[{"type":"journal_article","status":"public","pmid":1,"file":[{"creator":"cchlebak","relation":"main_file","access_level":"open_access","file_size":995806,"content_type":"application/pdf","success":1,"checksum":"76e7f253b7040bca2ad76f82bd7c45c0","file_id":"10172","file_name":"2021_ProRoSocBBioSci_Huylmans.pdf","date_created":"2021-10-22T11:48:02Z","date_updated":"2021-10-22T11:48:02Z"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","day":"22","oa_version":"Published Version","month":"09","publication_identifier":{"eissn":["1471-2954"],"issn":["0962-8452"]},"author":[{"full_name":"Huylmans, Ann K","first_name":"Ann K","orcid":"0000-0001-8871-4961","last_name":"Huylmans","id":"4C0A3874-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Ariana","full_name":"Macon, Ariana","last_name":"Macon","id":"2A0848E2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hontoria, Francisco","first_name":"Francisco","last_name":"Hontoria"},{"orcid":"0000-0002-4579-8306","last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","full_name":"Vicoso, Beatriz","first_name":"Beatriz"}],"publication":"Proceedings of the Royal Society B: Biological Sciences","language":[{"iso":"eng"}],"scopus_import":"1","intvolume":"       288","has_accepted_license":"1","isi":1,"title":"Transitions to asexuality and evolution of gene expression in Artemia brine shrimp","issue":"1959","article_processing_charge":"Yes (via OA deal)","date_updated":"2024-02-21T12:40:29Z","oa":1,"volume":288,"quality_controlled":"1","department":[{"_id":"BeVi"}],"date_published":"2021-09-22T00:00:00Z","publisher":"The Royal Society","project":[{"grant_number":"715257","_id":"250BDE62-B435-11E9-9278-68D0E5697425","name":"Prevalence and Influence of Sexual Antagonism on Genome Evolution","call_identifier":"H2020"}],"abstract":[{"lang":"eng","text":"While sexual reproduction is widespread among many taxa, asexual lineages have repeatedly evolved from sexual ancestors. Despite extensive research on the evolution of sex, it is still unclear whether this switch represents a major transition requiring major molecular reorganization, and how convergent the changes involved are. In this study, we investigated the phylogenetic relationship and patterns of gene expression of sexual and asexual lineages of Eurasian Artemia brine shrimp, to assess how gene expression patterns are affected by the transition to asexuality. We find only a few genes that are consistently associated with the evolution of asexuality, suggesting that this shift may not require an extensive overhauling of the meiotic machinery. While genes with sex-biased expression have high rates of expression divergence within Eurasian Artemia, neither female- nor male-biased genes appear to show unusual evolutionary patterns after sexuality is lost, contrary to theoretical expectations."}],"external_id":{"pmid":["34547909"],"isi":["000697643700001"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ddc":["595"],"publication_status":"published","doi":"10.1098/rspb.2021.1720","acknowledged_ssus":[{"_id":"ScienComp"}],"_id":"10166","article_type":"original","file_date_updated":"2021-10-22T11:48:02Z","article_number":"20211720","related_material":{"link":[{"url":"https://doi.org/10.6084/m9.figshare.c.5615488.v1","relation":"supplementary_material"}],"record":[{"status":"public","id":"9949","relation":"research_data"}]},"ec_funded":1,"keyword":["asexual reproduction","parthenogenesis","sex-biased genes","sexual conflict","automixis","crustaceans"],"citation":{"apa":"Huylmans, A. K., Macon, A., Hontoria, F., &#38; Vicoso, B. (2021). Transitions to asexuality and evolution of gene expression in Artemia brine shrimp. <i>Proceedings of the Royal Society B: Biological Sciences</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rspb.2021.1720\">https://doi.org/10.1098/rspb.2021.1720</a>","mla":"Huylmans, Ann K., et al. “Transitions to Asexuality and Evolution of Gene Expression in Artemia Brine Shrimp.” <i>Proceedings of the Royal Society B: Biological Sciences</i>, vol. 288, no. 1959, 20211720, The Royal Society, 2021, doi:<a href=\"https://doi.org/10.1098/rspb.2021.1720\">10.1098/rspb.2021.1720</a>.","ista":"Huylmans AK, Macon A, Hontoria F, Vicoso B. 2021. Transitions to asexuality and evolution of gene expression in Artemia brine shrimp. Proceedings of the Royal Society B: Biological Sciences. 288(1959), 20211720.","chicago":"Huylmans, Ann K, Ariana Macon, Francisco Hontoria, and Beatriz Vicoso. “Transitions to Asexuality and Evolution of Gene Expression in Artemia Brine Shrimp.” <i>Proceedings of the Royal Society B: Biological Sciences</i>. The Royal Society, 2021. <a href=\"https://doi.org/10.1098/rspb.2021.1720\">https://doi.org/10.1098/rspb.2021.1720</a>.","short":"A.K. Huylmans, A. Macon, F. Hontoria, B. Vicoso, Proceedings of the Royal Society B: Biological Sciences 288 (2021).","ama":"Huylmans AK, Macon A, Hontoria F, Vicoso B. Transitions to asexuality and evolution of gene expression in Artemia brine shrimp. <i>Proceedings of the Royal Society B: Biological Sciences</i>. 2021;288(1959). doi:<a href=\"https://doi.org/10.1098/rspb.2021.1720\">10.1098/rspb.2021.1720</a>","ieee":"A. K. Huylmans, A. Macon, F. Hontoria, and B. Vicoso, “Transitions to asexuality and evolution of gene expression in Artemia brine shrimp,” <i>Proceedings of the Royal Society B: Biological Sciences</i>, vol. 288, no. 1959. The Royal Society, 2021."},"date_created":"2021-10-21T07:46:06Z","year":"2021","acknowledgement":"We thank the Vicoso laboratory, Thomas Lenormand and Tanja Schwander for helpful discussions, the group of Gonzalo Gajardo, especially Cristian Gallardo-Escárate and Margarita Parraguez Donoso, for sequencing data and advice, and the IST Scientific Computing Group for their support. This work was supported by the European Research Council under the European Union's Horizon 2020 research and innovation program (grant agreement no. 715257)."},{"publication":"Molecular Biology and Evolution","language":[{"iso":"eng"}],"isi":1,"has_accepted_license":"1","scopus_import":"1","article_processing_charge":"No","oa":1,"date_updated":"2023-08-14T08:03:06Z","title":"Schistosome W-Linked genes inform temporal dynamics of sex chromosome evolution and suggest candidate for sex determination","status":"public","type":"journal_article","pmid":1,"month":"06","publication_identifier":{"eissn":["1537-1719"],"issn":["0737-4038"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"relation":"main_file","file_size":1008594,"access_level":"open_access","content_type":"application/pdf","creator":"dernst","date_created":"2022-05-06T09:47:18Z","date_updated":"2022-05-06T09:47:18Z","success":1,"checksum":"1b096702fb356d9c0eb88e1b3fcff5f8","file_id":"11352","file_name":"2021_MolecularBiolEvolution_Elkrewi.pdf"}],"oa_version":"Published Version","day":"19","author":[{"full_name":"Elkrewi, Marwan N","first_name":"Marwan N","orcid":"0000-0002-5328-7231","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","last_name":"Elkrewi"},{"orcid":"0000-0002-8876-6494","id":"c8bb7f32-3315-11ec-b58b-e5950e6c14a0","last_name":"Moldovan","first_name":"Mikhail A.","full_name":"Moldovan, Mikhail A."},{"full_name":"Picard, Marion A L","first_name":"Marion A L","orcid":"0000-0002-8101-2518","id":"2C921A7A-F248-11E8-B48F-1D18A9856A87","last_name":"Picard"},{"last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4579-8306","full_name":"Vicoso, Beatriz","first_name":"Beatriz"}],"doi":"10.1093/molbev/msab178","_id":"10167","article_type":"original","file_date_updated":"2022-05-06T09:47:18Z","acknowledged_ssus":[{"_id":"ScienComp"}],"year":"2021","acknowledgement":"The authors thank IT support at IST Austria for providing an optimal environment for bioinformatic analyses. This work was supported by an Austrian Science Foundation FWF grant (Project P28842) to B.V.","keyword":["sex chromosomes","evolutionary strata","W-linked gene","sex determining gene","schistosome parasites"],"date_created":"2021-10-21T07:49:12Z","citation":{"apa":"Elkrewi, M. N., Moldovan, M. A., Picard, M. A. L., &#38; Vicoso, B. (2021). Schistosome W-Linked genes inform temporal dynamics of sex chromosome evolution and suggest candidate for sex determination. <i>Molecular Biology and Evolution</i>. Oxford University Press . <a href=\"https://doi.org/10.1093/molbev/msab178\">https://doi.org/10.1093/molbev/msab178</a>","ama":"Elkrewi MN, Moldovan MA, Picard MAL, Vicoso B. Schistosome W-Linked genes inform temporal dynamics of sex chromosome evolution and suggest candidate for sex determination. <i>Molecular Biology and Evolution</i>. 2021. doi:<a href=\"https://doi.org/10.1093/molbev/msab178\">10.1093/molbev/msab178</a>","ieee":"M. N. Elkrewi, M. A. Moldovan, M. A. L. Picard, and B. Vicoso, “Schistosome W-Linked genes inform temporal dynamics of sex chromosome evolution and suggest candidate for sex determination,” <i>Molecular Biology and Evolution</i>. Oxford University Press , 2021.","short":"M.N. Elkrewi, M.A. Moldovan, M.A.L. Picard, B. Vicoso, Molecular Biology and Evolution (2021).","ista":"Elkrewi MN, Moldovan MA, Picard MAL, Vicoso B. 2021. Schistosome W-Linked genes inform temporal dynamics of sex chromosome evolution and suggest candidate for sex determination. Molecular Biology and Evolution.","mla":"Elkrewi, Marwan N., et al. “Schistosome W-Linked Genes Inform Temporal Dynamics of Sex Chromosome Evolution and Suggest Candidate for Sex Determination.” <i>Molecular Biology and Evolution</i>, Oxford University Press , 2021, doi:<a href=\"https://doi.org/10.1093/molbev/msab178\">10.1093/molbev/msab178</a>.","chicago":"Elkrewi, Marwan N, Mikhail A. Moldovan, Marion A L Picard, and Beatriz Vicoso. “Schistosome W-Linked Genes Inform Temporal Dynamics of Sex Chromosome Evolution and Suggest Candidate for Sex Determination.” <i>Molecular Biology and Evolution</i>. Oxford University Press , 2021. <a href=\"https://doi.org/10.1093/molbev/msab178\">https://doi.org/10.1093/molbev/msab178</a>."},"date_published":"2021-06-19T00:00:00Z","publisher":"Oxford University Press ","quality_controlled":"1","department":[{"_id":"BeVi"}],"project":[{"name":"Sex chromosome evolution under male- and female- heterogamety","call_identifier":"FWF","_id":"250ED89C-B435-11E9-9278-68D0E5697425","grant_number":"P28842-B22"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ddc":["610"],"abstract":[{"text":"Schistosomes, the human parasites responsible for snail fever, are female-heterogametic. Different parts of their ZW sex chromosomes have stopped recombining in distinct lineages, creating “evolutionary strata” of various ages. Although the Z-chromosome is well characterized at the genomic and molecular level, the W-chromosome has remained largely unstudied from an evolutionary perspective, as only a few W-linked genes have been detected outside of the model species Schistosoma mansoni. Here, we characterize the gene content and evolution of the W-chromosomes of S. mansoni and of the divergent species S. japonicum. We use a combined RNA/DNA k-mer based pipeline to assemble around 100 candidate W-specific transcripts in each of the species. About half of them map to known protein coding genes, the majority homologous to S. mansoni Z-linked genes. We perform an extended analysis of the evolutionary strata present in the two species (including characterizing a previously undetected young stratum in S. japonicum) to infer patterns of sequence and expression evolution of W-linked genes at different time points after recombination was lost. W-linked genes show evidence of degeneration, including high rates of protein evolution and reduced expression. Most are found in young lineage-specific strata, with only a few high expression ancestral W-genes remaining, consistent with the progressive erosion of nonrecombining regions. Among these, the splicing factor u2af2 stands out as a promising candidate for primary sex determination, opening new avenues for understanding the molecular basis of the reproductive biology of this group.","lang":"eng"}],"external_id":{"pmid":["34146097"],"isi":["000741368600009"]},"publication_status":"published"},{"isi":1,"scopus_import":"1","has_accepted_license":"1","intvolume":"       213","issue":"4","article_processing_charge":"Yes (via OA deal)","oa":1,"date_updated":"2023-11-21T08:36:02Z","title":"Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data","publication":"Journal of Structural Biology","language":[{"iso":"eng"}],"month":"11","publication_identifier":{"issn":["1047-8477"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"checksum":"6b209e4d44775d4e02b50f78982c15fa","file_name":"2021_JournalStructBiol_Dimchev.pdf","file_id":"10291","success":1,"date_updated":"2021-11-15T13:11:27Z","date_created":"2021-11-15T13:11:27Z","creator":"cchlebak","file_size":16818304,"access_level":"open_access","content_type":"application/pdf","relation":"main_file"}],"oa_version":"Published Version","day":"03","author":[{"full_name":"Dimchev, Georgi A","first_name":"Georgi A","id":"38C393BE-F248-11E8-B48F-1D18A9856A87","last_name":"Dimchev","orcid":"0000-0001-8370-6161"},{"full_name":"Amiri, Behnam","first_name":"Behnam","last_name":"Amiri"},{"first_name":"Florian","full_name":"Fäßler, Florian","orcid":"0000-0001-7149-769X","id":"404F5528-F248-11E8-B48F-1D18A9856A87","last_name":"Fäßler"},{"first_name":"Martin","full_name":"Falcke, Martin","last_name":"Falcke"},{"orcid":"0000-0003-4790-8078","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","last_name":"Schur","first_name":"Florian KM","full_name":"Schur, Florian KM"}],"status":"public","type":"journal_article","article_number":"107808","related_material":{"record":[{"id":"14502","relation":"software","status":"public"}]},"year":"2021","acknowledgement":"This research was supported by the Scientific Service Units (SSUs) of IST Austria through resources provided by Scientific Computing (SciComp), the Life Science Facility (LSF), the BioImaging Facility (BIF), and the Electron Microscopy Facility (EMF). We also thank Victor-Valentin Hodirnau for help with cryo-ET data acquisition. The authors acknowledge support from IST Austria and from the Austrian Science Fund (FWF): M02495 to G.D. and Austrian Science Fund (FWF): P33367 to F.K.M.S.","keyword":["Structural Biology"],"citation":{"mla":"Dimchev, Georgi A., et al. “Computational Toolbox for Ultrastructural Quantitative Analysis of Filament Networks in Cryo-ET Data.” <i>Journal of Structural Biology</i>, vol. 213, no. 4, 107808, Elsevier , 2021, doi:<a href=\"https://doi.org/10.1016/j.jsb.2021.107808\">10.1016/j.jsb.2021.107808</a>.","ista":"Dimchev GA, Amiri B, Fäßler F, Falcke M, Schur FK. 2021. Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data. Journal of Structural Biology. 213(4), 107808.","chicago":"Dimchev, Georgi A, Behnam Amiri, Florian Fäßler, Martin Falcke, and Florian KM Schur. “Computational Toolbox for Ultrastructural Quantitative Analysis of Filament Networks in Cryo-ET Data.” <i>Journal of Structural Biology</i>. Elsevier , 2021. <a href=\"https://doi.org/10.1016/j.jsb.2021.107808\">https://doi.org/10.1016/j.jsb.2021.107808</a>.","short":"G.A. Dimchev, B. Amiri, F. Fäßler, M. Falcke, F.K. Schur, Journal of Structural Biology 213 (2021).","ieee":"G. A. Dimchev, B. Amiri, F. Fäßler, M. Falcke, and F. K. Schur, “Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data,” <i>Journal of Structural Biology</i>, vol. 213, no. 4. Elsevier , 2021.","ama":"Dimchev GA, Amiri B, Fäßler F, Falcke M, Schur FK. Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data. <i>Journal of Structural Biology</i>. 2021;213(4). doi:<a href=\"https://doi.org/10.1016/j.jsb.2021.107808\">10.1016/j.jsb.2021.107808</a>","apa":"Dimchev, G. A., Amiri, B., Fäßler, F., Falcke, M., &#38; Schur, F. K. (2021). Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data. <i>Journal of Structural Biology</i>. Elsevier . <a href=\"https://doi.org/10.1016/j.jsb.2021.107808\">https://doi.org/10.1016/j.jsb.2021.107808</a>"},"date_created":"2021-11-15T12:21:42Z","doi":"10.1016/j.jsb.2021.107808","article_type":"original","_id":"10290","file_date_updated":"2021-11-15T13:11:27Z","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"EM-Fac"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ddc":["572"],"abstract":[{"lang":"eng","text":"A precise quantitative description of the ultrastructural characteristics underlying biological mechanisms is often key to their understanding. This is particularly true for dynamic extra- and intracellular filamentous assemblies, playing a role in cell motility, cell integrity, cytokinesis, tissue formation and maintenance. For example, genetic manipulation or modulation of actin regulatory proteins frequently manifests in changes of the morphology, dynamics, and ultrastructural architecture of actin filament-rich cell peripheral structures, such as lamellipodia or filopodia. However, the observed ultrastructural effects often remain subtle and require sufficiently large datasets for appropriate quantitative analysis. The acquisition of such large datasets has been enabled by recent advances in high-throughput cryo-electron tomography (cryo-ET) methods. This also necessitates the development of complementary approaches to maximize the extraction of relevant biological information. We have developed a computational toolbox for the semi-automatic quantification of segmented and vectorized filamentous networks from pre-processed cryo-electron tomograms, facilitating the analysis and cross-comparison of multiple experimental conditions. GUI-based components simplify the processing of data and allow users to obtain a large number of ultrastructural parameters describing filamentous assemblies. We demonstrate the feasibility of this workflow by analyzing cryo-ET data of untreated and chemically perturbed branched actin filament networks and that of parallel actin filament arrays. In principle, the computational toolbox presented here is applicable for data analysis comprising any type of filaments in regular (i.e. parallel) or random arrangement. We show that it can ease the identification of key differences between experimental groups and facilitate the in-depth analysis of ultrastructural data in a time-efficient manner."}],"external_id":{"isi":["000720259500002"]},"publication_status":"published","date_published":"2021-11-03T00:00:00Z","publisher":"Elsevier ","quality_controlled":"1","volume":213,"department":[{"_id":"FlSc"}],"project":[{"name":"Structure and isoform diversity of the Arp2/3 complex","grant_number":"P33367","_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A"},{"name":"Protein structure and function in filopodia across scales","call_identifier":"FWF","_id":"2674F658-B435-11E9-9278-68D0E5697425","grant_number":"M02495"}]},{"publication":"PLoS Computational Biology","language":[{"iso":"eng"}],"intvolume":"        17","scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","issue":"12","date_updated":"2022-08-01T10:48:04Z","oa":1,"title":"Dynamic maximum entropy provides accurate approximation of structured population dynamics","status":"public","type":"journal_article","pmid":1,"publication_identifier":{"issn":["1553-734X"],"eissn":["1553-7358"]},"month":"12","file":[{"access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_size":2299486,"creator":"dernst","date_created":"2022-05-16T08:53:11Z","date_updated":"2022-05-16T08:53:11Z","success":1,"file_name":"2021_PLOsComBio_Bodova.pdf","checksum":"dcd185d4f7e0acee25edf1d6537f447e","file_id":"11383"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"01","oa_version":"Published Version","arxiv":1,"author":[{"orcid":"0000-0002-7214-0171","last_name":"Bod'ová","id":"2BA24EA0-F248-11E8-B48F-1D18A9856A87","full_name":"Bod'ová, Katarína","first_name":"Katarína"},{"full_name":"Szep, Eniko","first_name":"Eniko","last_name":"Szep","id":"485BB5A4-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","full_name":"Barton, Nicholas H","first_name":"Nicholas H"}],"doi":"10.1371/journal.pcbi.1009661","_id":"10535","article_type":"original","file_date_updated":"2022-05-16T08:53:11Z","acknowledged_ssus":[{"_id":"ScienComp"}],"article_number":"e1009661","year":"2021","acknowledgement":"Computational resources for the study were provided by the Institute of Science and Technology, Austria.\r\nKB received funding from the Scientific Grant Agency of the Slovak Republic under the Grants Nos. 1/0755/19 and 1/0521/20.","citation":{"chicago":"Bodova, Katarina, Eniko Szep, and Nicholas H Barton. “Dynamic Maximum Entropy Provides Accurate Approximation of Structured Population Dynamics.” <i>PLoS Computational Biology</i>. Public Library of Science, 2021. <a href=\"https://doi.org/10.1371/journal.pcbi.1009661\">https://doi.org/10.1371/journal.pcbi.1009661</a>.","ista":"Bodova K, Szep E, Barton NH. 2021. Dynamic maximum entropy provides accurate approximation of structured population dynamics. PLoS Computational Biology. 17(12), e1009661.","mla":"Bodova, Katarina, et al. “Dynamic Maximum Entropy Provides Accurate Approximation of Structured Population Dynamics.” <i>PLoS Computational Biology</i>, vol. 17, no. 12, e1009661, Public Library of Science, 2021, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1009661\">10.1371/journal.pcbi.1009661</a>.","short":"K. Bodova, E. Szep, N.H. Barton, PLoS Computational Biology 17 (2021).","ieee":"K. Bodova, E. Szep, and N. H. Barton, “Dynamic maximum entropy provides accurate approximation of structured population dynamics,” <i>PLoS Computational Biology</i>, vol. 17, no. 12. Public Library of Science, 2021.","ama":"Bodova K, Szep E, Barton NH. Dynamic maximum entropy provides accurate approximation of structured population dynamics. <i>PLoS Computational Biology</i>. 2021;17(12). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1009661\">10.1371/journal.pcbi.1009661</a>","apa":"Bodova, K., Szep, E., &#38; Barton, N. H. (2021). Dynamic maximum entropy provides accurate approximation of structured population dynamics. <i>PLoS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1009661\">https://doi.org/10.1371/journal.pcbi.1009661</a>"},"date_created":"2021-12-12T23:01:27Z","date_published":"2021-12-01T00:00:00Z","publisher":"Public Library of Science","quality_controlled":"1","volume":17,"department":[{"_id":"NiBa"},{"_id":"GaTk"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ddc":["570"],"abstract":[{"lang":"eng","text":"Realistic models of biological processes typically involve interacting components on multiple scales, driven by changing environment and inherent stochasticity. Such models are often analytically and numerically intractable. We revisit a dynamic maximum entropy method that combines a static maximum entropy with a quasi-stationary approximation. This allows us to reduce stochastic non-equilibrium dynamics expressed by the Fokker-Planck equation to a simpler low-dimensional deterministic dynamics, without the need to track microscopic details. Although the method has been previously applied to a few (rather complicated) applications in population genetics, our main goal here is to explain and to better understand how the method works. We demonstrate the usefulness of the method for two widely studied stochastic problems, highlighting its accuracy in capturing important macroscopic quantities even in rapidly changing non-stationary conditions. For the Ornstein-Uhlenbeck process, the method recovers the exact dynamics whilst for a stochastic island model with migration from other habitats, the approximation retains high macroscopic accuracy under a wide range of scenarios in a dynamic environment."}],"external_id":{"pmid":["34851948"],"arxiv":["2102.03669"]},"publication_status":"published"},{"related_material":{"record":[{"relation":"part_of_dissertation","id":"7435","status":"deleted"},{"id":"7481","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"9416"},{"id":"7479","relation":"part_of_dissertation","status":"public"}]},"degree_awarded":"PhD","year":"2021","date_created":"2021-05-24T13:06:23Z","citation":{"ista":"Phuong M. 2021. Underspecification in deep learning. Institute of Science and Technology Austria.","chicago":"Phuong, Mary. “Underspecification in Deep Learning.” Institute of Science and Technology Austria, 2021. <a href=\"https://doi.org/10.15479/AT:ISTA:9418\">https://doi.org/10.15479/AT:ISTA:9418</a>.","mla":"Phuong, Mary. <i>Underspecification in Deep Learning</i>. Institute of Science and Technology Austria, 2021, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:9418\">10.15479/AT:ISTA:9418</a>.","ama":"Phuong M. Underspecification in deep learning. 2021. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:9418\">10.15479/AT:ISTA:9418</a>","ieee":"M. Phuong, “Underspecification in deep learning,” Institute of Science and Technology Austria, 2021.","short":"M. Phuong, Underspecification in Deep Learning, Institute of Science and Technology Austria, 2021.","apa":"Phuong, M. (2021). <i>Underspecification in deep learning</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:9418\">https://doi.org/10.15479/AT:ISTA:9418</a>"},"doi":"10.15479/AT:ISTA:9418","file_date_updated":"2021-05-24T11:56:02Z","_id":"9418","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"CampIT"},{"_id":"E-Lib"}],"ddc":["000"],"abstract":[{"text":"Deep learning is best known for its empirical success across a wide range of applications\r\nspanning computer vision, natural language processing and speech. Of equal significance,\r\nthough perhaps less known, are its ramifications for learning theory: deep networks have\r\nbeen observed to perform surprisingly well in the high-capacity regime, aka the overfitting\r\nor underspecified regime. Classically, this regime on the far right of the bias-variance curve\r\nis associated with poor generalisation; however, recent experiments with deep networks\r\nchallenge this view.\r\n\r\nThis thesis is devoted to investigating various aspects of underspecification in deep learning.\r\nFirst, we argue that deep learning models are underspecified on two levels: a) any given\r\ntraining dataset can be fit by many different functions, and b) any given function can be\r\nexpressed by many different parameter configurations. We refer to the second kind of\r\nunderspecification as parameterisation redundancy and we precisely characterise its extent.\r\nSecond, we characterise the implicit criteria (the inductive bias) that guide learning in the\r\nunderspecified regime. Specifically, we consider a nonlinear but tractable classification\r\nsetting, and show that given the choice, neural networks learn classifiers with a large margin.\r\nThird, we consider learning scenarios where the inductive bias is not by itself sufficient to\r\ndeal with underspecification. We then study different ways of ‘tightening the specification’: i)\r\nIn the setting of representation learning with variational autoencoders, we propose a hand-\r\ncrafted regulariser based on mutual information. ii) In the setting of binary classification, we\r\nconsider soft-label (real-valued) supervision. We derive a generalisation bound for linear\r\nnetworks supervised in this way and verify that soft labels facilitate fast learning. Finally, we\r\nexplore an application of soft-label supervision to the training of multi-exit models.","lang":"eng"}],"publication_status":"published","publisher":"Institute of Science and Technology Austria","supervisor":[{"first_name":"Christoph","full_name":"Lampert, Christoph","orcid":"0000-0001-8622-7887","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","last_name":"Lampert"}],"date_published":"2021-05-30T00:00:00Z","department":[{"_id":"GradSch"},{"_id":"ChLa"}],"page":"125","has_accepted_license":"1","date_updated":"2023-09-08T11:11:12Z","oa":1,"article_processing_charge":"No","title":"Underspecification in deep learning","language":[{"iso":"eng"}],"publication_identifier":{"issn":["2663-337X"]},"month":"05","day":"30","oa_version":"Published Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"file_name":"mph-thesis-v519-pdfimages.pdf","checksum":"4f0abe64114cfed264f9d36e8d1197e3","file_id":"9419","success":1,"date_updated":"2021-05-24T11:22:29Z","date_created":"2021-05-24T11:22:29Z","creator":"bphuong","content_type":"application/pdf","relation":"main_file","access_level":"open_access","file_size":2673905},{"creator":"bphuong","content_type":"application/zip","relation":"source_file","file_size":92995100,"access_level":"closed","checksum":"f5699e876bc770a9b0df8345a77720a2","file_id":"9420","file_name":"thesis.zip","date_updated":"2021-05-24T11:56:02Z","date_created":"2021-05-24T11:56:02Z"}],"author":[{"full_name":"Bui Thi Mai, Phuong","first_name":"Phuong","last_name":"Bui Thi Mai","id":"3EC6EE64-F248-11E8-B48F-1D18A9856A87"}],"alternative_title":["ISTA Thesis"],"type":"dissertation","status":"public"},{"doi":"10.1038/s41467-021-23506-0","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"LifeSc"},{"_id":"EM-Fac"}],"article_type":"original","_id":"9431","file_date_updated":"2021-06-09T15:21:14Z","article_number":"3226","related_material":{"link":[{"relation":"press_release","url":"https://ist.ac.at/en/news/how-retroviruses-become-infectious/","description":"News on IST Homepage"}]},"keyword":["General Biochemistry","Genetics and Molecular Biology","General Physics and Astronomy","General Chemistry"],"date_created":"2021-05-28T14:25:50Z","citation":{"ista":"Obr M, Ricana CL, Nikulin N, Feathers J-PR, Klanschnig M, Thader A, Johnson MC, Vogt VM, Schur FK, Dick RA. 2021. Structure of the mature Rous sarcoma virus lattice reveals a role for IP6 in the formation of the capsid hexamer. Nature Communications. 