[{"year":"2023","_id":"14463","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["1365-294X"],"issn":["0962-1083"]},"citation":{"ista":"Reeve J, Butlin RK, Koch EL, Stankowski S, Faria R. 2023. Chromosomal inversion polymorphisms are widespread across the species ranges of rough periwinkles (Littorina saxatilis and L. arcana). Molecular Ecology.","short":"J. Reeve, R.K. Butlin, E.L. Koch, S. Stankowski, R. Faria, Molecular Ecology (2023).","mla":"Reeve, James, et al. “Chromosomal Inversion Polymorphisms Are Widespread across the Species Ranges of Rough Periwinkles (Littorina Saxatilis and L. Arcana).” <i>Molecular Ecology</i>, Wiley, 2023, doi:<a href=\"https://doi.org/10.1111/mec.17160\">10.1111/mec.17160</a>.","ama":"Reeve J, Butlin RK, Koch EL, Stankowski S, Faria R. Chromosomal inversion polymorphisms are widespread across the species ranges of rough periwinkles (Littorina saxatilis and L. arcana). <i>Molecular Ecology</i>. 2023. doi:<a href=\"https://doi.org/10.1111/mec.17160\">10.1111/mec.17160</a>","apa":"Reeve, J., Butlin, R. K., Koch, E. L., Stankowski, S., &#38; Faria, R. (2023). Chromosomal inversion polymorphisms are widespread across the species ranges of rough periwinkles (Littorina saxatilis and L. arcana). <i>Molecular Ecology</i>. Wiley. <a href=\"https://doi.org/10.1111/mec.17160\">https://doi.org/10.1111/mec.17160</a>","ieee":"J. Reeve, R. K. Butlin, E. L. Koch, S. Stankowski, and R. Faria, “Chromosomal inversion polymorphisms are widespread across the species ranges of rough periwinkles (Littorina saxatilis and L. arcana),” <i>Molecular Ecology</i>. Wiley, 2023.","chicago":"Reeve, James, Roger K. Butlin, Eva L. Koch, Sean Stankowski, and Rui Faria. “Chromosomal Inversion Polymorphisms Are Widespread across the Species Ranges of Rough Periwinkles (Littorina Saxatilis and L. Arcana).” <i>Molecular Ecology</i>. Wiley, 2023. <a href=\"https://doi.org/10.1111/mec.17160\">https://doi.org/10.1111/mec.17160</a>."},"external_id":{"isi":["001085119000001"],"pmid":["37843465"]},"article_type":"original","status":"public","acknowledgement":"We would like to thank members of the Littorina team for their advice and feedback during this project. In particular, we thank Alan Le Moan, who inspired us to look at heterozygosity differences to identify inversions, and Katherine Hearn for helping with the PCA scripts. We thank Edinburgh Genomics for library preparation and sequencing. Sample collections, sequencing and data preparation were supported by the European Research Council (ERC-2015-AdG-693030- BARRIERS) and the Natural Environment Research Council (NE/P001610/1). The analysis was supported by the Swedish Research Council (vetenskaprådet; 2018-03695_VR) and the Portuguese Foundation for Science and Technology (Fundación para a Ciência e Tecnologia) through a research project (PTDC/BIA-EVL/1614/2021) and CEEC contract (2020.00275.CEECIND).","oa":1,"oa_version":"Published Version","date_created":"2023-10-29T23:01:17Z","publisher":"Wiley","title":"Chromosomal inversion polymorphisms are widespread across the species ranges of rough periwinkles (Littorina saxatilis and L. arcana)","department":[{"_id":"NiBa"}],"publication":"Molecular Ecology","abstract":[{"text":"Inversions are thought to play a key role in adaptation and speciation, suppressing recombination between diverging populations. Genes influencing adaptive traits cluster in inversions, and changes in inversion frequencies are associated with environmental differences. However, in many organisms, it is unclear if inversions are geographically and taxonomically widespread. The intertidal snail, Littorina saxatilis, is one such example. Strong associations between putative polymorphic inversions and phenotypic differences have been demonstrated between two ecotypes of L. saxatilis in Sweden and inferred elsewhere, but no direct evidence for inversion polymorphism currently exists across the species range. Using whole genome data from 107 snails, most inversion polymorphisms were found to be widespread across the species range. The frequencies of some inversion arrangements were significantly different among ecotypes, suggesting a parallel adaptive role. Many inversions were also polymorphic in the sister species, L. arcana, hinting at an ancient origin.","lang":"eng"}],"publication_status":"epub_ahead","main_file_link":[{"url":"https://doi.org/10.1111/mec.17160","open_access":"1"}],"language":[{"iso":"eng"}],"isi":1,"month":"10","day":"16","pmid":1,"quality_controlled":"1","scopus_import":"1","date_updated":"2023-12-13T13:05:27Z","doi":"10.1111/mec.17160","article_processing_charge":"Yes (in subscription journal)","author":[{"last_name":"Reeve","first_name":"James","full_name":"Reeve, James"},{"first_name":"Roger K.","last_name":"Butlin","full_name":"Butlin, Roger K."},{"first_name":"Eva L.","last_name":"Koch","full_name":"Koch, Eva L."},{"full_name":"Stankowski, Sean","id":"43161670-5719-11EA-8025-FABC3DDC885E","first_name":"Sean","last_name":"Stankowski"},{"first_name":"Rui","last_name":"Faria","full_name":"Faria, Rui"}],"date_published":"2023-10-16T00:00:00Z"},{"year":"2023","_id":"14464","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","volume":34,"page":"737-760","publication_identifier":{"issn":["0129-0541"],"eissn":["1793-6373"]},"citation":{"apa":"Ambrus, Á., Csikós, M., Kiss, G., Pach, J., &#38; Somlai, G. (2023). Optimal embedded and enclosing isosceles triangles. <i>International Journal of Foundations of Computer Science</i>. World Scientific Publishing. <a href=\"https://doi.org/10.1142/S012905412342008X\">https://doi.org/10.1142/S012905412342008X</a>","ieee":"Á. Ambrus, M. Csikós, G. Kiss, J. Pach, and G. Somlai, “Optimal embedded and enclosing isosceles triangles,” <i>International Journal of Foundations of Computer Science</i>, vol. 34, no. 7. World Scientific Publishing, pp. 737–760, 2023.","chicago":"Ambrus, Áron, Mónika Csikós, Gergely Kiss, János Pach, and Gábor Somlai. “Optimal Embedded and Enclosing Isosceles Triangles.” <i>International Journal of Foundations of Computer Science</i>. World Scientific Publishing, 2023. <a href=\"https://doi.org/10.1142/S012905412342008X\">https://doi.org/10.1142/S012905412342008X</a>.","ista":"Ambrus Á, Csikós M, Kiss G, Pach J, Somlai G. 2023. Optimal embedded and enclosing isosceles triangles. International Journal of Foundations of Computer Science. 