_access","date_created":"2022-04-08T06:05:39Z","file_id":"11131"}],"oa":1,"ddc":["000","570"],"abstract":[{"lang":"eng","text":"Brains process information in spiking neural networks. Their intricate connections shape the diverse functions these networks perform. In comparison, the functional capabilities of models of spiking networks are still rudimentary. This shortcoming is mainly due to the lack of insight and practical algorithms to construct the necessary connectivity. Any such algorithm typically attempts to build networks by iteratively reducing the error compared to a desired output. But assigning credit to hidden units in multi-layered spiking networks has remained challenging due to the non-differentiable nonlinearity of spikes. To avoid this issue, one can employ surrogate gradients to discover the required connectivity in spiking network models. However, the choice of a surrogate is not unique, raising the question of how its implementation influences the effectiveness of the method. Here, we use numerical simulations to systematically study how essential design parameters of surrogate gradients impact learning performance on a range of classification problems. We show that surrogate gradient learning is robust to different shapes of underlying surrogate derivatives, but the choice of the derivative’s scale can substantially affect learning performance. When we combine surrogate gradients with a suitable activity regularization technique, robust information processing can be achieved in spiking networks even at the sparse activity limit. Our study provides a systematic account of the remarkable robustness of surrogate gradient learning and serves as a practical guide to model functional spiking neural networks."}],"citation":{"ama":"Zenke F, Vogels TP. The remarkable robustness of surrogate gradient learning for instilling complex function in spiking neural networks. <i>Neural Computation</i>. 2021;33(4):899-925. doi:<a href=\"https://doi.org/10.1162/neco_a_01367\">10.1162/neco_a_01367</a>","apa":"Zenke, F., &#38; Vogels, T. P. (2021). The remarkable robustness of surrogate gradient learning for instilling complex function in spiking neural networks. <i>Neural Computation</i>. MIT Press. <a href=\"https://doi.org/10.1162/neco_a_01367\">https://doi.org/10.1162/neco_a_01367</a>","chicago":"Zenke, Friedemann, and Tim P Vogels. “The Remarkable Robustness of Surrogate Gradient Learning for Instilling Complex Function in Spiking Neural Networks.” <i>Neural Computation</i>. MIT Press, 2021. <a href=\"https://doi.org/10.1162/neco_a_01367\">https://doi.org/10.1162/neco_a_01367</a>.","short":"F. Zenke, T.P. Vogels, Neural Computation 33 (2021) 899–925.","ista":"Zenke F, Vogels TP. 2021. The remarkable robustness of surrogate gradient learning for instilling complex function in spiking neural networks. Neural Computation. 33(4), 899–925.","ieee":"F. Zenke and T. P. Vogels, “The remarkable robustness of surrogate gradient learning for instilling complex function in spiking neural networks,” <i>Neural Computation</i>, vol. 33, no. 4. MIT Press, pp. 899–925, 2021.","mla":"Zenke, Friedemann, and Tim P. Vogels. “The Remarkable Robustness of Surrogate Gradient Learning for Instilling Complex Function in Spiking Neural Networks.” <i>Neural Computation</i>, vol. 33, no. 4, MIT Press, 2021, pp. 899–925, doi:<a href=\"https://doi.org/10.1162/neco_a_01367\">10.1162/neco_a_01367</a>."},"doi":"10.1162/neco_a_01367","ec_funded":1,"quality_controlled":"1","acknowledgement":"F.Z. was supported by the Wellcome Trust (110124/Z/15/Z) and the Novartis Research Foundation. T.P.V. was supported by a Wellcome Trust Sir Henry Dale Research fellowship (WT100000), a Wellcome Trust Senior Research Fellowship (214316/Z/18/Z), and an ERC Consolidator Grant SYNAPSEEK.","publication_identifier":{"issn":["0899-7667"],"eissn":["1530-888X"]},"language":[{"iso":"eng"}],"year":"2021","pmid":1,"intvolume":"        33","has_accepted_license":"1","scopus_import":"1","month":"03","date_published":"2021-03-01T00:00:00Z","article_type":"original","publisher":"MIT Press","date_updated":"2023-08-04T10:53:14Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_status":"published","issue":"4","_id":"8253","type":"journal_article","article_processing_charge":"No","publication":"Neural Computation","file_date_updated":"2022-04-08T06:05:39Z","project":[{"_id":"0aacfa84-070f-11eb-9043-d7eb2c709234","name":"Learning the shape of synaptic plasticity rules for neuronal architectures and function through machine learning.","call_identifier":"H2020","grant_number":"819603"},{"_id":"c084a126-5a5b-11eb-8a69-d75314a70a87","name":"What’s in a memory? Spatiotemporal dynamics in strongly coupled recurrent neuronal networks.","grant_number":"214316/Z/18/Z"}],"date_created":"2020-08-12T12:08:24Z","oa_version":"Published Version","department":[{"_id":"TiVo"}],"author":[{"orcid":"0000-0003-1883-644X","full_name":"Zenke, Friedemann","first_name":"Friedemann","last_name":"Zenke"},{"full_name":"Vogels, Tim P","orcid":"0000-0003-3295-6181","last_name":"Vogels","first_name":"Tim P","id":"CB6FF8D2-008F-11EA-8E08-2637E6697425"}],"day":"01","status":"public","title":"The remarkable robustness of surrogate gradient learning for instilling complex function in spiking neural networks","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"volume":33}]