12(1), 3226.","mla":"Obr, Martin, et al. “Structure of the Mature Rous Sarcoma Virus Lattice Reveals a Role for IP6 in the Formation of the Capsid Hexamer.” <i>Nature Communications</i>, vol. 12, no. 1, 3226, Nature Research, 2021, doi:<a href=\"https://doi.org/10.1038/s41467-021-23506-0\">10.1038/s41467-021-23506-0</a>.","chicago":"Obr, Martin, Clifton L. Ricana, Nadia Nikulin, Jon-Philip R. Feathers, Marco Klanschnig, Andreas Thader, Marc C. Johnson, Volker M. Vogt, Florian KM Schur, and Robert A. Dick. “Structure of the Mature Rous Sarcoma Virus Lattice Reveals a Role for IP6 in the Formation of the Capsid Hexamer.” <i>Nature Communications</i>. Nature Research, 2021. <a href=\"https://doi.org/10.1038/s41467-021-23506-0\">https://doi.org/10.1038/s41467-021-23506-0</a>.","short":"M. Obr, C.L. Ricana, N. Nikulin, J.-P.R. Feathers, M. Klanschnig, A. Thader, M.C. Johnson, V.M. Vogt, F.K. Schur, R.A. Dick, Nature Communications 12 (2021).","ama":"Obr M, Ricana CL, Nikulin N, et al. Structure of the mature Rous sarcoma virus lattice reveals a role for IP6 in the formation of the capsid hexamer. <i>Nature Communications</i>. 2021;12(1). doi:<a href=\"https://doi.org/10.1038/s41467-021-23506-0\">10.1038/s41467-021-23506-0</a>","ieee":"M. Obr <i>et al.</i>, “Structure of the mature Rous sarcoma virus lattice reveals a role for IP6 in the formation of the capsid hexamer,” <i>Nature Communications</i>, vol. 12, no. 1. Nature Research, 2021.","apa":"Obr, M., Ricana, C. L., Nikulin, N., Feathers, J.-P. R., Klanschnig, M., Thader, A., … Dick, R. A. (2021). Structure of the mature Rous sarcoma virus lattice reveals a role for IP6 in the formation of the capsid hexamer. <i>Nature Communications</i>. Nature Research. <a href=\"https://doi.org/10.1038/s41467-021-23506-0\">https://doi.org/10.1038/s41467-021-23506-0</a>"},"year":"2021","acknowledgement":"This work was funded by the National Institute of Allergy and Infectious Diseases under awards R01AI147890 to R.A.D., R01AI150454 to V.M.V, R35GM136258 in support of J-P.R.F, and the Austrian Science Fund (FWF) grant P31445 to F.K.M.S. Access to high-resolution cryo-ET data acquisition at EMBL Heidelberg was supported by iNEXT (grant no. 653706), funded by the Horizon 2020 program of the European Union (PID 4246). We thank Wim Hagen and Felix Weis at EMBL Heidelberg for support in cryo-ET data acquisition. This work made use of the Cornell Center for Materials Research Shared Facilities, which are supported through the NSF MRSEC program (DMR-179875). This research was also supported by the Scientific Service Units (SSUs) of IST Austria through resources provided by Scientific Computing (SciComp), the Life Science Facility (LSF), and the Electron Microscopy Facility (EMF).","volume":12,"quality_controlled":"1","department":[{"_id":"FlSc"}],"date_published":"2021-05-28T00:00:00Z","publisher":"Nature Research","project":[{"call_identifier":"FWF","name":"Structural conservation and diversity in retroviral capsid","_id":"26736D6A-B435-11E9-9278-68D0E5697425","grant_number":"P31445"}],"abstract":[{"lang":"eng","text":"Inositol hexakisphosphate (IP6) is an assembly cofactor for HIV-1. We report here that IP6 is also used for assembly of Rous sarcoma virus (RSV), a retrovirus from a different genus. IP6 is ~100-fold more potent at promoting RSV mature capsid protein (CA) assembly than observed for HIV-1 and removal of IP6 in cells reduces infectivity by 100-fold. Here, visualized by cryo-electron tomography and subtomogram averaging, mature capsid-like particles show an IP6-like density in the CA hexamer, coordinated by rings of six lysines and six arginines. Phosphate and IP6 have opposing effects on CA in vitro assembly, inducing formation of T = 1 icosahedrons and tubes, respectively, implying that phosphate promotes pentamer and IP6 hexamer formation. Subtomogram averaging and classification optimized for analysis of pleomorphic retrovirus particles reveal that the heterogeneity of mature RSV CA polyhedrons results from an unexpected, intrinsic CA hexamer flexibility. In contrast, the CA pentamer forms rigid units organizing the local architecture. These different features of hexamers and pentamers determine the structural mechanism to form CA polyhedrons of variable shape in mature RSV particles."}],"external_id":{"isi":["000659145000011"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ddc":["570"],"publication_status":"published","publication":"Nature Communications","language":[{"iso":"eng"}],"has_accepted_license":"1","intvolume":"        12","scopus_import":"1","isi":1,"title":"Structure of the mature Rous sarcoma virus lattice reveals a role for IP6 in the formation of the capsid hexamer","article_processing_charge":"No","issue":"1","oa":1,"date_updated":"2023-08-08T13:53:53Z","status":"public","type":"journal_article","file":[{"success":1,"file_id":"9538","checksum":"53ccc53d09a9111143839dbe7784e663","file_name":"2021_NatureCommunications_Obr.pdf","date_created":"2021-06-09T15:21:14Z","date_updated":"2021-06-09T15:21:14Z","creator":"kschuh","relation":"main_file","file_size":6166295,"content_type":"application/pdf","access_level":"open_access"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","day":"28","oa_version":"Published Version","publication_identifier":{"eissn":["2041-1723"]},"month":"05","author":[{"last_name":"Obr","id":"4741CA5A-F248-11E8-B48F-1D18A9856A87","full_name":"Obr, Martin","first_name":"Martin"},{"full_name":"Ricana, Clifton L.","first_name":"Clifton L.","last_name":"Ricana"},{"first_name":"Nadia","full_name":"Nikulin, Nadia","last_name":"Nikulin"},{"first_name":"Jon-Philip R.","full_name":"Feathers, Jon-Philip R.","last_name":"Feathers"},{"last_name":"Klanschnig","first_name":"Marco","full_name":"Klanschnig, Marco"},{"first_name":"Andreas","full_name":"Thader, Andreas","id":"3A18A7B8-F248-11E8-B48F-1D18A9856A87","last_name":"Thader"},{"first_name":"Marc C.","full_name":"Johnson, Marc C.","last_name":"Johnson"},{"last_name":"Vogt","full_name":"Vogt, Volker M.","first_name":"Volker M."},{"id":"48AD8942-F248-11E8-B48F-1D18A9856A87","last_name":"Schur","orcid":"0000-0003-4790-8078","full_name":"Schur, Florian KM","first_name":"Florian KM"},{"first_name":"Robert A.","full_name":"Dick, Robert A.","last_name":"Dick"}]},{"type":"journal_article","status":"public","author":[{"id":"66E74FA2-D8BF-11E9-8249-8DE2E5697425","last_name":"Yalniz","orcid":"0000-0002-8490-9312","full_name":"Yalniz, Gökhan","first_name":"Gökhan"},{"first_name":"Björn","full_name":"Hof, Björn","orcid":"0000-0003-2057-2754","last_name":"Hof","id":"3A374330-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Budanur, Nazmi B","first_name":"Nazmi B","last_name":"Budanur","id":"3EA1010E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0423-5010"}],"arxiv":1,"publication_identifier":{"eissn":["1079-7114"],"issn":["0031-9007"]},"month":"06","main_file_link":[{"url":"https://arxiv.org/abs/2007.02584","open_access":"1"}],"day":"18","oa_version":"Preprint","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"publication":"Physical Review Letters","date_updated":"2023-08-08T14:08:36Z","oa":1,"article_processing_charge":"No","issue":"24","title":"Coarse graining the state space of a turbulent flow using periodic orbits","isi":1,"intvolume":"       126","project":[{"name":"Revisiting the Turbulence Problem Using Statistical Mechanics: Experimental Studies on Transitional and Turbulent Flows","_id":"238598C6-32DE-11EA-91FC-C7463DDC885E","grant_number":"662960"}],"publisher":"American Physical Society","date_published":"2021-06-18T00:00:00Z","department":[{"_id":"GradSch"},{"_id":"BjHo"}],"quality_controlled":"1","volume":126,"publication_status":"published","external_id":{"isi":["000663310100008"],"arxiv":["2007.02584"]},"abstract":[{"text":"We show that turbulent dynamics that arise in simulations of the three-dimensional Navier--Stokes equations in a triply-periodic domain under sinusoidal forcing can be described as transient visits to the neighborhoods of unstable time-periodic solutions. Based on this description, we reduce the original system with more than 10^5 degrees of freedom to a 17-node Markov chain where each node corresponds to the neighborhood of a periodic orbit. The model accurately reproduces long-term averages of the system's observables as weighted sums over the periodic orbits.\r\n","lang":"eng"}],"_id":"9558","article_type":"letter_note","acknowledged_ssus":[{"_id":"ScienComp"}],"doi":"10.1103/PhysRevLett.126.244502","acknowledgement":"We thank the referees for improving this Letter with their comments. We acknowledge stimulating discussions with\r\nH. Edelsbrunner. This work was supported by Grant No. 662960 from the Simons Foundation (B. H.). The numerical calculations were performed at TUBITAK ULAKBIM High Performance and Grid Computing Center (TRUBA resources) and IST Austria High Performance Computing cluster.","year":"2021","citation":{"apa":"Yalniz, G., Hof, B., &#38; Budanur, N. B. (2021). Coarse graining the state space of a turbulent flow using periodic orbits. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.126.244502\">https://doi.org/10.1103/PhysRevLett.126.244502</a>","mla":"Yalniz, Gökhan, et al. “Coarse Graining the State Space of a Turbulent Flow Using Periodic Orbits.” <i>Physical Review Letters</i>, vol. 126, no. 24, 244502, American Physical Society, 2021, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.126.244502\">10.1103/PhysRevLett.126.244502</a>.","chicago":"Yalniz, Gökhan, Björn Hof, and Nazmi B Budanur. “Coarse Graining the State Space of a Turbulent Flow Using Periodic Orbits.” <i>Physical Review Letters</i>. American Physical Society, 2021. <a href=\"https://doi.org/10.1103/PhysRevLett.126.244502\">https://doi.org/10.1103/PhysRevLett.126.244502</a>.","ista":"Yalniz G, Hof B, Budanur NB. 2021. Coarse graining the state space of a turbulent flow using periodic orbits. Physical Review Letters. 126(24), 244502.","short":"G. Yalniz, B. Hof, N.B. Budanur, Physical Review Letters 126 (2021).","ieee":"G. Yalniz, B. Hof, and N. B. Budanur, “Coarse graining the state space of a turbulent flow using periodic orbits,” <i>Physical Review Letters</i>, vol. 126, no. 24. American Physical Society, 2021.","ama":"Yalniz G, Hof B, Budanur NB. Coarse graining the state space of a turbulent flow using periodic orbits. <i>Physical Review Letters</i>. 2021;126(24). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.126.244502\">10.1103/PhysRevLett.126.244502</a>"},"date_created":"2021-06-16T15:45:36Z","related_material":{"link":[{"url":"https://ist.ac.at/en/news/turbulent-flow-simplified/","description":"News on IST Homepage","relation":"press_release"}]},"article_number":"244502"},{"date_created":"2021-08-08T22:01:27Z","citation":{"short":"G. Sperl, R. Narain, C. Wojtan, ACM Transactions on Graphics 40 (2021).","ieee":"G. Sperl, R. Narain, and C. Wojtan, “Mechanics-aware deformation of yarn pattern geometry,” <i>ACM Transactions on Graphics</i>, vol. 40, no. 4. Association for Computing Machinery, 2021.","ama":"Sperl G, Narain R, Wojtan C. Mechanics-aware deformation of yarn pattern geometry. <i>ACM Transactions on Graphics</i>. 2021;40(4). doi:<a href=\"https://doi.org/10.1145/3450626.3459816\">10.1145/3450626.3459816</a>","chicago":"Sperl, Georg, Rahul Narain, and Chris Wojtan. “Mechanics-Aware Deformation of Yarn Pattern Geometry.” <i>ACM Transactions on Graphics</i>. Association for Computing Machinery, 2021. <a href=\"https://doi.org/10.1145/3450626.3459816\">https://doi.org/10.1145/3450626.3459816</a>.","mla":"Sperl, Georg, et al. “Mechanics-Aware Deformation of Yarn Pattern Geometry.” <i>ACM Transactions on Graphics</i>, vol. 40, no. 4, 168, Association for Computing Machinery, 2021, doi:<a href=\"https://doi.org/10.1145/3450626.3459816\">10.1145/3450626.3459816</a>.","ista":"Sperl G, Narain R, Wojtan C. 2021. Mechanics-aware deformation of yarn pattern geometry. ACM Transactions on Graphics. 40(4), 168.","apa":"Sperl, G., Narain, R., &#38; Wojtan, C. (2021). Mechanics-aware deformation of yarn pattern geometry. <i>ACM Transactions on Graphics</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3450626.3459816\">https://doi.org/10.1145/3450626.3459816</a>"},"acknowledgement":"We wish to thank the anonymous reviewers and the members of the Visual Computing Group at IST Austria for their valuable feedback. We also thank Seddi Labs for providing the garment model with fold-over seams.\r\nThis research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific\r\nComputing. This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme under grant agreement No. 638176. Rahul Narain is supported by a Pankaj Gupta Young Faculty Fellowship and a gift from Adobe Inc.","year":"2021","ec_funded":1,"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"12358"},{"status":"public","id":"9327","relation":"software"}],"link":[{"relation":"press_release","url":"https://ist.ac.at/en/news/knitting-virtual-yarn/","description":"News on IST Webpage"}]},"article_number":"168","acknowledged_ssus":[{"_id":"ScienComp"}],"_id":"9818","article_type":"original","doi":"10.1145/3450626.3459816","publication_status":"published","external_id":{"isi":["000674930900132"]},"abstract":[{"lang":"eng","text":"Triangle mesh-based simulations are able to produce satisfying animations of knitted and woven cloth; however, they lack the rich geometric detail of yarn-level simulations. Naive texturing approaches do not consider yarn-level physics, while full yarn-level simulations may become prohibitively expensive for large garments. We propose a method to animate yarn-level cloth geometry on top of an underlying deforming mesh in a mechanics-aware fashion. Using triangle strains to interpolate precomputed yarn geometry, we are able to reproduce effects such as knit loops tightening under stretching. In combination with precomputed mesh animation or real-time mesh simulation, our method is able to animate yarn-level cloth in real-time at large scales."