34(7), 737–760.","short":"Á. Ambrus, M. Csikós, G. Kiss, J. Pach, G. Somlai, International Journal of Foundations of Computer Science 34 (2023) 737–760.","mla":"Ambrus, Áron, et al. “Optimal Embedded and Enclosing Isosceles Triangles.” <i>International Journal of Foundations of Computer Science</i>, vol. 34, no. 7, World Scientific Publishing, 2023, pp. 737–60, doi:<a href=\"https://doi.org/10.1142/S012905412342008X\">10.1142/S012905412342008X</a>.","ama":"Ambrus Á, Csikós M, Kiss G, Pach J, Somlai G. Optimal embedded and enclosing isosceles triangles. <i>International Journal of Foundations of Computer Science</i>. 2023;34(7):737-760. doi:<a href=\"https://doi.org/10.1142/S012905412342008X\">10.1142/S012905412342008X</a>"},"issue":"7","external_id":{"arxiv":["2205.11637"],"isi":["001080874400001"]},"article_type":"original","oa":1,"status":"public","date_created":"2023-10-29T23:01:18Z","oa_version":"Preprint","publisher":"World Scientific Publishing","publication":"International Journal of Foundations of Computer Science","department":[{"_id":"HeEd"}],"title":"Optimal embedded and enclosing isosceles triangles","abstract":[{"lang":"eng","text":"Given a triangle Δ, we study the problem of determining the smallest enclosing and largest embedded isosceles triangles of Δ with respect to area and perimeter. This problem was initially posed by Nandakumar [17, 22] and was first studied by Kiss, Pach, and Somlai [13], who showed that if Δ′ is the smallest area isosceles triangle containing Δ, then Δ′ and Δ share a side and an angle. In the present paper, we prove that for any triangle Δ, every maximum area isosceles triangle embedded in Δ and every maximum perimeter isosceles triangle embedded in Δ shares a side and an angle with Δ. Somewhat surprisingly, the case of minimum perimeter enclosing triangles is different: there are infinite families of triangles Δ whose minimum perimeter isosceles containers do not share a side and an angle with Δ."}],"arxiv":1,"publication_status":"published","intvolume":"        34","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2205.11637"}],"month":"10","isi":1,"language":[{"iso":"eng"}],"day":"05","quality_controlled":"1","scopus_import":"1","article_processing_charge":"No","doi":"10.1142/S012905412342008X","date_updated":"2023-12-13T13:04:55Z","date_published":"2023-10-05T00:00:00Z","author":[{"full_name":"Ambrus, Áron","last_name":"Ambrus","first_name":"Áron"},{"last_name":"Csikós","first_name":"Mónika","full_name":"Csikós, Mónika"},{"last_name":"Kiss","first_name":"Gergely","full_name":"Kiss, Gergely"},{"id":"E62E3130-B088-11EA-B919-BF823C25FEA4","full_name":"Pach, János","last_name":"Pach","first_name":"János"},{"last_name":"Somlai","first_name":"Gábor","full_name":"Somlai, Gábor"}]},{"file":[{"content_type":"application/pdf","date_created":"2024-02-15T09:05:21Z","success":1,"relation":"main_file","creator":"dernst","access_level":"open_access","file_size":2804641,"checksum":"17c64c1fb0d5f73252364bf98b0b9e1a","file_name":"2023_JourFluidMechanics_Marensi.pdf","date_updated":"2024-02-15T09:05:21Z","file_id":"14996"}],"publication_status":"published","intvolume":"       974","month":"11","isi":1,"project":[{"_id":"238598C6-32DE-11EA-91FC-C7463DDC885E","name":"Revisiting the Turbulence Problem Using Statistical Mechanics: Experimental Studies on Transitional and Turbulent Flows","grant_number":"662960"}],"language":[{"iso":"eng"}],"ddc":["530"],"day":"10","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"article_number":"A21","file_date_updated":"2024-02-15T09:05:21Z","quality_controlled":"1","keyword":["turbulence","transition to turbulence","patterns"],"article_processing_charge":"Yes (via OA deal)","date_updated":"2024-02-15T09:06:23Z","doi":"10.1017/jfm.2023.780","date_published":"2023-11-10T00:00:00Z","author":[{"id":"0BE7553A-1004-11EA-B805-18983DDC885E","full_name":"Marensi, Elena","last_name":"Marensi","orcid":"0000-0001-7173-4923","first_name":"Elena"},{"orcid":"0000-0002-8490-9312","last_name":"Yalniz","first_name":"Gökhan","id":"66E74FA2-D8BF-11E9-8249-8DE2E5697425","full_name":"Yalniz, Gökhan"},{"id":"3A374330-F248-11E8-B48F-1D18A9856A87","full_name":"Hof, Björn","orcid":"0000-0003-2057-2754","last_name":"Hof","first_name":"Björn"}],"has_accepted_license":"1","year":"2023","_id":"14466","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","volume":974,"publication_identifier":{"eissn":["1469-7645"],"issn":["0022-1120"]},"citation":{"ama":"Marensi E, Yalniz G, Hof B. Dynamics and proliferation of turbulent stripes in plane-Poiseuille and plane-Couette flows. <i>Journal of Fluid Mechanics</i>. 2023;974. doi:<a href=\"https://doi.org/10.1017/jfm.2023.780\">10.1017/jfm.2023.780</a>","short":"E. Marensi, G. Yalniz, B. Hof, Journal of Fluid Mechanics 974 (2023).","mla":"Marensi, Elena, et al. “Dynamics and Proliferation of Turbulent Stripes in Plane-Poiseuille and Plane-Couette Flows.” <i>Journal of Fluid Mechanics</i>, vol. 974, A21, Cambridge University Press, 2023, doi:<a href=\"https://doi.org/10.1017/jfm.2023.780\">10.1017/jfm.2023.780</a>.","ista":"Marensi E, Yalniz G, Hof B. 2023. Dynamics and proliferation of turbulent stripes in plane-Poiseuille and plane-Couette flows. Journal of Fluid Mechanics. 