}],"project":[{"grant_number":"638176","_id":"2533E772-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Efficient Simulation of Natural Phenomena at Extremely Large Scales"}],"department":[{"_id":"GradSch"},{"_id":"ChWo"}],"volume":40,"quality_controlled":"1","publisher":"Association for Computing Machinery","date_published":"2021-08-01T00:00:00Z","title":"Mechanics-aware deformation of yarn pattern geometry","date_updated":"2023-08-10T14:24:36Z","oa":1,"issue":"4","article_processing_charge":"Yes (in subscription journal)","scopus_import":"1","intvolume":"        40","isi":1,"language":[{"iso":"eng"}],"publication":"ACM Transactions on Graphics","author":[{"id":"4DD40360-F248-11E8-B48F-1D18A9856A87","last_name":"Sperl","full_name":"Sperl, Georg","first_name":"Georg"},{"full_name":"Narain, Rahul","first_name":"Rahul","last_name":"Narain"},{"orcid":"0000-0001-6646-5546","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","last_name":"Wojtan","first_name":"Christopher J","full_name":"Wojtan, Christopher J"}],"oa_version":"Published Version","day":"01","main_file_link":[{"url":"https://doi.org/10.1145/3450626.3459816","open_access":"1"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"issn":["07300301"],"eissn":["15577368"]},"month":"08","type":"journal_article","status":"public"},{"acknowledged_ssus":[{"_id":"ScienComp"}],"_id":"11458","citation":{"apa":"Peste, E.-A., Iofinova, E. B., Vladu, A., &#38; Alistarh, D.-A. (2021). AC/DC: Alternating Compressed/DeCompressed training of deep neural networks. In <i>35th Conference on Neural Information Processing Systems</i> (Vol. 34, pp. 8557–8570). Virtual, Online: Curran Associates.","mla":"Peste, Elena-Alexandra, et al. “AC/DC: Alternating Compressed/DeCompressed Training of Deep Neural Networks.” <i>35th Conference on Neural Information Processing Systems</i>, vol. 34, Curran Associates, 2021, pp. 8557–70.","chicago":"Peste, Elena-Alexandra, Eugenia B Iofinova, Adrian Vladu, and Dan-Adrian Alistarh. “AC/DC: Alternating Compressed/DeCompressed Training of Deep Neural Networks.” In <i>35th Conference on Neural Information Processing Systems</i>, 34:8557–70. Curran Associates, 2021.","ista":"Peste E-A, Iofinova EB, Vladu A, Alistarh D-A. 2021. AC/DC: Alternating Compressed/DeCompressed training of deep neural networks. 35th Conference on Neural Information Processing Systems. NeurIPS: Neural Information Processing Systems vol. 34, 8557–8570.","short":"E.-A. Peste, E.B. Iofinova, A. Vladu, D.-A. Alistarh, in:, 35th Conference on Neural Information Processing Systems, Curran Associates, 2021, pp. 8557–8570.","ieee":"E.-A. Peste, E. B. Iofinova, A. Vladu, and D.-A. Alistarh, “AC/DC: Alternating Compressed/DeCompressed training of deep neural networks,” in <i>35th Conference on Neural Information Processing Systems</i>, Virtual, Online, 2021, vol. 34, pp. 8557–8570.","ama":"Peste E-A, Iofinova EB, Vladu A, Alistarh D-A. AC/DC: Alternating Compressed/DeCompressed training of deep neural networks. In: <i>35th Conference on Neural Information Processing Systems</i>. Vol 34. Curran Associates; 2021:8557-8570."},"date_created":"2022-06-20T12:11:53Z","year":"2021","acknowledgement":"This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 805223 ScaleML), and a CNRS PEPS grant. This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing (SciComp). We would also like to thank Christoph Lampert for his feedback on an earlier version of this work, as well as for providing hardware for the Transformer-XL experiments.","related_material":{"record":[{"status":"public","id":"13074","relation":"dissertation_contains"}]},"ec_funded":1,"project":[{"_id":"268A44D6-B435-11E9-9278-68D0E5697425","grant_number":"805223","call_identifier":"H2020","name":"Elastic Coordination for Scalable Machine Learning"}],"volume":34,"quality_controlled":"1","page":"8557-8570","department":[{"_id":"GradSch"},{"_id":"DaAl"}],"date_published":"2021-12-06T00:00:00Z","publisher":"Curran Associates","publication_status":"published","abstract":[{"lang":"eng","text":"The increasing computational requirements of deep neural networks (DNNs) have led to significant interest in obtaining DNN models that are sparse, yet accurate. Recent work has investigated the even harder case of sparse training, where the DNN weights are, for as much as possible, already sparse to reduce computational costs during training. Existing sparse training methods are often empirical and can have lower accuracy relative to the dense baseline. In this paper, we present a general approach called Alternating Compressed/DeCompressed (AC/DC) training of DNNs, demonstrate convergence for a variant of the algorithm, and show that AC/DC outperforms existing sparse training methods in accuracy at similar computational budgets; at high sparsity levels, AC/DC even outperforms existing methods that rely on accurate pre-trained dense models. An important property of AC/DC is that it allows co-training of dense and sparse models, yielding accurate sparse–dense model pairs at the end of the training process. This is useful in practice, where compressed variants may be desirable for deployment in resource-constrained settings without re-doing the entire training flow, and also provides us with insights into the accuracy gap between dense and compressed models. The code is available at: https://github.com/IST-DASLab/ACDC."}],"external_id":{"arxiv":["2106.12379"]},"language":[{"iso":"eng"}],"publication":"35th Conference on Neural Information Processing Systems","title":"AC/DC: Alternating Compressed/DeCompressed training of deep neural networks","article_processing_charge":"No","oa":1,"date_updated":"2023-06-01T12:54:45Z","intvolume":"        34","scopus_import":"1","status":"public","type":"conference","arxiv":1,"author":[{"first_name":"Elena-Alexandra","full_name":"Peste, Elena-Alexandra","last_name":"Peste","id":"32D78294-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Eugenia B","full_name":"Iofinova, Eugenia B","orcid":"0000-0002-7778-3221","id":"f9a17499-f6e0-11ea-865d-fdf9a3f77117","last_name":"Iofinova"},{"full_name":"Vladu, Adrian","first_name":"Adrian","last_name":"Vladu"},{"orcid":"0000-0003-3650-940X","last_name":"Alistarh","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","first_name":"Dan-Adrian","full_name":"Alistarh, Dan-Adrian"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"url":"https://proceedings.neurips.cc/paper/2021/file/48000647b315f6f00f913caa757a70b3-Paper.pdf","open_access":"1"}],"oa_version":"Published Version","day":"6","month":"12","publication_identifier":{"isbn":["9781713845393"],"issn":["1049-5258"]},"conference":{"name":"NeurIPS: Neural Information Processing Systems","start_date":"2021-12-06","location":"Virtual, Online","end_date":"2021-12-14"}},{"title":"Selective routing of spatial information flow from input to output in hippocampal granule cells","oa":1,"date_updated":"2023-08-22T08:30:55Z","issue":"6","article_processing_charge":"No","has_accepted_license":"1","intvolume":"       107","isi":1,"language":[{"iso":"eng"}],"publication":"Neuron","author":[{"last_name":"Zhang","id":"423EC9C2-F248-11E8-B48F-1D18A9856A87","first_name":"Xiaomin","full_name":"Zhang, Xiaomin"},{"full_name":"Schlögl, Alois","first_name":"Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","last_name":"Schlögl","orcid":"0000-0002-5621-8100"},{"full_name":"Jonas, Peter M","first_name":"Peter M","orcid":"0000-0001-5001-4804","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","last_name":"Jonas"}],"oa_version":"Published Version","day":"23","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"date_created":"2020-12-04T09:29:21Z","date_updated":"2020-12-04T09:29:21Z","success":1,"file_id":"8920","checksum":"44a5960fc083a4cb3488d22224859fdc","file_name":"2020_Neuron_Zhang.pdf","content_type":"application/pdf","relation":"main_file","file_size":3011120,"access_level":"open_access","creator":"dernst"}],"publication_identifier":{"issn":["0896-6273"]},"month":"09","pmid":1,"status":"public","type":"journal_article","date_created":"2020-08-14T09:36:05Z","citation":{"ista":"Zhang X, Schlögl A, Jonas PM. 2020. Selective routing of spatial information flow from input to output in hippocampal granule cells. Neuron. 107(6), 1212–1225.","chicago":"Zhang, Xiaomin, Alois Schlögl, and Peter M Jonas. “Selective Routing of Spatial Information Flow from Input to Output in Hippocampal Granule Cells.” <i>Neuron</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.neuron.2020.07.006\">https://doi.org/10.1016/j.neuron.2020.07.006</a>.","mla":"Zhang, Xiaomin, et al. “Selective Routing of Spatial Information Flow from Input to Output in Hippocampal Granule Cells.” <i>Neuron</i>, vol. 107, no. 6, Elsevier, 2020, pp. 1212–25, doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.07.006\">10.1016/j.neuron.2020.07.006</a>.","short":"X. Zhang, A. Schlögl, P.M. Jonas, Neuron 107 (2020) 1212–1225.","ieee":"X. Zhang, A. Schlögl, and P. M. Jonas, “Selective routing of spatial information flow from input to output in hippocampal granule cells,” <i>Neuron</i>, vol. 107, no. 6. Elsevier, pp. 1212–1225, 2020.","ama":"Zhang X, Schlögl A, Jonas PM. Selective routing of spatial information flow from input to output in hippocampal granule cells. <i>Neuron</i>. 2020;107(6):1212-1225. doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.07.006\">10.1016/j.neuron.2020.07.006</a>","apa":"Zhang, X., Schlögl, A., &#38; Jonas, P. M. (2020). Selective routing of spatial information flow from input to output in hippocampal granule cells. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2020.07.006\">https://doi.org/10.1016/j.neuron.2020.07.006</a>"},"acknowledgement":"This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement 692692, P.J.) and the Fond zur Förderung der Wissenschaftlichen Forschung (Z 312-B27, Wittgenstein award, P.J.). We thank Gyorgy Buzsáki, Jozsef Csicsvari, Juan Ramirez Villegas, and Federico Stella for commenting on earlier versions of this manuscript. We also thank Katie Bittner, Michael Brecht, Albert Lee, Jeffery Magee, and Alejandro Pernía-Andrade for sharing expertise in in vivo patch-clamp recording. We are grateful to Florian Marr for cell labeling, cell reconstruction, and technical assistance; Ben Suter for helpful discussions; Christina Altmutter for technical support; Eleftheria Kralli-Beller for manuscript editing; and Todor Asenov (Machine Shop) for device construction. We also thank the Scientific Service Units (SSUs) of IST Austria (Machine Shop, Scientific Computing, and Preclinical Facility) for efficient support.","year":"2020","ec_funded":1,"related_material":{"link":[{"relation":"press_release","description":"News on IST Website","url":"https://ist.ac.at/en/news/the-bouncer-in-the-brain/"}]},"acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"ScienComp"},{"_id":"PreCl"}],"file_date_updated":"2020-12-04T09:29:21Z","article_type":"original","_id":"8261","doi":"10.1016/j.neuron.2020.07.006","publication_status":"published","external_id":{"isi":["000579698700009"],"pmid":["32763145"]},"abstract":[{"text":"Dentate gyrus granule cells (GCs) connect the entorhinal cortex to the hippocampal CA3 region, but how they process spatial information remains enigmatic. To examine the role of GCs in spatial coding, we measured excitatory postsynaptic potentials (EPSPs) and action potentials (APs) in head-fixed mice running on a linear belt. Intracellular recording from morphologically identified GCs revealed that most cells were active, but activity level varied over a wide range. Whereas only ∼5% of GCs showed spatially tuned spiking, ∼50% received spatially tuned input. Thus, the GC population broadly encodes spatial information, but only a subset relays this information to the CA3 network. Fourier analysis indicated that GCs received conjunctive place-grid-like synaptic input, suggesting code conversion in single neurons. GC firing was correlated with dendritic complexity and intrinsic excitability, but not extrinsic excitatory input or dendritic cable properties. Thus, functional maturation may control input-output transformation and spatial code conversion.","lang":"eng"}],"ddc":["570"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"project":[{"_id":"25B7EB9E-B435-11E9-9278-68D0E5697425","grant_number":"692692","call_identifier":"H2020","name":"Biophysics and circuit function of a giant cortical glumatergic synapse"},{"grant_number":"Z00312","_id":"25C5A090-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"The Wittgenstein Prize"}],"page":"1212-1225","department":[{"_id":"PeJo"},{"_id":"ScienComp"}],"quality_controlled":"1","volume":107,"publisher":"Elsevier","date_published":"2020-09-23T00:00:00Z"},{"month":"09","publication_identifier":{"issn":["2663-337X"]},"file":[{"creator":"jsteiner","relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_size":117547589,"checksum":"2388d7e6e7a4d364c096fa89f305c3de","file_name":"Thesis_Julia_Steiner_pdfA.pdf","file_id":"8354","date_created":"2020-09-09T14:22:35Z","date_updated":"2021-09-16T12:40:56Z"},{"file_id":"8355","checksum":"ba112f957b7145462d0ab79044873ee9","file_name":"Thesis_Julia_Steiner.docx","date_updated":"2020-09-15T08:48:37Z","date_created":"2020-09-09T14:23:25Z","creator":"jsteiner","file_size":223328668,"access_level":"closed","relation":"source_file","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","oa_version":"None","day":"09","author":[{"full_name":"Steiner, Julia","first_name":"Julia","orcid":"0000-0003-0493-3775","last_name":"Steiner","id":"3BB67EB0-F248-11E8-B48F-1D18A9856A87"}],"type":"dissertation","status":"public","alternative_title":["ISTA Thesis"],"has_accepted_license":"1","article_processing_charge":"No","oa":1,"date_updated":"2023-09-07T13:14:09Z","title":"Biochemical and structural investigation of the Mrp antiporter, an ancestor of complex I","language":[{"iso":"eng"}],"ddc":["572"],"abstract":[{"lang":"eng","text":"Mrp (Multi resistance and pH adaptation) are broadly distributed secondary active antiporters that catalyze the transport of monovalent ions such as sodium and potassium outside of the cell coupled to the inward translocation of protons. Mrp antiporters are unique in a way that they are composed of seven subunits (MrpABCDEFG) encoded in a single operon, whereas other antiporters catalyzing the same reaction are mostly encoded by a single gene. Mrp exchangers are crucial for intracellular pH homeostasis and Na+ efflux, essential mechanisms for H+ uptake under alkaline environments and for reduction of the intracellular concentration of toxic cations. Mrp displays no homology to any other monovalent Na+(K+)/H+ antiporters but Mrp subunits have primary sequence similarity to essential redox-driven proton pumps, such as respiratory complex I and membrane-bound hydrogenases. This similarity reinforces the hypothesis that these present day redox-driven proton pumps are descended from the Mrp antiporter. The Mrp structure serves as a model to understand the yet obscure coupling mechanism between ion or electron transfer and proton translocation in this large group of proteins. In the thesis, I am presenting the purification, biochemical analysis, cryo-EM analysis and molecular structure of the Mrp complex from Anoxybacillus flavithermus solved by cryo-EM at 3.0 Å resolution. Numerous conditions were screened to purify Mrp to high homogeneity and to obtain an appropriate distribution of single particles on cryo-EM grids covered with a continuous layer of ultrathin carbon. A preferred particle orientation problem was solved by performing a tilted data collection. The activity assays showed the specific pH-dependent\r\nprofile of secondary active antiporters. The molecular structure shows that Mrp is a dimer of seven-subunit protomers with 50 trans-membrane helices each. The dimer interface is built by many short and tilted transmembrane helices, probably causing a thinning of the bacterial membrane. The surface charge distribution shows an extraordinary asymmetry within each monomer, revealing presumable proton and sodium translocation pathways. The two largest\r\nand homologous Mrp subunits MrpA and MrpD probably translocate one proton each into the cell. The sodium ion is likely being translocated in the opposite direction within the small subunits along a ladder of charged and conserved residues. Based on the structure, we propose a mechanism were the antiport activity is accomplished via electrostatic interactions between the charged cations and key charged residues. The flexible key TM helices coordinate these\r\nelectrostatic interactions, while the membrane thinning between the monomers enables the translocation of sodium across the charged membrane. The entire family of redox-driven proton pumps is likely to perform their mechanism in a likewise manner."}],"publication_status":"published","date_published":"2020-09-09T00:00:00Z","supervisor":[{"full_name":"Sazanov, Leonid A","first_name":"Leonid A","orcid":"0000-0002-0977-7989","last_name":"Sazanov","id":"338D39FE-F248-11E8-B48F-1D18A9856A87"}],"publisher":"Institute of Science and Technology Austria","department":[{"_id":"LeSa"}],"page":"191","project":[{"grant_number":"24741","_id":"26169496-B435-11E9-9278-68D0E5697425","name":"Revealing the functional mechanism of Mrp antiporter, an ancestor of complex I"}],"related_material":{"record":[{"id":"8284","relation":"part_of_dissertation","status":"public"}]},"degree_awarded":"PhD","year":"2020","acknowledgement":"I acknowledge the scientific service units of the IST Austria for providing resources by the Life Science Facility, the Electron Microscopy Facility and the high-performance computer cluster. Special thanks to the cryo-EM specialists Valentin Hodirnau and Daniel Johann Gütl for spending many hours with me in front of the microscope and for supporting me to collect the data presented here. I also want to thank Professor Masahiro Ito for providing plasmid DNA\r\nencoding Mrp from Anoxybacillus flavithermus WK1. I am a recipient of a DOC Fellowship of the Austrian Academy of Sciences.","date_created":"2020-09-09T14:27:01Z","citation":{"short":"J. Steiner, Biochemical and Structural Investigation of the Mrp Antiporter, an Ancestor of Complex I, Institute of Science and Technology Austria, 2020.","ama":"Steiner J. Biochemical and structural investigation of the Mrp antiporter, an ancestor of complex I. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8353\">10.15479/AT:ISTA:8353</a>","ieee":"J. Steiner, “Biochemical and structural investigation of the Mrp antiporter, an ancestor of complex I,” Institute of Science and Technology Austria, 2020.","mla":"Steiner, Julia. <i>Biochemical and Structural Investigation of the Mrp Antiporter, an Ancestor of Complex I</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8353\">10.15479/AT:ISTA:8353</a>.","ista":"Steiner J. 2020. Biochemical and structural investigation of the Mrp antiporter, an ancestor of complex I. Institute of Science and Technology Austria.","chicago":"Steiner, Julia. “Biochemical and Structural Investigation of the Mrp Antiporter, an Ancestor of Complex I.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8353\">https://doi.org/10.15479/AT:ISTA:8353</a>.","apa":"Steiner, J. (2020). <i>Biochemical and structural investigation of the Mrp antiporter, an ancestor of complex I</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8353\">https://doi.org/10.15479/AT:ISTA:8353</a>"},"doi":"10.15479/AT:ISTA:8353","_id":"8353","file_date_updated":"2021-09-16T12:40:56Z","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"EM-Fac"},{"_id":"ScienComp"}]},{"publisher":"Institute of Science and Technology Austria","date_published":"2020-09-21T00:00:00Z","supervisor":[{"first_name":"Bernd","full_name":"Bickel, Bernd","orcid":"0000-0001-6511-9385","last_name":"Bickel","id":"49876194-F248-11E8-B48F-1D18A9856A87"}],"page":"118","department":[{"_id":"BeBi"}],"project":[{"name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling","call_identifier":"H2020","_id":"24F9549A-B435-11E9-9278-68D0E5697425","grant_number":"715767"}],"ddc":["000"],"abstract":[{"lang":"eng","text":"Fabrication of curved shells plays an important role in modern design, industry, and science. Among their remarkable properties are, for example, aesthetics of organic shapes, ability to evenly distribute loads, or efficient flow separation. They find applications across vast length scales ranging from sky-scraper architecture to microscopic devices. But, at\r\nthe same time, the design of curved shells and their manufacturing process pose a variety of challenges. In this thesis, they are addressed from several perspectives. In particular, this thesis presents approaches based on the transformation of initially flat sheets into the target curved surfaces. This involves problems of interactive design of shells with nontrivial mechanical constraints, inverse design of complex structural materials, and data-driven modeling of delicate and time-dependent physical properties. At the same time, two newly-developed self-morphing mechanisms targeting flat-to-curved transformation are presented.\r\nIn architecture, doubly curved surfaces can be realized as cold bent glass panelizations. Originally flat glass panels are bent into frames and remain stressed. This is a cost-efficient fabrication approach compared to hot bending, when glass panels are shaped plastically. However such constructions are prone to breaking during bending, and it is highly\r\nnontrivial to navigate the design space, keeping the panels fabricable and aesthetically pleasing at the same time. We introduce an interactive design system for cold bent glass façades, while previously even offline optimization for such scenarios has not been sufficiently developed. Our method is based on a deep learning approach providing quick\r\nand high precision estimation of glass panel shape and stress while handling the shape\r\nmultimodality.\r\nFabrication of smaller objects of scales below 1 m, can also greatly benefit from shaping originally flat sheets. In this respect, we designed new self-morphing shell mechanisms transforming from an initial flat state to a doubly curved state with high precision and detail. Our so-called CurveUps demonstrate the encodement of the geometric information\r\ninto the shell. Furthermore, we explored the frontiers of programmable materials and showed how temporal information can additionally be encoded into a flat shell. This allows prescribing deformation sequences for doubly curved surfaces and, thus, facilitates self-collision avoidance enabling complex shapes and functionalities otherwise impossible.\r\nBoth of these methods include inverse design tools keeping the user in the design loop."}],"publication_status":"published","doi":"10.15479/AT:ISTA:8366","file_date_updated":"2020-09-16T15:11:01Z","_id":"8366","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"ScienComp"}],"ec_funded":1,"degree_awarded":"PhD","related_material":{"record":[{"status":"deleted","id":"7151","relation":"research_data"},{"id":"7262","relation":"part_of_dissertation","status":"public"},{"relation":"part_of_dissertation","id":"8562","status":"public"},{"status":"public","id":"1001","relation":"part_of_dissertation"},{"status":"public","relation":"research_data","id":"8375"}]},"acknowledgement":"During the work on this thesis, I received substantial support from IST Austria’s scientific service units. A big thank you to Todor Asenov and other Miba Machine Shop team members for their help with fabrication of experimental prototypes. In addition, I would like to thank Scientific Computing team for the support with high performance computing.\r\nFinancial support was provided by the European Research Council (ERC) under grant agreement No 715767 - MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling, which I gratefully acknowledge.","year":"2020","citation":{"apa":"Guseinov, R. (2020). <i>Computational design of curved thin shells: From glass façades to programmable matter</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8366\">https://doi.org/10.15479/AT:ISTA:8366</a>","ama":"Guseinov R. Computational design of curved thin shells: From glass façades to programmable matter. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8366\">10.15479/AT:ISTA:8366</a>","ieee":"R. Guseinov, “Computational design of curved thin shells: From glass façades to programmable matter,” Institute of Science and Technology Austria, 2020.","short":"R. Guseinov, Computational Design of Curved Thin Shells: From Glass Façades to Programmable Matter, Institute of Science and Technology Austria, 2020.","ista":"Guseinov R. 2020. Computational design of curved thin shells: From glass façades to programmable matter. Institute of Science and Technology Austria.","chicago":"Guseinov, Ruslan. “Computational Design of Curved Thin Shells: From Glass Façades to Programmable Matter.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8366\">https://doi.org/10.15479/AT:ISTA:8366</a>.","mla":"Guseinov, Ruslan. <i>Computational Design of Curved Thin Shells: From Glass Façades to Programmable Matter</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8366\">10.15479/AT:ISTA:8366</a>."},"date_created":"2020-09-10T16:19:55Z","keyword":["computer-aided design","shape modeling","self-morphing","mechanical engineering"],"alternative_title":["ISTA Thesis"],"status":"public","type":"dissertation","publication_identifier":{"isbn":["978-3-99078-010-7"],"issn":["2663-337X"]},"month":"09","day":"21","oa_version":"Published Version","file":[{"creator":"rguseino","relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_size":70950442,"checksum":"f8da89553da36037296b0a80f14ebf50","file_id":"8367","file_name":"thesis_rguseinov.pdf","success":1,"date_updated":"2020-09-10T16:11:49Z","date_created":"2020-09-10T16:11:49Z"},{"date_created":"2020-09-11T09:39:48Z","date_updated":"2020-09-16T15:11:01Z","checksum":"e8fd944c960c20e0e27e6548af69121d","file_name":"thesis_source.zip","file_id":"8374","file_size":76207597,"relation":"source_file","access_level":"closed","content_type":"application/x-zip-compressed","creator":"rguseino"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","author":[{"id":"3AB45EE2-F248-11E8-B48F-1D18A9856A87","last_name":"Guseinov","orcid":"0000-0001-9819-5077","first_name":"Ruslan","full_name":"Guseinov, Ruslan"}],"language":[{"iso":"eng"}],"has_accepted_license":"1","oa":1,"date_updated":"2024-02-21T12:44:29Z","article_processing_charge":"No","title":"Computational design of curved thin shells: From glass façades to programmable matter"},{"publication_identifier":{"eissn":["15577368"],"issn":["07300301"]},"month":"07","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_size":14935529,"creator":"dernst","date_updated":"2020-11-23T09:03:19Z","date_created":"2020-11-23T09:03:19Z","file_name":"2020_soapfilm_submitted.pdf","checksum":"813831ca91319d794d9748c276b24578","file_id":"8795","success":1}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1145/3386569.3392405"}],"day":"08","oa_version":"Submitted Version","author":[{"full_name":"Ishida, Sadashige","first_name":"Sadashige","id":"6F7C4B96-A8E9-11E9-A7CA-09ECE5697425","last_name":"Ishida"},{"first_name":"Peter","full_name":"Synak, Peter","last_name":"Synak","id":"331776E2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Narita, Fumiya","first_name":"Fumiya","last_name":"Narita"},{"last_name":"Hachisuka","first_name":"Toshiya","full_name":"Hachisuka, Toshiya"},{"orcid":"0000-0001-6646-5546","last_name":"Wojtan","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","first_name":"Christopher J","full_name":"Wojtan, Christopher J"}],"type":"journal_article","status":"public","isi":1,"scopus_import":"1","has_accepted_license":"1","intvolume":"        39","issue":"4","article_processing_charge":"No","oa":1,"date_updated":"2024-02-28T12:57:31Z","title":"A model for soap film dynamics with evolving thickness","publication":"ACM Transactions on Graphics","language":[{"iso":"eng"}],"ddc":["000"],"abstract":[{"text":"Previous