974, A21.","ieee":"E. Marensi, G. Yalniz, and B. Hof, “Dynamics and proliferation of turbulent stripes in plane-Poiseuille and plane-Couette flows,” <i>Journal of Fluid Mechanics</i>, vol. 974. Cambridge University Press, 2023.","chicago":"Marensi, Elena, Gökhan Yalniz, and Björn Hof. “Dynamics and Proliferation of Turbulent Stripes in Plane-Poiseuille and Plane-Couette Flows.” <i>Journal of Fluid Mechanics</i>. Cambridge University Press, 2023. <a href=\"https://doi.org/10.1017/jfm.2023.780\">https://doi.org/10.1017/jfm.2023.780</a>.","apa":"Marensi, E., Yalniz, G., &#38; Hof, B. (2023). Dynamics and proliferation of turbulent stripes in plane-Poiseuille and plane-Couette flows. <i>Journal of Fluid Mechanics</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/jfm.2023.780\">https://doi.org/10.1017/jfm.2023.780</a>"},"external_id":{"isi":["001088363700001"],"arxiv":["2212.12406"]},"article_type":"original","acknowledgement":"E.M. acknowledges funding from the ISTplus fellowship programme. G.Y. and B.H. acknowledge a grant from the Simons Foundation (662960, BH).","status":"public","oa":1,"date_created":"2023-10-30T09:32:28Z","oa_version":"Published Version","publisher":"Cambridge University Press","publication":"Journal of Fluid Mechanics","title":"Dynamics and proliferation of turbulent stripes in plane-Poiseuille and plane-Couette flows","department":[{"_id":"GradSch"},{"_id":"BjHo"}],"abstract":[{"text":"The first long-lived turbulent structures observable in planar shear flows take the form of localized stripes, inclined with respect to the mean flow direction. The dynamics of these stripes is central to transition, and recent studies proposed an analogy to directed percolation where the stripes’ proliferation is ultimately responsible for the turbulence becoming sustained. In the present study we focus on the internal stripe dynamics as well as on the eventual stripe expansion, and we compare the underlying mechanisms in pressure- and shear-driven planar flows, respectively, plane-Poiseuille and plane-Couette flow. Despite the similarities of the overall laminar–turbulence patterns, the stripe proliferation processes in the two cases are fundamentally different. Starting from the growth and sustenance of individual stripes, we find that in plane-Couette flow new streaks are created stochastically throughout the stripe whereas in plane-Poiseuille flow streak creation is deterministic and occurs locally at the downstream tip. Because of the up/downstream symmetry, Couette stripes, in contrast to Poiseuille stripes, have two weak and two strong laminar turbulent interfaces. These differences in symmetry as well as in internal growth give rise to two fundamentally different stripe splitting mechanisms. In plane-Poiseuille flow splitting is connected to the elongational growth of the original stripe, and it results from a break-off/shedding of the stripe's tail. In plane-Couette flow splitting follows from a broadening of the original stripe and a division along the stripe into two slimmer stripes.","lang":"eng"}],"arxiv":1},{"_id":"14472","has_accepted_license":"1","year":"2023","file":[{"file_name":"SGporecondensation-main.zip","checksum":"a18706e952e8660c51ede52a167270b7","file_size":62821432,"file_id":"14473","date_updated":"2023-10-30T16:31:08Z","success":1,"date_created":"2023-10-30T16:31:08Z","content_type":"application/zip","access_level":"open_access","creator":"ipalaia","relation":"main_file"},{"file_size":1697,"file_name":"README.txt","checksum":"389eab31c6509dbc05795017fb618758","date_updated":"2023-10-31T08:57:50Z","file_id":"14474","content_type":"text/plain","success":1,"date_created":"2023-10-31T08:57:50Z","relation":"main_file","creator":"dernst","access_level":"open_access"}],"type":"research_data","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Vanhille-Campos, Christian Eduardo, and Anđela Šarić. <i>Stress Granules Plug and Stabilize Damaged Endolysosomal Membranes</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14472\">10.15479/AT:ISTA:14472</a>.","ista":"Vanhille-Campos CE, Šarić A. 2023. Stress granules plug and stabilize damaged endolysosomal membranes, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:14472\">10.15479/AT:ISTA:14472</a>.","short":"C.E. Vanhille-Campos, A. Šarić, (2023).","ama":"Vanhille-Campos CE, Šarić A. Stress granules plug and stabilize damaged endolysosomal membranes. 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14472\">10.15479/AT:ISTA:14472</a>","apa":"Vanhille-Campos, C. E., &#38; Šarić, A. (2023). Stress granules plug and stabilize damaged endolysosomal membranes. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:14472\">https://doi.org/10.15479/AT:ISTA:14472</a>","ieee":"C. E. Vanhille-Campos and A. Šarić, “Stress granules plug and stabilize damaged endolysosomal membranes.” Institute of Science and Technology Austria, 2023.","chicago":"Vanhille-Campos, Christian Eduardo, and Anđela Šarić. “Stress Granules Plug and Stabilize Damaged Endolysosomal Membranes.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:14472\">https://doi.org/10.15479/AT:ISTA:14472</a>."},"month":"10","oa":1,"status":"public","day":"31","ddc":["570"],"oa_version":"Published Version","tmp":{"short":"CC0 (1.0)","image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)"},"date_created":"2023-10-30T16:38:32Z","file_date_updated":"2023-10-31T08:57:50Z","department":[{"_id":"AnSa"}],"title":"Stress granules plug and stabilize damaged endolysosomal membranes","publisher":"Institute of Science and Technology Austria","abstract":[{"text":"Data related to the following paper:\r\n\"Stress granules plug and stabilize damaged endolysosomal membranes\" (https://doi.org/10.1038/s41586-023-06726-w)\r\n\r\nAbstract: \r\nEndomembrane damage represents a form of stress that is detrimental for eukaryotic cells. To cope with this threat, cells possess mechanisms that repair the damage and restore cellular homeostasis. Endomembrane damage also results in organelle instability and the mechanisms by which cells stabilize damaged endomembranes to enable membrane repair remains unknown. In this work we use a minimal coarse-grained molecular dynamics system to explore how lipid vesicles undergoing poration in a protein-rich medium can be plugged and stabilised by condensate formation. The solution of proteins in and out of the vesicle is described by beads dispersed in implicit solvent. The membrane is described as a one-bead-thick fluid elastic layer of mechanical properties that mimic biological membranes. We tune the interactions between solution beads in the different compartments to capture the differences between the cytoplasmic and endosomal protein solutions and explore how the system responds to different degrees of membrane poration. We find that, in the right interaction regime, condensates form rapidly at the damage site upon solution mixing and act as a plug that prevents futher mixing and destabilisation of the vesicle. Further, when the condensate can interact with the membrane (wetting interactions) we find that it mediates pore sealing and membrane repair. This research is part of the work published in \"Stress granules plug and stabilize damaged endolysosomal membranes\", Bussi et al, Nature, 2023 - 10.1038/s41586-023-06726-w.","lang":"eng"}],"author":[{"first_name":"Christian Eduardo","last_name":"Vanhille-Campos","full_name":"Vanhille-Campos, Christian Eduardo","id":"3adeca52-9313-11ed-b1ac-c170b2505714"},{"id":"bf63d406-f056-11eb-b41d-f263a6566d8b","full_name":"Šarić, Anđela","orcid":"0000-0002-7854-2139","last_name":"Šarić","first_name":"Anđela"}],"date_published":"2023-10-31T00:00:00Z","doi":"10.15479/AT:ISTA:14472","date_updated":"2023-11-27T09:05:07Z","related_material":{"record":[{"id":"14610","status":"public","relation":"used_in_publication"}]},"article_processing_charge":"No"},{"citation":{"ama":"Habig M, Grasse AV, Müller J, Stukenbrock EH, Leitner H, Cremer S. Frequent horizontal chromosome transfer between asexual fungal insect pathogens. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2023.09.18.558174\">10.1101/2023.09.18.558174</a>","short":"M. Habig, A.V. Grasse, J. Müller, E.H. Stukenbrock, H. Leitner, S. Cremer, BioRxiv (n.d.).","ista":"Habig M, Grasse AV, Müller J, Stukenbrock EH, Leitner H, Cremer S. Frequent horizontal chromosome transfer between asexual fungal insect pathogens. bioRxiv, <a href=\"https://doi.org/10.1101/2023.09.18.558174\">10.1101/2023.09.18.558174</a>.","mla":"Habig, Michael, et al. “Frequent Horizontal Chromosome Transfer between Asexual Fungal Insect Pathogens.” <i>BioRxiv</i>, doi:<a href=\"https://doi.org/10.1101/2023.09.18.558174\">10.1101/2023.09.18.558174</a>.","chicago":"Habig, Michael, Anna V Grasse, Judith Müller, Eva H. Stukenbrock, Hanna Leitner, and Sylvia Cremer. “Frequent Horizontal Chromosome Transfer between Asexual Fungal Insect Pathogens.” <i>BioRxiv</i>, n.d. <a href=\"https://doi.org/10.1101/2023.09.18.558174\">https://doi.org/10.1101/2023.09.18.558174</a>.","ieee":"M. Habig, A. V. Grasse, J. Müller, E. H. Stukenbrock, H. Leitner, and S. Cremer, “Frequent horizontal chromosome transfer between asexual fungal insect pathogens,” <i>bioRxiv</i>. .","apa":"Habig, M., Grasse, A. V., Müller, J., Stukenbrock, E. H., Leitner, H., &#38; Cremer, S. (n.d.). Frequent horizontal chromosome transfer between asexual fungal insect pathogens. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2023.09.18.558174\">https://doi.org/10.1101/2023.09.18.558174</a>"},"project":[{"call_identifier":"H2020","grant_number":"771402","name":"Epidemics in ant societies on a chip","_id":"2649B4DE-B435-11E9-9278-68D0E5697425"}],"language":[{"iso":"eng"}],"month":"09","oa":1,"acknowledgement":"We thank Bernhardt Steinwender, Jorgen Eilenberg and Nicolai V. Meyling for the fungal strains. We further thank Chengshu Wang for providing the short sequencing reads for M. guizhouense ARESF977 he used for his published genome assembly, and Kristian Ullrich for help in the bioinformatics analysis for methylation pattern in Nanopore reads, and the Vienna BioCenter and the Max Planck Society for the use of their sequencing centers. We thank Barbara Milutinović and Hinrich Schulenburg for discussion, and Tal Dagan and Jens Rolff for comments on a previous version of the manuscript. Fig1 A was created with BioRender.com. This study received funding by the European Research Council (ERC) under the European Union’s Horizon 2020 Research and Innovation Programme (No. 771402; EPIDEMICSonCHIP) to S.C. and by the German Research Foundation (DFG grant HA9263/1-1) to M.H.","status":"public","day":"19","_id":"14478","main_file_link":[{"url":"https://doi.org/10.1101/2023.09.18.558174","open_access":"1"}],"publication_status":"submitted","year":"2023","type":"preprint","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Entire chromosomes are typically only transmitted vertically from one generation to the next. The horizontal transfer of such chromosomes has long been considered improbable, yet gained recent support in several pathogenic fungi where it may affect the fitness or host specificity. To date, it is unknown how these transfers occur, how common they are and whether they can occur between different species. In this study, we show multiple independent instances of horizontal transfers of the same accessory chromosome between two distinct strains of the asexual entomopathogenic fungus<jats:italic>Metarhizium robertsii</jats:italic>during experimental co-infection of its insect host, the Argentine ant. Notably, only the one chromosome – but no other – was transferred from the donor to the recipient strain. The recipient strain, now harboring the accessory chromosome, exhibited a competitive advantage under certain host conditions. By phylogenetic analysis we further demonstrate that the same accessory chromosome was horizontally transferred in a natural environment between<jats:italic>M. robertsii</jats:italic>and another congeneric insect pathogen,<jats:italic>M. guizhouense</jats:italic>. Hence horizontal chromosome transfer is not limited to the observed frequent events within species during experimental infections but also occurs naturally across species. The transferred accessory chromosome contains genes that might be involved in its preferential horizontal transfer, encoding putative histones and histone-modifying enzymes, but also putative virulence factors that may support its establishment. Our study reveals that both intra- and interspecies horizontal transfer of entire chromosomes is more frequent than previously assumed, likely representing a not uncommon mechanism for gene exchange.</jats:p><jats:sec><jats:title>Significance Statement</jats:title><jats:p>The enormous success of bacterial pathogens has been attributed to their ability to exchange genetic material between one another. Similarly, in eukaryotes, horizontal transfer of genetic material allowed the spread of virulence factors across species. The horizontal transfer of whole chromosomes could be an important pathway for such exchange of genetic material, but little is known about the origin of transferable chromosomes and how frequently they are exchanged. Here, we show that the transfer of accessory chromosomes - chromosomes that are non-essential but may provide fitness benefits - is common during fungal co-infections and is even possible between distant pathogenic species, highlighting the importance of horizontal gene transfer via chromosome transfer also for the evolution and function of eukaryotic pathogens."