research on animations of soap bubbles, films, and foams largely focuses on the motion and geometric shape of the bubble surface. These works neglect the evolution of the bubble’s thickness, which is normally responsible for visual phenomena like surface vortices, Newton’s interference patterns, capillary waves, and deformation-dependent rupturing of films in a foam. In this paper, we model these natural phenomena by introducing the film thickness as a reduced degree of freedom in the Navier-Stokes equations and deriving their equations of motion. We discretize the equations on a nonmanifold triangle mesh surface and couple it to an existing bubble solver. In doing so, we also introduce an incompressible fluid solver for 2.5D films and a novel advection algorithm for convecting fields across non-manifold surface junctions. Our simulations enhance state-of-the-art bubble solvers with additional effects caused by convection, rippling, draining, and evaporation of the thin film.","lang":"eng"}],"external_id":{"isi":["000583700300004"]},"publication_status":"published","date_published":"2020-07-08T00:00:00Z","publisher":"Association for Computing Machinery","volume":39,"quality_controlled":"1","department":[{"_id":"ChWo"}],"project":[{"call_identifier":"H2020","name":"Efficient Simulation of Natural Phenomena at Extremely Large Scales","grant_number":"638176","_id":"2533E772-B435-11E9-9278-68D0E5697425"}],"article_number":"31","ec_funded":1,"year":"2020","acknowledgement":"We wish to thank the anonymous reviewers and the members of the Visual Computing Group at IST Austria for their valuable feedback, especially Camille Schreck for her help in rendering. This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing. We would like to thank the authors of [Belcour and Barla 2017] for providing their implementation, the authors of [Atkins and Elliott 2010] and [Seychelles et al. 2008] for allowing us to use their results, and Rok Grah for helpful discussions. Finally, we thank Ryoichi Ando for many discussions from the beginning of the project that resulted in important contents of the paper including our formulation, numerical scheme, and initial implementation. This project has received funding from the\r\nEuropean Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme under grant agreement No. 638176.","date_created":"2020-09-13T22:01:18Z","citation":{"ista":"Ishida S, Synak P, Narita F, Hachisuka T, Wojtan C. 2020. A model for soap film dynamics with evolving thickness. ACM Transactions on Graphics. 39(4), 31.","chicago":"Ishida, Sadashige, Peter Synak, Fumiya Narita, Toshiya Hachisuka, and Chris Wojtan. “A Model for Soap Film Dynamics with Evolving Thickness.” <i>ACM Transactions on Graphics</i>. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3386569.3392405\">https://doi.org/10.1145/3386569.3392405</a>.","mla":"Ishida, Sadashige, et al. “A Model for Soap Film Dynamics with Evolving Thickness.” <i>ACM Transactions on Graphics</i>, vol. 39, no. 4, 31, Association for Computing Machinery, 2020, doi:<a href=\"https://doi.org/10.1145/3386569.3392405\">10.1145/3386569.3392405</a>.","short":"S. Ishida, P. Synak, F. Narita, T. Hachisuka, C. Wojtan, ACM Transactions on Graphics 39 (2020).","ieee":"S. Ishida, P. Synak, F. Narita, T. Hachisuka, and C. Wojtan, “A model for soap film dynamics with evolving thickness,” <i>ACM Transactions on Graphics</i>, vol. 39, no. 4. Association for Computing Machinery, 2020.","ama":"Ishida S, Synak P, Narita F, Hachisuka T, Wojtan C. A model for soap film dynamics with evolving thickness. <i>ACM Transactions on Graphics</i>. 2020;39(4). doi:<a href=\"https://doi.org/10.1145/3386569.3392405\">10.1145/3386569.3392405</a>","apa":"Ishida, S., Synak, P., Narita, F., Hachisuka, T., &#38; Wojtan, C. (2020). A model for soap film dynamics with evolving thickness. <i>ACM Transactions on Graphics</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3386569.3392405\">https://doi.org/10.1145/3386569.3392405</a>"},"doi":"10.1145/3386569.3392405","article_type":"original","_id":"8384","file_date_updated":"2020-11-23T09:03:19Z","acknowledged_ssus":[{"_id":"ScienComp"}]},{"article_number":"48","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"12358"}]},"ec_funded":1,"year":"2020","acknowledgement":"We wish to thank the anonymous reviewers and the members of the Visual Computing Group at IST Austria for their valuable feedback. We also thank the creators of the Berkeley Garment Library [de Joya et al. 2012] for providing garment meshes, [Krishnamurthy and Levoy 1996] and [Turk and Levoy 1994] for the armadillo and bunny meshes, the creators of libWetCloth [Fei et al. 2018] for their implementation of discrete elastic rod forces, and Tomáš Skřivan for\r\ninspiring discussions and help with Mathematica code generation. This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing. This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme under grant agreement No. 638176. Rahul Narain is supported by a Pankaj Gupta Young Faculty Fellowship and a gift from Adobe Inc.","citation":{"ista":"Sperl G, Narain R, Wojtan C. 2020. Homogenized yarn-level cloth. ACM Transactions on Graphics. 39(4), 48.","mla":"Sperl, Georg, et al. “Homogenized Yarn-Level Cloth.” <i>ACM Transactions on Graphics</i>, vol. 39, no. 4, 48, Association for Computing Machinery, 2020, doi:<a href=\"https://doi.org/10.1145/3386569.3392412\">10.1145/3386569.3392412</a>.","chicago":"Sperl, Georg, Rahul Narain, and Chris Wojtan. “Homogenized Yarn-Level Cloth.” <i>ACM Transactions on Graphics</i>. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3386569.3392412\">https://doi.org/10.1145/3386569.3392412</a>.","ieee":"G. Sperl, R. Narain, and C. Wojtan, “Homogenized yarn-level cloth,” <i>ACM Transactions on Graphics</i>, vol. 39, no. 4. Association for Computing Machinery, 2020.","ama":"Sperl G, Narain R, Wojtan C. Homogenized yarn-level cloth. <i>ACM Transactions on Graphics</i>. 2020;39(4). doi:<a href=\"https://doi.org/10.1145/3386569.3392412\">10.1145/3386569.3392412</a>","short":"G. Sperl, R. Narain, C. Wojtan, ACM Transactions on Graphics 39 (2020).","apa":"Sperl, G., Narain, R., &#38; Wojtan, C. (2020). Homogenized yarn-level cloth. <i>ACM Transactions on Graphics</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3386569.3392412\">https://doi.org/10.1145/3386569.3392412</a>"},"date_created":"2020-09-13T22:01:18Z","doi":"10.1145/3386569.3392412","article_type":"original","_id":"8385","file_date_updated":"2020-11-23T09:01:22Z","acknowledged_ssus":[{"_id":"ScienComp"}],"ddc":["000"],"abstract":[{"lang":"eng","text":"We present a method for animating yarn-level cloth effects using a thin-shell solver. We accomplish this through numerical homogenization: we first use a large number of yarn-level simulations to build a model of the potential energy density of the cloth, and then use this energy density function to compute forces in a thin shell simulator. We model several yarn-based materials, including both woven and knitted fabrics. Our model faithfully reproduces expected effects like the stiffness of woven fabrics, and the highly deformable nature and anisotropy of knitted fabrics. Our approach does not require any real-world experiments nor measurements; because the method is based entirely on simulations, it can generate entirely new material models quickly, without the need for testing apparatuses or human intervention. We provide data-driven models of several woven and knitted fabrics, which can be used for efficient simulation with an off-the-shelf cloth solver."}],"external_id":{"isi":["000583700300021"]},"publication_status":"published","date_published":"2020-07-08T00:00:00Z","publisher":"Association for Computing Machinery","volume":39,"quality_controlled":"1","department":[{"_id":"ChWo"}],"project":[{"name":"Efficient Simulation of Natural Phenomena at Extremely Large Scales","call_identifier":"H2020","grant_number":"638176","_id":"2533E772-B435-11E9-9278-68D0E5697425"}],"isi":1,"intvolume":"        39","scopus_import":"1","has_accepted_license":"1","issue":"4","article_processing_charge":"No","oa":1,"date_updated":"2024-02-28T12:57:47Z","title":"Homogenized yarn-level cloth","publication":"ACM Transactions on Graphics","language":[{"iso":"eng"}],"publication_identifier":{"issn":["07300301"],"eissn":["15577368"]},"month":"07","file":[{"creator":"dernst","content_type":"application/pdf","file_size":38922662,"relation":"main_file","access_level":"open_access","success":1,"file_name":"2020_hylc_submitted.pdf","file_id":"8794","checksum":"cf4c1d361c3196c4bd424520a5588205","date_created":"2020-11-23T09:01:22Z","date_updated":"2020-11-23T09:01:22Z"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1145/3386569.3392412"}],"day":"08","oa_version":"Submitted Version","author":[{"first_name":"Georg","full_name":"Sperl, Georg","id":"4DD40360-F248-11E8-B48F-1D18A9856A87","last_name":"Sperl"},{"last_name":"Narain","first_name":"Rahul","full_name":"Narain, Rahul"},{"orcid":"0000-0001-6646-5546","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","last_name":"Wojtan","full_name":"Wojtan, Christopher J","first_name":"Christopher J"}],"status":"public","type":"journal_article"},{"doi":"10.15479/AT:ISTA:8390","_id":"8390","file_date_updated":"2020-09-14T13:39:17Z","acknowledged_ssus":[{"_id":"CampIT"},{"_id":"ScienComp"}],"degree_awarded":"PhD","related_material":{"record":[{"relation":"part_of_dissertation","id":"7936","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"7937"},{"status":"public","relation":"part_of_dissertation","id":"8193"},{"id":"8092","relation":"part_of_dissertation","status":"public"},{"relation":"part_of_dissertation","id":"911","status":"public"}]},"year":"2020","acknowledgement":"Last but not least, I would like to acknowledge the support of the IST IT and scientific computing team for helping provide a great work environment.","date_created":"2020-09-14T13:42:09Z","citation":{"apa":"Royer, A. (2020). <i>Leveraging structure in Computer Vision tasks for flexible Deep Learning models</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8390\">https://doi.org/10.15479/AT:ISTA:8390</a>","mla":"Royer, Amélie. <i>Leveraging Structure in Computer Vision Tasks for Flexible Deep Learning Models</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8390\">10.15479/AT:ISTA:8390</a>.","chicago":"Royer, Amélie. “Leveraging Structure in Computer Vision Tasks for Flexible Deep Learning Models.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8390\">https://doi.org/10.15479/AT:ISTA:8390</a>.","ista":"Royer A. 2020. Leveraging structure in Computer Vision tasks for flexible Deep Learning models. Institute of Science and Technology Austria.","short":"A. Royer, Leveraging Structure in Computer Vision Tasks for Flexible Deep Learning Models, Institute of Science and Technology Austria, 2020.","ieee":"A. Royer, “Leveraging structure in Computer Vision tasks for flexible Deep Learning models,” Institute of Science and Technology Austria, 2020.","ama":"Royer A. Leveraging structure in Computer Vision tasks for flexible Deep Learning models. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8390\">10.15479/AT:ISTA:8390</a>"},"license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","supervisor":[{"last_name":"Lampert","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887","full_name":"Lampert, Christoph","first_name":"Christoph"}],"date_published":"2020-09-14T00:00:00Z","publisher":"Institute of Science and Technology Austria","page":"197","department":[{"_id":"ChLa"}],"tmp":{"image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","short":"CC BY-NC-SA (4.0)"},"ddc":["000"],"abstract":[{"text":"Deep neural networks have established a new standard for data-dependent feature extraction pipelines in the Computer Vision literature. Despite their remarkable performance in the standard supervised learning scenario, i.e. when models are trained with labeled data and tested on samples that follow a similar distribution, neural networks have been shown to struggle with more advanced generalization abilities, such as transferring knowledge across visually different domains, or generalizing to new unseen combinations of known concepts. In this thesis we argue that, in contrast to the usual black-box behavior of neural networks, leveraging more structured internal representations is a promising direction\r\nfor tackling such problems. In particular, we focus on two forms of structure. First, we tackle modularity: We show that (i) compositional architectures are a natural tool for modeling reasoning tasks, in that they efficiently capture their combinatorial nature, which is key for generalizing beyond the compositions seen during training. We investigate how to to learn such models, both formally and experimentally, for the task of abstract visual reasoning. Then, we show that (ii) in some settings, modularity allows us to efficiently break down complex tasks into smaller, easier, modules, thereby improving computational efficiency; We study this behavior in the context of generative models for colorization, as well as for small objects detection. Secondly, we investigate the inherently layered structure of representations learned by neural networks, and analyze its role in the context of transfer learning and domain adaptation across visually\r\ndissimilar domains. ","lang":"eng"}],"publication_status":"published","language":[{"iso":"eng"}],"has_accepted_license":"1","article_processing_charge":"No","date_updated":"2023-10-16T10:04:02Z","oa":1,"title":"Leveraging structure in Computer Vision tasks for flexible Deep Learning models","status":"public","type":"dissertation","alternative_title":["ISTA Thesis"],"month":"09","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-007-7"]},"file":[{"date_updated":"2020-09-14T13:39:14Z","date_created":"2020-09-14T13:39:14Z","checksum":"c914d2f88846032f3d8507734861b6ee","file_id":"8391","file_name":"2020_Thesis_Royer.pdf","success":1,"relation":"main_file","content_type":"application/pdf","access_level":"open_access","file_size":30224591,"creator":"dernst"},{"file_size":74227627,"relation":"main_file","access_level":"closed","content_type":"application/x-zip-compressed","creator":"dernst","date_updated":"2020-09-14T13:39:17Z","date_created":"2020-09-14T13:39:17Z","file_id":"8392","file_name":"thesis_sources.zip","checksum":"ae98fb35d912cff84a89035ae5794d3c"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","oa_version":"Published