}],"author":[{"full_name":"Habig, Michael","last_name":"Habig","first_name":"Michael"},{"last_name":"Grasse","first_name":"Anna V","id":"406F989C-F248-11E8-B48F-1D18A9856A87","full_name":"Grasse, Anna V"},{"full_name":"Müller, Judith","last_name":"Müller","first_name":"Judith"},{"full_name":"Stukenbrock, Eva H.","first_name":"Eva H.","last_name":"Stukenbrock"},{"last_name":"Leitner","first_name":"Hanna","id":"8fc5c6f6-5903-11ec-abad-c83f046253e7","full_name":"Leitner, Hanna"},{"first_name":"Sylvia","orcid":"0000-0002-2193-3868","last_name":"Cremer","full_name":"Cremer, Sylvia","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2023-09-19T00:00:00Z","date_updated":"2023-11-07T11:20:54Z","doi":"10.1101/2023.09.18.558174","article_processing_charge":"No","oa_version":"Preprint","ec_funded":1,"date_created":"2023-10-31T13:30:00Z","department":[{"_id":"SyCr"}],"title":"Frequent horizontal chromosome transfer between asexual fungal insect pathogens","publication":"bioRxiv"},{"year":"2023","has_accepted_license":"1","_id":"14484","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","volume":39,"page":"91-121","publication_identifier":{"eissn":["1530-8995"],"issn":["1081-0706"]},"citation":{"ama":"Kicheva A, Briscoe J. Control of tissue development by morphogens. <i>Annual Review of Cell and Developmental Biology</i>. 2023;39:91-121. doi:<a href=\"https://doi.org/10.1146/annurev-cellbio-020823-011522\">10.1146/annurev-cellbio-020823-011522</a>","short":"A. Kicheva, J. Briscoe, Annual Review of Cell and Developmental Biology 39 (2023) 91–121.","mla":"Kicheva, Anna, and James Briscoe. “Control of Tissue Development by Morphogens.” <i>Annual Review of Cell and Developmental Biology</i>, vol. 39, Annual Reviews, 2023, pp. 91–121, doi:<a href=\"https://doi.org/10.1146/annurev-cellbio-020823-011522\">10.1146/annurev-cellbio-020823-011522</a>.","ista":"Kicheva A, Briscoe J. 2023. Control of tissue development by morphogens. Annual Review of Cell and Developmental Biology. 39, 91–121.","ieee":"A. Kicheva and J. Briscoe, “Control of tissue development by morphogens,” <i>Annual Review of Cell and Developmental Biology</i>, vol. 39. Annual Reviews, pp. 91–121, 2023.","chicago":"Kicheva, Anna, and James Briscoe. “Control of Tissue Development by Morphogens.” <i>Annual Review of Cell and Developmental Biology</i>. Annual Reviews, 2023. <a href=\"https://doi.org/10.1146/annurev-cellbio-020823-011522\">https://doi.org/10.1146/annurev-cellbio-020823-011522</a>.","apa":"Kicheva, A., &#38; Briscoe, J. (2023). Control of tissue development by morphogens. <i>Annual Review of Cell and Developmental Biology</i>. Annual Reviews. <a href=\"https://doi.org/10.1146/annurev-cellbio-020823-011522\">https://doi.org/10.1146/annurev-cellbio-020823-011522</a>"},"article_type":"review","external_id":{"pmid":["37418774"]},"acknowledgement":"We are grateful to Zena Hadjivasiliou for comments on this article. A.K. is supported by grants from the European Research Council under the European Union (EU) Horizon 2020 research and innovation program (680037) and Horizon Europe (101044579), and the Austrian Science Fund (F78) (Stem Cell Modulation). J.B. is supported by the Francis Crick Institute, which receives its core funding from Cancer Research UK (CC001051), the UK Medical Research Council (CC001051), and the Wellcome Trust (CC001051), and by a grant from the European Research Council under the EU Horizon 2020 research and innovation program (742138).","oa":1,"status":"public","ec_funded":1,"date_created":"2023-11-05T23:00:53Z","oa_version":"Published Version","publisher":"Annual Reviews","publication":"Annual Review of Cell and Developmental Biology","department":[{"_id":"AnKi"}],"title":"Control of tissue development by morphogens","abstract":[{"text":"Intercellular signaling molecules, known as morphogens, act at a long range in developing tissues to provide spatial information and control properties such as cell fate and tissue growth. The production, transport, and removal of morphogens shape their concentration profiles in time and space. Downstream signaling cascades and gene regulatory networks within cells then convert the spatiotemporal morphogen profiles into distinct cellular responses. Current challenges are to understand the diverse molecular and cellular mechanisms underlying morphogen gradient formation, as well as the logic of downstream regulatory circuits involved in morphogen interpretation. This knowledge, combining experimental and theoretical results, is essential to understand emerging properties of morphogen-controlled systems, such as robustness and scaling.","lang":"eng"}],"file":[{"date_updated":"2023-11-06T09:47:50Z","file_id":"14491","file_size":434819,"checksum":"461726014cf5907010afbd418d3c13ec","file_name":"2023_AnnualReviews_Kicheva.pdf","relation":"main_file","creator":"dernst","access_level":"open_access","content_type":"application/pdf","date_created":"2023-11-06T09:47:50Z","success":1}],"publication_status":"published","intvolume":"        39","month":"10","language":[{"iso":"eng"}],"project":[{"call_identifier":"H2020","grant_number":"680037","name":"Coordination of Patterning And Growth In the Spinal Cord","_id":"B6FC0238-B512-11E9-945C-1524E6697425"},{"_id":"bd7e737f-d553-11ed-ba76-d69ffb5ee3aa","name":"Mechanisms of tissue size regulation in spinal cord development","grant_number":"101044579"},{"name":"Morphogen control of growth and pattern in the spinal cord","grant_number":"F07802","_id":"059DF620-7A3F-11EA-A408-12923DDC885E"}],"ddc":["570"],"day":"16","pmid":1,"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file_date_updated":"2023-11-06T09:47:50Z","quality_controlled":"1","scopus_import":"1","article_processing_charge":"Yes (in subscription journal)","doi":"10.1146/annurev-cellbio-020823-011522","date_updated":"2023-11-06T09:56:24Z","author":[{"last_name":"Kicheva","orcid":"0000-0003-4509-4998","first_name":"Anna","id":"3959A2A0-F248-11E8-B48F-1D18A9856A87","full_name":"Kicheva, Anna"},{"full_name":"Briscoe, James","last_name":"Briscoe","first_name":"James"}],"date_published":"2023-10-16T00:00:00Z"},{"abstract":[{"text":"Batching is a technique that stores multiple keys/values in each node of a data structure. In sequential search data structures, batching reduces latency by reducing the number of cache misses and shortening the chain of pointers to dereference. Applying batching to concurrent data structures is challenging, because it is difficult to maintain the search property and keep contention low in the presence of batching.