Version","day":"14","author":[{"full_name":"Royer, Amélie","first_name":"Amélie","orcid":"0000-0002-8407-0705","last_name":"Royer","id":"3811D890-F248-11E8-B48F-1D18A9856A87"}]},{"language":[{"iso":"eng"}],"publication":"ACM Transactions on Graphics","title":"Wave curves: Simulating Lagrangian water waves on dynamically deforming surfaces","date_updated":"2023-08-22T09:28:27Z","oa":1,"issue":"4","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1","intvolume":"        39","isi":1,"status":"public","type":"journal_article","author":[{"first_name":"Tomas","full_name":"Skrivan, Tomas","id":"486A5A46-F248-11E8-B48F-1D18A9856A87","last_name":"Skrivan"},{"first_name":"Andreas","full_name":"Soderstrom, Andreas","last_name":"Soderstrom"},{"last_name":"Johansson","full_name":"Johansson, John","first_name":"John"},{"last_name":"Sprenger","first_name":"Christoph","full_name":"Sprenger, Christoph"},{"last_name":"Museth","first_name":"Ken","full_name":"Museth, Ken"},{"full_name":"Wojtan, Christopher J","first_name":"Christopher J","last_name":"Wojtan","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6646-5546"}],"oa_version":"Published Version","day":"08","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"creator":"dernst","relation":"main_file","file_size":20223953,"content_type":"application/pdf","access_level":"open_access","file_id":"8541","checksum":"c3a680893f01cc4a9e961ff0a4cfa12f","file_name":"2020_ACM_Skrivan.pdf","success":1,"date_updated":"2020-09-21T07:51:44Z","date_created":"2020-09-21T07:51:44Z"}],"month":"07","publication_identifier":{"eissn":["15577368"],"issn":["07300301"]},"acknowledged_ssus":[{"_id":"ScienComp"}],"file_date_updated":"2020-09-21T07:51:44Z","_id":"8535","article_type":"original","doi":"10.1145/3386569.3392466","citation":{"ieee":"T. Skrivan, A. Soderstrom, J. Johansson, C. Sprenger, K. Museth, and C. Wojtan, “Wave curves: Simulating Lagrangian water waves on dynamically deforming surfaces,” <i>ACM Transactions on Graphics</i>, vol. 39, no. 4. Association for Computing Machinery, 2020.","ama":"Skrivan T, Soderstrom A, Johansson J, Sprenger C, Museth K, Wojtan C. Wave curves: Simulating Lagrangian water waves on dynamically deforming surfaces. <i>ACM Transactions on Graphics</i>. 2020;39(4). doi:<a href=\"https://doi.org/10.1145/3386569.3392466\">10.1145/3386569.3392466</a>","short":"T. Skrivan, A. Soderstrom, J. Johansson, C. Sprenger, K. Museth, C. Wojtan, ACM Transactions on Graphics 39 (2020).","chicago":"Skrivan, Tomas, Andreas Soderstrom, John Johansson, Christoph Sprenger, Ken Museth, and Chris Wojtan. “Wave Curves: Simulating Lagrangian Water Waves on Dynamically Deforming Surfaces.” <i>ACM Transactions on Graphics</i>. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3386569.3392466\">https://doi.org/10.1145/3386569.3392466</a>.","ista":"Skrivan T, Soderstrom A, Johansson J, Sprenger C, Museth K, Wojtan C. 2020. Wave curves: Simulating Lagrangian water waves on dynamically deforming surfaces. ACM Transactions on Graphics. 39(4), 65.","mla":"Skrivan, Tomas, et al. “Wave Curves: Simulating Lagrangian Water Waves on Dynamically Deforming Surfaces.” <i>ACM Transactions on Graphics</i>, vol. 39, no. 4, 65, Association for Computing Machinery, 2020, doi:<a href=\"https://doi.org/10.1145/3386569.3392466\">10.1145/3386569.3392466</a>.","apa":"Skrivan, T., Soderstrom, A., Johansson, J., Sprenger, C., Museth, K., &#38; Wojtan, C. (2020). Wave curves: Simulating Lagrangian water waves on dynamically deforming surfaces. <i>ACM Transactions on Graphics</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3386569.3392466\">https://doi.org/10.1145/3386569.3392466</a>"},"date_created":"2020-09-20T22:01:37Z","acknowledgement":"We wish to thank the anonymous reviewers and the members of the Visual Computing Group at IST Austria for their valuable feedback. This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing. This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme under grant agreement No. 638176 and Marie SkłodowskaCurie Grant Agreement No. 665385.","year":"2020","ec_funded":1,"article_number":"65","project":[{"grant_number":"638176","_id":"2533E772-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Efficient Simulation of Natural Phenomena at Extremely Large Scales"},{"name":"International IST Doctoral Program","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385"}],"department":[{"_id":"ChWo"}],"quality_controlled":"1","volume":39,"publisher":"Association for Computing Machinery","date_published":"2020-07-08T00:00:00Z","publication_status":"published","external_id":{"isi":["000583700300038"]},"abstract":[{"text":"We propose a method to enhance the visual detail of a water surface simulation. Our method works as a post-processing step which takes a simulation as input and increases its apparent resolution by simulating many detailed Lagrangian water waves on top of it. We extend linear water wave theory to work in non-planar domains which deform over time, and we discretize the theory using Lagrangian wave packets attached to spline curves. The method is numerically stable and trivially parallelizable, and it produces high frequency ripples with dispersive wave-like behaviors customized to the underlying fluid simulation.","lang":"eng"}],"ddc":["000"]},{"publication":"ACM Transactions on Graphics","language":[{"iso":"eng"}],"has_accepted_license":"1","intvolume":"        39","scopus_import":"1","isi":1,"title":"Computational design of cold bent glass façades","issue":"6","article_processing_charge":"No","oa":1,"date_updated":"2024-02-21T12:43:21Z","type":"journal_article","status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"creator":"bbickel","relation":"main_file","content_type":"application/pdf","access_level":"open_access","file_size":28964641,"checksum":"c7f67717ad74e670b7daeae732abe151","file_name":"coldglass.pdf","file_id":"13084","success":1,"date_updated":"2023-05-23T20:54:43Z","date_created":"2023-05-23T20:54:43Z"}],"oa_version":"Submitted Version","day":"26","publication_identifier":{"issn":["0730-0301"],"eissn":["1557-7368"]},"month":"11","arxiv":1,"author":[{"last_name":"Gavriil","full_name":"Gavriil, Konstantinos","first_name":"Konstantinos"},{"orcid":"0000-0001-9819-5077","last_name":"Guseinov","id":"3AB45EE2-F248-11E8-B48F-1D18A9856A87","first_name":"Ruslan","full_name":"Guseinov, Ruslan"},{"last_name":"Perez Rodriguez","id":"2DC83906-F248-11E8-B48F-1D18A9856A87","first_name":"Jesus","full_name":"Perez Rodriguez, Jesus"},{"first_name":"Davide","full_name":"Pellis, Davide","last_name":"Pellis"},{"full_name":"Henderson, Paul M","first_name":"Paul M","orcid":"0000-0002-5198-7445","last_name":"Henderson","id":"13C09E74-18D9-11E9-8878-32CFE5697425"},{"first_name":"Florian","full_name":"Rist, Florian","last_name":"Rist"},{"last_name":"Pottmann","full_name":"Pottmann, Helmut","first_name":"Helmut"},{"first_name":"Bernd","full_name":"Bickel, Bernd","orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","last_name":"Bickel"}],"doi":"10.1145/3414685.3417843","acknowledged_ssus":[{"_id":"ScienComp"}],"article_type":"original","_id":"8562","file_date_updated":"2023-05-23T20:54:43Z","article_number":"208","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"8366"},{"status":"public","id":"8761","relation":"research_data"}],"link":[{"url":"https://ist.ac.at/en/news/bend-dont-break/","description":"News on IST Homepage","relation":"press_release"}]},"ec_funded":1,"citation":{"apa":"Gavriil, K., Guseinov, R., Perez Rodriguez, J., Pellis, D., Henderson, P. M., Rist, F., … Bickel, B. (2020). Computational design of cold bent glass façades. <i>ACM Transactions on Graphics</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3414685.3417843\">https://doi.org/10.1145/3414685.3417843</a>","short":"K. Gavriil, R. Guseinov, J. Perez Rodriguez, D. Pellis, P.M. Henderson, F. Rist, H. Pottmann, B. Bickel, ACM Transactions on Graphics 39 (2020).","ama":"Gavriil K, Guseinov R, Perez Rodriguez J, et al. Computational design of cold bent glass façades. <i>ACM Transactions on Graphics</i>. 2020;39(6). doi:<a href=\"https://doi.org/10.1145/3414685.3417843\">10.1145/3414685.3417843</a>","ieee":"K. Gavriil <i>et al.</i>, “Computational design of cold bent glass façades,” <i>ACM Transactions on Graphics</i>, vol. 39, no. 6. Association for Computing Machinery, 2020.","ista":"Gavriil K, Guseinov R, Perez Rodriguez J, Pellis D, Henderson PM, Rist F, Pottmann H, Bickel B. 2020. Computational design of cold bent glass façades. ACM Transactions on Graphics. 39(6), 208.","chicago":"Gavriil, Konstantinos, Ruslan Guseinov, Jesus Perez Rodriguez, Davide Pellis, Paul M Henderson, Florian Rist, Helmut Pottmann, and Bernd Bickel. “Computational Design of Cold Bent Glass Façades.” <i>ACM Transactions on Graphics</i>. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3414685.3417843\">https://doi.org/10.1145/3414685.3417843</a>.","mla":"Gavriil, Konstantinos, et al. “Computational Design of Cold Bent Glass Façades.” <i>ACM Transactions on Graphics</i>, vol. 39, no. 6, 208, Association for Computing Machinery, 2020, doi:<a href=\"https://doi.org/10.1145/3414685.3417843\">10.1145/3414685.3417843</a>."},"date_created":"2020-09-23T11:30:02Z","year":"2020","acknowledgement":"We thank IST Austria’s Scientific Computing team for their support, Corinna Datsiou and Sophie Pennetier for their expert input on the practical applications of cold bent glass, and Zaha Hadid Architects and Waagner Biro for providing the architectural datasets. Photo of Fondation Louis Vuitton by Francisco Anzola / CC BY 2.0 / cropped.\r\nPhoto of Opus by Danica O. Kus. This project has received funding from the European Union’s\r\nHorizon 2020 research and innovation program under grant agreement No 675789 - Algebraic Representations in Computer-Aided Design for complEx Shapes (ARCADES), from the European Research Council (ERC) under grant agreement No 715767 - MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling, and SFB-Transregio “Discretization in Geometry and Dynamics” through grant I 2978 of the Austrian Science Fund (FWF). F. Rist and K. Gavriil have been partially supported by KAUST baseline funding.","quality_controlled":"1","volume":39,"department":[{"_id":"BeBi"}],"date_published":"2020-11-26T00:00:00Z","publisher":"Association for Computing Machinery","project":[{"_id":"24F9549A-B435-11E9-9278-68D0E5697425","grant_number":"715767","call_identifier":"H2020","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling"}],"abstract":[{"lang":"eng","text":"Cold bent glass is a promising and cost-efficient method for realizing doubly curved glass facades. They are produced by attaching planar glass sheets to curved frames and require keeping the occurring stress within safe limits.\r\nHowever, it is very challenging to navigate the design space of cold bent glass panels due to the fragility of the material, which impedes the form-finding for practically feasible and aesthetically pleasing cold bent glass facades. We propose an interactive, data-driven approach for designing cold bent glass facades that can be seamlessly integrated into a typical architectural design pipeline. Our method allows non-expert users to interactively edit a parametric surface while providing real-time feedback on the deformed shape and maximum stress of cold bent glass panels. Designs are automatically refined to minimize several fairness criteria while maximal stresses are kept within glass limits. We achieve interactive frame rates by using a differentiable Mixture Density Network trained from more than a million simulations. Given a curved boundary, our regression model is capable of handling multistable\r\nconfigurations and accurately predicting the equilibrium shape of the panel and its corresponding maximal stress. We show predictions are highly accurate and validate our results with a physical realization of a cold bent glass surface."}],"external_id":{"arxiv":["2009.03667"],"isi":["000595589100048"]},"ddc":["000"],"publication_status":"published"},{"doi":"10.1038/s41594-020-0503-8","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"ScienComp"}],"_id":"8581","article_type":"original","related_material":{"link":[{"description":"News on IST Homepage","url":"https://ist.ac.at/en/news/structure-of-atpase-solved/","relation":"press_release"}]},"date_created":"2020-09-28T08:59:27Z","citation":{"short":"G. Pinke, L. Zhou, L.A. Sazanov, Nature Structural and Molecular Biology 27 (2020) 1077–1085.","ama":"Pinke G, Zhou L, Sazanov LA. Cryo-EM structure of the entire mammalian F-type ATP synthase. <i>Nature Structural and Molecular Biology</i>. 2020;27(11):1077-1085. doi:<a href=\"https://doi.org/10.1038/s41594-020-0503-8\">10.1038/s41594-020-0503-8</a>","ieee":"G. Pinke, L. Zhou, and L. A. Sazanov, “Cryo-EM structure of the entire mammalian F-type ATP synthase,” <i>Nature Structural and Molecular Biology</i>, vol. 27, no. 11. Springer Nature, pp. 1077–1085, 2020.","ista":"Pinke G, Zhou L, Sazanov LA. 2020. Cryo-EM structure of the entire mammalian F-type ATP synthase. Nature Structural and Molecular Biology. 