\r\nIn this paper, we present a general methodology for leveraging batching in concurrent search data structures, called BatchBoost. BatchBoost builds a search data structure from distinct \"data\" and \"index\" layers. The data layer’s purpose is to store a batch of key/value pairs in each of its nodes. The index layer uses an unmodified concurrent search data structure to route operations to a position in the data layer that is \"close\" to where the corresponding key should exist. The requirements on the index and data layers are low: with minimal effort, we were able to compose three highly scalable concurrent search data structures based on three original data structures as the index layers with a batched version of the Lazy List as the data layer. The resulting BatchBoost data structures provide significant performance improvements over their original counterparts.","lang":"eng"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","department":[{"_id":"GradSch"}],"title":"Brief announcement: BatchBoost: Universal batching for concurrent data structures","publication":"37th International Symposium on Distributed Computing","oa_version":"Published Version","date_created":"2023-11-05T23:00:53Z","oa":1,"status":"public","publication_identifier":{"isbn":["9783959773010"],"issn":["1868-8969"]},"citation":{"ista":"Aksenov V, Anoprenko M, Fedorov A, Spear M. 2023. Brief announcement: BatchBoost: Universal batching for concurrent data structures. 37th International Symposium on Distributed Computing. DISC: Symposium on Distributed Computing, LIPIcs, vol. 281, 35.","short":"V. Aksenov, M. Anoprenko, A. Fedorov, M. Spear, in:, 37th International Symposium on Distributed Computing, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023.","mla":"Aksenov, Vitaly, et al. “Brief Announcement: BatchBoost: Universal Batching for Concurrent Data Structures.” <i>37th International Symposium on Distributed Computing</i>, vol. 281, 35, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023, doi:<a href=\"https://doi.org/10.4230/LIPIcs.DISC.2023.35\">10.4230/LIPIcs.DISC.2023.35</a>.","ama":"Aksenov V, Anoprenko M, Fedorov A, Spear M. Brief announcement: BatchBoost: Universal batching for concurrent data structures. In: <i>37th International Symposium on Distributed Computing</i>. Vol 281. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2023. doi:<a href=\"https://doi.org/10.4230/LIPIcs.DISC.2023.35\">10.4230/LIPIcs.DISC.2023.35</a>","apa":"Aksenov, V., Anoprenko, M., Fedorov, A., &#38; Spear, M. (2023). Brief announcement: BatchBoost: Universal batching for concurrent data structures. In <i>37th International Symposium on Distributed Computing</i> (Vol. 281). L’Aquila, Italy: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.DISC.2023.35\">https://doi.org/10.4230/LIPIcs.DISC.2023.35</a>","ieee":"V. Aksenov, M. Anoprenko, A. Fedorov, and M. Spear, “Brief announcement: BatchBoost: Universal batching for concurrent data structures,” in <i>37th International Symposium on Distributed Computing</i>, L’Aquila, Italy, 2023, vol. 281.","chicago":"Aksenov, Vitaly, Michael Anoprenko, Alexander Fedorov, and Michael Spear. “Brief Announcement: BatchBoost: Universal Batching for Concurrent Data Structures.” In <i>37th International Symposium on Distributed Computing</i>, Vol. 281. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023. <a href=\"https://doi.org/10.4230/LIPIcs.DISC.2023.35\">https://doi.org/10.4230/LIPIcs.DISC.2023.35</a>."},"type":"conference","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":281,"has_accepted_license":"1","year":"2023","_id":"14485","doi":"10.4230/LIPIcs.DISC.2023.35","date_updated":"2023-11-07T07:48:01Z","alternative_title":["LIPIcs"],"article_processing_charge":"Yes","author":[{"last_name":"Aksenov","first_name":"Vitaly","full_name":"Aksenov, Vitaly"},{"full_name":"Anoprenko, Michael","first_name":"Michael","last_name":"Anoprenko"},{"full_name":"Fedorov, Alexander","id":"2e711909-896a-11ed-bdf8-eb0f5a2984c6","first_name":"Alexander","last_name":"Fedorov"},{"first_name":"Michael","last_name":"Spear","full_name":"Spear, Michael"}],"date_published":"2023-10-01T00:00:00Z","quality_controlled":"1","scopus_import":"1","article_number":"35","file_date_updated":"2023-11-06T11:45:21Z","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"conference":{"end_date":"2023-10-13","name":"DISC: Symposium on Distributed Computing","start_date":"2023-10-09","location":"L'Aquila, Italy"},"day":"01","ddc":["000"],"language":[{"iso":"eng"}],"month":"10","publication_status":"published","file":[{"access_level":"open_access","creator":"dernst","relation":"main_file","date_created":"2023-11-06T11:45:21Z","success":1,"content_type":"application/pdf","file_id":"14492","date_updated":"2023-11-06T11:45:21Z","checksum":"d9f8d2915cccdf2df5905b7cd1b4a560","file_name":"2023_LIPIcs_Aksenov.pdf","file_size":646665}],"intvolume":"       281"},{"intvolume":"         5","publication_status":"published","file":[{"relation":"main_file","access_level":"open_access","creator":"dernst","content_type":"application/pdf","success":1,"date_created":"2023-11-07T07:52:46Z","date_updated":"2023-11-07T07:52:46Z","file_id":"14493","file_size":1127522,"file_name":"2023_PhysReviewResearch_Koutentakis.pdf","checksum":"cb8de8fed6e09df1a18bd5a5aec5c55c"}],"day":"05","ddc":["530"],"project":[{"call_identifier":"H2020","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413","name":"IST-BRIDGE: International postdoctoral