27(11), 1077–1085.","chicago":"Pinke, Gergely, Long Zhou, and Leonid A Sazanov. “Cryo-EM Structure of the Entire Mammalian F-Type ATP Synthase.” <i>Nature Structural and Molecular Biology</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41594-020-0503-8\">https://doi.org/10.1038/s41594-020-0503-8</a>.","mla":"Pinke, Gergely, et al. “Cryo-EM Structure of the Entire Mammalian F-Type ATP Synthase.” <i>Nature Structural and Molecular Biology</i>, vol. 27, no. 11, Springer Nature, 2020, pp. 1077–85, doi:<a href=\"https://doi.org/10.1038/s41594-020-0503-8\">10.1038/s41594-020-0503-8</a>.","apa":"Pinke, G., Zhou, L., &#38; Sazanov, L. A. (2020). Cryo-EM structure of the entire mammalian F-type ATP synthase. <i>Nature Structural and Molecular Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41594-020-0503-8\">https://doi.org/10.1038/s41594-020-0503-8</a>"},"year":"2020","acknowledgement":"We thank J. Novacek from CEITEC (Brno, Czech Republic) for assistance with collecting the FEI Krios dataset and iNEXT for providing access to CEITEC. We thank the IST Austria EM facility for access and assistance with collecting the FEI Glacios dataset. Data processing was performed at the IST high-performance computing cluster. This work has been supported by iNEXT EM HEDC (proposal 4506), funded by the Horizon 2020 Programme of the European Commission.","volume":27,"quality_controlled":"1","department":[{"_id":"LeSa"}],"page":"1077-1085","date_published":"2020-11-01T00:00:00Z","publisher":"Springer Nature","abstract":[{"lang":"eng","text":"The majority of adenosine triphosphate (ATP) powering cellular processes in eukaryotes is produced by the mitochondrial F1Fo ATP synthase. Here, we present the atomic models of the membrane Fo domain and the entire mammalian (ovine) F1Fo, determined by cryo-electron microscopy. Subunits in the membrane domain are arranged in the ‘proton translocation cluster’ attached to the c-ring and a more distant ‘hook apparatus’ holding subunit e. Unexpectedly, this subunit is anchored to a lipid ‘plug’ capping the c-ring. We present a detailed proton translocation pathway in mammalian Fo and key inter-monomer contacts in F1Fo multimers. Cryo-EM maps of F1Fo exposed to calcium reveal a retracted subunit e and a disassembled c-ring, suggesting permeability transition pore opening. We propose a model for the permeability transition pore opening, whereby subunit e pulls the lipid plug out of the c-ring. Our structure will allow the design of drugs for many emerging applications in medicine."}],"external_id":{"isi":["000569299400004"],"pmid":["32929284"]},"publication_status":"published","publication":"Nature Structural and Molecular Biology","language":[{"iso":"eng"}],"intvolume":"        27","scopus_import":"1","isi":1,"title":"Cryo-EM structure of the entire mammalian F-type ATP synthase","issue":"11","article_processing_charge":"No","date_updated":"2023-08-22T09:33:09Z","status":"public","type":"journal_article","pmid":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","day":"01","oa_version":"None","month":"11","publication_identifier":{"eissn":["15459985"],"issn":["15459993"]},"author":[{"first_name":"Gergely","full_name":"Pinke, Gergely","last_name":"Pinke","id":"4D5303E6-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-1864-8951","id":"3E751364-F248-11E8-B48F-1D18A9856A87","last_name":"Zhou","full_name":"Zhou, Long","first_name":"Long"},{"first_name":"Leonid A","full_name":"Sazanov, Leonid A","orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","last_name":"Sazanov"}]},{"project":[{"name":"Structure and isoform diversity of the Arp2/3 complex","_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A","grant_number":"P33367"},{"name":"NÖ-Fonds Preis für die Jungforscherin des Jahres am IST Austria","_id":"059B463C-7A3F-11EA-A408-12923DDC885E"}],"department":[{"_id":"FlSc"}],"quality_controlled":"1","volume":212,"publisher":"Elsevier","date_published":"2020-12-01T00:00:00Z","publication_status":"published","external_id":{"isi":["000600997800008"]},"abstract":[{"text":"Cryo-electron microscopy (cryo-EM) of cellular specimens provides insights into biological processes and structures within a native context. However, a major challenge still lies in the efficient and reproducible preparation of adherent cells for subsequent cryo-EM analysis. This is due to the sensitivity of many cellular specimens to the varying seeding and culturing conditions required for EM experiments, the often limited amount of cellular material and also the fragility of EM grids and their substrate. Here, we present low-cost and reusable 3D printed grid holders, designed to improve specimen preparation when culturing challenging cellular samples directly on grids. The described grid holders increase cell culture reproducibility and throughput, and reduce the resources required for cell culturing. We show that grid holders can be integrated into various cryo-EM workflows, including micro-patterning approaches to control cell seeding on grids, and for generating samples for cryo-focused ion beam milling and cryo-electron tomography experiments. Their adaptable design allows for the generation of specialized grid holders customized to a large variety of applications.","lang":"eng"}],"ddc":["570"],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"EM-Fac"}],"file_date_updated":"2020-12-10T14:01:10Z","_id":"8586","article_type":"original","doi":"10.1016/j.jsb.2020.107633","citation":{"apa":"Fäßler, F., Zens, B., Hauschild, R., &#38; Schur, F. K. (2020). 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. <i>Journal of Structural Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jsb.2020.107633\">https://doi.org/10.1016/j.jsb.2020.107633</a>","ama":"Fäßler F, Zens B, Hauschild R, Schur FK. 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. <i>Journal of Structural Biology</i>. 2020;212(3). doi:<a href=\"https://doi.org/10.1016/j.jsb.2020.107633\">10.1016/j.jsb.2020.107633</a>","ieee":"F. Fäßler, B. Zens, R. Hauschild, and F. K. Schur, “3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy,” <i>Journal of Structural Biology</i>, vol. 212, no. 3. Elsevier, 2020.","short":"F. Fäßler, B. Zens, R. Hauschild, F.K. Schur, Journal of Structural Biology 212 (2020).","mla":"Fäßler, Florian, et al. “3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation in Cryo-Electron Microscopy.” <i>Journal of Structural Biology</i>, vol. 212, no. 3, 107633, Elsevier, 2020, doi:<a href=\"https://doi.org/10.1016/j.jsb.2020.107633\">10.1016/j.jsb.2020.107633</a>.","chicago":"Fäßler, Florian, Bettina Zens, Robert Hauschild, and Florian KM Schur. “3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation in Cryo-Electron Microscopy.” <i>Journal of Structural Biology</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.jsb.2020.107633\">https://doi.org/10.1016/j.jsb.2020.107633</a>.","ista":"Fäßler F, Zens B, Hauschild R, Schur FK. 2020. 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. Journal of Structural Biology. 212(3), 107633."},"date_created":"2020-09-29T13:24:06Z","keyword":["electron microscopy","cryo-EM","EM sample preparation","3D printing","cell culture"],"acknowledgement":"This work was supported by the Austrian Science Fund (FWF, P33367) to FKMS. BZ acknowledges support by the Niederösterreich Fond. This research was also supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing (SciComp), the Life Science Facility (LSF), the BioImaging Facility (BIF) and the Electron Microscopy Facility (EMF). We thank Georgi Dimchev (IST Austria) and Sonja Jacob (Vienna Biocenter Core Facilities) for testing our grid holders in different experimental setups and Daniel Gütl and the Kondrashov group (IST Austria) for granting us repeated access to their 3D printers. We also thank Jonna Alanko and the Sixt lab (IST Austria) for providing us HeLa cells, primary BL6 mouse tail fibroblasts, NIH 3T3 fibroblasts and human telomerase immortalised foreskin fibroblasts for our experiments. We are thankful to Ori Avinoam and William Wan for helpful comments on the manuscript and also thank Dorotea Fracchiolla (Art&Science) for illustrating the graphical abstract.","year":"2020","related_material":{"record":[{"status":"public","id":"14592","relation":"used_in_publication"},{"status":"public","relation":"dissertation_contains","id":"12491"}]},"article_number":"107633","type":"journal_article","status":"public","author":[{"orcid":"0000-0001-7149-769X","last_name":"Fäßler","id":"404F5528-F248-11E8-B48F-1D18A9856A87","first_name":"Florian","full_name":"Fäßler, Florian"},{"id":"45FD126C-F248-11E8-B48F-1D18A9856A87","last_name":"Zens","full_name":"Zens, Bettina","first_name":"Bettina"},{"id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","last_name":"Hauschild","orcid":"0000-0001-9843-3522","first_name":"Robert","full_name":"Hauschild, Robert"},{"orcid":"0000-0003-4790-8078","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","last_name":"Schur","first_name":"Florian KM","full_name":"Schur, Florian KM"}],"day":"01","oa_version":"Published Version","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"success":1,"file_id":"8937","file_name":"2020_JourStrucBiology_Faessler.pdf","checksum":"c48cbf594e84fc2f91966ffaafc0918c","date_created":"2020-12-10T14:01:10Z","date_updated":"2020-12-10T14:01:10Z","creator":"dernst","access_level":"open_access","content_type":"application/pdf","file_size":7076870,"relation":"main_file"}],"month":"12","publication_identifier":{"issn":["1047-8477"]},"language":[{"iso":"eng"}],"publication":"Journal of Structural Biology","title":"3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy","oa":1,"date_updated":"2024-03-25T23:30:04Z","issue":"3","article_processing_charge":"Yes (via OA deal)","intvolume":"       212","has_accepted_license":"1","scopus_import":"1","isi":1},{"author":[{"first_name":"Nikola H","full_name":"Konstantinov, Nikola H","last_name":"Konstantinov","id":"4B9D76E4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Frantar, Elias","first_name":"Elias","id":"09a8f98d-ec99-11ea-ae11-c063a7b7fe5f","last_name":"Frantar"},{"last_name":"Alistarh","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3650-940X","full_name":"Alistarh, Dan-Adrian","first_name":"Dan-Adrian"},{"orcid":"0000-0001-8622-7887","last_name":"Lampert","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph","full_name":"Lampert, Christoph"}],"arxiv":1,"day":"12","oa_version":"Published Version","file":[{"relation":"main_file","access_level":"open_access","file_size":281286,"content_type":"application/pdf","creator":"dernst","date_updated":"2021-02-15T09:00:01Z","date_created":"2021-02-15T09:00:01Z","checksum":"cc755d0054bc4b2be778ea7aa7884d2f","file_name":"2020_PMLR_Konstantinov.pdf","file_id":"9120","success":1}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","conference":{"location":"Online","end_date":"2020-07-18","name":"ICML: International Conference on Machine Learning","start_date":"2020-07-12"},"publication_identifier":{"issn":["2640-3498"]},"month":"07","type":"conference","status":"public","title":"On the sample complexity of adversarial multi-source PAC learning","oa":1,"date_updated":"2023-09-07T13:42:08Z","article_processing_charge":"No","scopus_import":"1","has_accepted_license":"1","intvolume":"       119","language":[{"iso":"eng"}],"publication":"Proceedings of the 37th International Conference on Machine Learning","publication_status":"published","external_id":{"arxiv":["2002.10384"]},"abstract":[{"lang":"eng","text":"We study the problem of learning from multiple untrusted data sources, a scenario of increasing practical relevance given the recent emergence of crowdsourcing and collaborative learning paradigms. Specifically, we analyze the situation in which a learning system obtains datasets from multiple sources, some of which might be biased or even adversarially perturbed. It is\r\nknown that in the single-source case, an adversary with the power to corrupt a fixed fraction of the training data can prevent PAC-learnability, that is, even in the limit of infinitely much training data, no learning system can approach the optimal test error. In this work we show that, surprisingly, the same is not true in the multi-source setting, where the adversary can arbitrarily\r\ncorrupt a fixed fraction of the data sources. Our main results are a generalization bound that provides finite-sample guarantees for this learning setting, as well as corresponding lower bounds. Besides establishing PAC-learnability our results also show that in a cooperative learning setting sharing data with other parties has provable benefits, even if some\r\nparticipants are malicious. "}],"ddc":["000"],"project":[{"call_identifier":"H2020","name":"Elastic Coordination for Scalable Machine Learning","grant_number":"805223","_id":"268A44D6-B435-11E9-9278-68D0E5697425"}],"page":"5416-5425","department":[{"_id":"DaAl"},{"_id":"ChLa"}],"volume":119,"quality_controlled":"1","publisher":"ML Research Press","date_published":"2020-07-12T00:00:00Z","citation":{"apa":"Konstantinov, N. H., Frantar, E., Alistarh, D.-A., &#38; Lampert, C. (2020). On the sample complexity of adversarial multi-source PAC learning. In <i>Proceedings of the 37th International Conference on Machine Learning</i> (Vol. 119, pp. 5416–5425). Online: ML Research Press.","ista":"Konstantinov NH, Frantar E, Alistarh D-A, Lampert C. 2020. On the sample complexity of adversarial multi-source PAC learning. Proceedings of the 37th International Conference on Machine Learning. ICML: International Conference on Machine Learning vol. 119, 5416–5425.","chicago":"Konstantinov, Nikola H, Elias Frantar, Dan-Adrian Alistarh, and Christoph Lampert. “On the Sample Complexity of Adversarial Multi-Source PAC Learning.” In <i>Proceedings of the 37th International Conference on Machine Learning</i>, 119:5416–25. ML Research Press, 2020.","mla":"Konstantinov, Nikola H., et al. “On the Sample Complexity of Adversarial Multi-Source PAC Learning.” <i>Proceedings of the 37th International Conference on Machine Learning</i>, vol. 119, ML Research Press, 2020, pp. 5416–25.","short":"N.H. Konstantinov, E. Frantar, D.-A. Alistarh, C. Lampert, in:, Proceedings of the 37th International Conference on Machine Learning, ML Research Press, 2020, pp. 5416–5425.","ieee":"N. H. Konstantinov, E. Frantar, D.-A. Alistarh, and C. Lampert, “On the sample complexity of adversarial multi-source PAC learning,” in <i>Proceedings of the 37th International Conference on Machine Learning</i>, Online, 2020, vol. 119, pp. 5416–5425.","ama":"Konstantinov NH, Frantar E, Alistarh D-A, Lampert C. On the sample complexity of adversarial multi-source PAC learning. In: <i>Proceedings of the 37th International Conference on Machine Learning</i>. Vol 119. ML Research Press; 2020:5416-5425."},"date_created":"2020-11-05T15:25:58Z","acknowledgement":"Dan Alistarh is supported in part by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 805223 ScaleML). This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing (SciComp).","year":"2020","ec_funded":1,"related_material":{"record":[{"status":"public","id":"10799","relation":"dissertation_contains"}],"link":[{"relation":"supplementary_material","url":"http://proceedings.mlr.press/v119/konstantinov20a/konstantinov20a-supp.pdf"}]},"acknowledged_ssus":[{"_id":"ScienComp"}],"file_date_updated":"2021-02-15T09:00:01Z","_id":"8724"}]