program"},{"call_identifier":"H2020","_id":"2688CF98-B435-11E9-9278-68D0E5697425","name":"Angulon: physics and applications of a new quasiparticle","grant_number":"801770"}],"language":[{"iso":"eng"}],"month":"10","file_date_updated":"2023-11-07T07:52:46Z","article_number":"043016","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_published":"2023-10-05T00:00:00Z","author":[{"first_name":"Georgios","last_name":"Koutentakis","full_name":"Koutentakis, Georgios","id":"d7b23d3a-9e21-11ec-b482-f76739596b95"},{"first_name":"Areg","orcid":"0000-0001-9666-3543","last_name":"Ghazaryan","full_name":"Ghazaryan, Areg","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-6990-7802","last_name":"Lemeshko","first_name":"Mikhail","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","full_name":"Lemeshko, Mikhail"}],"date_updated":"2023-11-07T07:53:39Z","doi":"10.1103/PhysRevResearch.5.043016","article_processing_charge":"Yes","scopus_import":"1","quality_controlled":"1","volume":5,"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14486","year":"2023","has_accepted_license":"1","status":"public","acknowledgement":"We thank Zh. Alpichshev, A. Volosniev, and A. V. Zampetaki for fruitful discussions and comments. This project received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101034413. M.L. acknowledges support by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON).","oa":1,"external_id":{"arxiv":["2301.09875"]},"article_type":"original","issue":"4","citation":{"ista":"Koutentakis G, Ghazaryan A, Lemeshko M. 2023. Rotor lattice model of ferroelectric large polarons. Physical Review Research. 5(4), 043016.","mla":"Koutentakis, Georgios, et al. “Rotor Lattice Model of Ferroelectric Large Polarons.” <i>Physical Review Research</i>, vol. 5, no. 4, 043016, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevResearch.5.043016\">10.1103/PhysRevResearch.5.043016</a>.","short":"G. Koutentakis, A. Ghazaryan, M. Lemeshko, Physical Review Research 5 (2023).","ama":"Koutentakis G, Ghazaryan A, Lemeshko M. Rotor lattice model of ferroelectric large polarons. <i>Physical Review Research</i>. 2023;5(4). doi:<a href=\"https://doi.org/10.1103/PhysRevResearch.5.043016\">10.1103/PhysRevResearch.5.043016</a>","apa":"Koutentakis, G., Ghazaryan, A., &#38; Lemeshko, M. (2023). Rotor lattice model of ferroelectric large polarons. <i>Physical Review Research</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevResearch.5.043016\">https://doi.org/10.1103/PhysRevResearch.5.043016</a>","ieee":"G. Koutentakis, A. Ghazaryan, and M. Lemeshko, “Rotor lattice model of ferroelectric large polarons,” <i>Physical Review Research</i>, vol. 5, no. 4. American Physical Society, 2023.","chicago":"Koutentakis, Georgios, Areg Ghazaryan, and Mikhail Lemeshko. “Rotor Lattice Model of Ferroelectric Large Polarons.” <i>Physical Review Research</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevResearch.5.043016\">https://doi.org/10.1103/PhysRevResearch.5.043016</a>."},"publication_identifier":{"issn":["2643-1564"]},"title":"Rotor lattice model of ferroelectric large polarons","department":[{"_id":"MiLe"}],"publication":"Physical Review Research","publisher":"American Physical Society","oa_version":"Published Version","ec_funded":1,"date_created":"2023-11-05T23:00:53Z","arxiv":1,"abstract":[{"lang":"eng","text":"We present a minimal model of ferroelectric large polarons, which are suggested as one of the mechanisms responsible for the unique charge transport properties of hybrid perovskites. We demonstrate that short-ranged charge–rotor interactions lead to long-range ferroelectric ordering of rotors, which strongly affects the carrier mobility. In the nonperturbative regime, where our theory cannot be reduced to any of the earlier models, we reveal that the polaron is characterized by large coherence length and a roughly tenfold increase of the effective mass as compared to the bare mass. These results are in good agreement with other theoretical predictions for ferroelectric polarons. Our model establishes a general phenomenological framework for ferroelectric polarons providing the starting point for future studies of their role in the transport properties of hybrid organic-inorganic perovskites."}]},{"intvolume":"        59","file":[{"date_updated":"2023-11-07T08:10:44Z","file_id":"14495","checksum":"7ba9c87228dc09029b16bc800a0ef1a1","file_name":"2023_WaterResourcesResearch_Buri.pdf","file_size":5554901,"creator":"dernst","access_level":"open_access","relation":"main_file","date_created":"2023-11-07T08:10:44Z","success":1,"content_type":"application/pdf"}],"publication_status":"published","month":"10","language":[{"iso":"eng"}],"ddc":["550"],"day":"25","tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"file_date_updated":"2023-11-07T08:10:44Z","article_number":"e2022WR033841","scopus_import":"1","quality_controlled":"1","date_published":"2023-10-25T00:00:00Z","author":[{"full_name":"Buri, Pascal","first_name":"Pascal","last_name":"Buri"},{"full_name":"Fatichi, Simone","last_name":"Fatichi","first_name":"Simone"},{"first_name":"Thomas","last_name":"Shaw","full_name":"Shaw, Thomas","id":"3caa3f91-1f03-11ee-96ce-e0e553054d6e"},{"first_name":"Evan S.","last_name":"Miles","full_name":"Miles, Evan S."},{"full_name":"Mccarthy, Michael","id":"22a2674a-61ce-11ee-94b5-d18813baf16f","first_name":"Michael","last_name":"Mccarthy"},{"first_name":"Catriona Louise","last_name":"Fyffe","full_name":"Fyffe, Catriona Louise","id":"001b0422-8d15-11ed-bc51-cab6c037a228"},{"last_name":"Fugger","first_name":"Stefan","full_name":"Fugger, Stefan"},{"first_name":"Shaoting","last_name":"Ren","full_name":"Ren, Shaoting"},{"full_name":"Kneib, Marin","first_name":"Marin","last_name":"Kneib"},{"first_name":"Achille","last_name":"Jouberton","full_name":"Jouberton, Achille"},{"full_name":"Steiner, Jakob","last_name":"Steiner","first_name":"Jakob"},{"full_name":"Fujita, Koji","first_name":"Koji","last_name":"Fujita"},{"full_name":"Pellicciotti, Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","first_name":"Francesca","orcid":"0000-0002-5554-8087","last_name":"Pellicciotti"}],"article_processing_charge":"Yes (via OA deal)","date_updated":"2023-11-07T08:12:34Z","doi":"10.1029/2022WR033841","related_material":{"record":[{"relation":"research_data","status":"public","id":"14494"}]},"_id":"14487","year":"2023","has_accepted_license":"1","volume":59,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","citation":{"ista":"Buri P, Fatichi S, Shaw T, Miles ES, McCarthy M, Fyffe CL, Fugger S, Ren S, Kneib M, Jouberton A, Steiner J, Fujita K, Pellicciotti F. 2023. Land surface modeling in the Himalayas: On the importance of evaporative fluxes for the water balance of a high-elevation catchment. Water Resources Research. 59(10), e2022WR033841.","short":"P. Buri, S. Fatichi, T. Shaw, E.S. Miles, M. McCarthy, C.L. Fyffe, S. Fugger, S. Ren, M. Kneib, A. Jouberton, J. Steiner, K. Fujita, F. Pellicciotti, Water Resources Research 59 (2023).","mla":"Buri, Pascal, et al. “Land Surface Modeling in the Himalayas: On the Importance of Evaporative Fluxes for the Water Balance of a High-Elevation Catchment.” <i>Water Resources Research</i>, vol. 59, no. 10, e2022WR033841, Wiley, 2023, doi:<a href=\"https://doi.org/10.1029/2022WR033841\">10.1029/2022WR033841</a>.","ama":"Buri P, Fatichi S, Shaw T, et al. Land surface modeling in the Himalayas: On the importance of evaporative fluxes for the water balance of a high-elevation catchment. <i>Water Resources Research</i>. 2023;59(10). doi:<a href=\"https://doi.org/10.1029/2022WR033841\">10.1029/2022WR033841</a>","apa":"Buri, P., Fatichi, S., Shaw, T., Miles, E. S., McCarthy, M., Fyffe, C. L., … Pellicciotti, F. (2023). Land surface modeling in the Himalayas: On the importance of evaporative fluxes for the water balance of a high-elevation catchment. <i>Water Resources Research</i>. Wiley. <a href=\"https://doi.org/10.1029/2022WR033841\">https://doi.org/10.1029/2022WR033841</a>","ieee":"P. Buri <i>et al.</i>, “Land surface modeling in the Himalayas: On the importance of evaporative fluxes for the water balance of a high-elevation catchment,” <i>Water Resources Research</i>, vol. 59, no. 10. Wiley, 2023.","chicago":"Buri, Pascal, Simone Fatichi, Thomas Shaw, Evan S. Miles, Michael McCarthy, Catriona Louise Fyffe, Stefan Fugger, et al. “Land Surface Modeling in the Himalayas: On the Importance of Evaporative Fluxes for the Water Balance of a High-Elevation Catchment.” <i>Water Resources Research</i>. Wiley, 2023. <a href=\"https://doi.org/10.1029/2022WR033841\">https://doi.org/10.1029/2022WR033841</a>."},"publication_identifier":{"issn":["0043-1397"],"eissn":["1944-7973"]},"acknowledgement":"This project has received funding from the JSPS-SNSF (Japan Society for the Promotion of Science and Swiss National Science Foundation) Bilateral Programmes project (HOPE, High-ele-vation precipitation in High Mountain Asia; Grant 183633), and the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (RAVEN, Rapid mass losses of debris-covered glaciers in High Mountain Asia; Grant 772751). We want to thank in particular T. Gurung, S. Joshi, J. Shea, W. Immerzeel, and others involved, as well as ICIMOD, for their efforts over the past years in observing the meteorology of the Langtang catchment, collecting and organizing the data and making them publicly available. We also thank the National Geographic Society (Grant NGS-61784R-19) and the Mount Everest Foundation (reference 19-24) for providing fieldwork funding for C. L. Fyffe. We thank T. Kramer for help with the WSL Hyperion cluster. We are grate-ful for comments by three anonymous reviewers and the Associate Editor, who greatly helped to improve the manuscript further. Open access funding provided by ETH-Bereich Forschungsanstalten.","oa":1,"status":"public","issue":"10","article_type":"original","date_created":"2023-11-05T23:00:53Z","oa_version":"Published Version","publication":"Water Resources Research","title":"Land surface modeling in the Himalayas: On the importance of evaporative fluxes for the water balance of a high-elevation catchment","department":[{"_id":"FrPe"}],"publisher":"Wiley","abstract":[{"lang":"eng","text":"High Mountain Asia (HMA) is among the most vulnerable water towers globally and yet future projections of water availability in and from its high-mountain catchments remain uncertain, as their hydrologic response to ongoing environmental changes is complex. Mechanistic modeling approaches incorporating cryospheric, hydrological, and vegetation processes in high spatial, temporal, and physical detail have never been applied for high-elevation catchments of HMA. We use a land surface model at high spatial and temporal resolution (100 m and hourly) to simulate the coupled dynamics of energy, water, and vegetation for the 350 km2 Langtang catchment (Nepal). We compare our model outputs for one hydrological year against a large set of observations to gain insight into the partitioning of the water balance at the subseasonal scale and across elevation bands. During the simulated hydrological year, we find that evapotranspiration is a key component of the total water balance, as it causes about the equivalent of 20% of all the available precipitation or 154% of the water production from glacier melt in the basin to return directly to the atmosphere. The depletion of the cryospheric water budget is dominated by snow melt, but at high elevations is primarily dictated by snow and ice sublimation. Snow sublimation is the dominant vapor flux (49%) at the catchment scale, accounting for the equivalent of 11% of snowfall, 17% of snowmelt, and 75% of ice melt, respectively. We conclude that simulations should consider sublimation and other evaporative fluxes explicitly, as otherwise water balance estimates can be ill-quantified."}]},{"scopus_import":"1","abstract":[{"lang":"eng","text":"Portrait viewpoint and illumination editing is an important problem with several applications in VR/AR, movies, and photography. Comprehensive knowledge of geometry and illumination is critical for obtaining photorealistic results. Current methods are unable to explicitly model in 3D while handling both viewpoint and illumination editing from a single image. In this paper, we propose VoRF, a novel approach that can take even a single portrait image as input and relight human heads under novel illuminations that can be viewed from arbitrary viewpoints. VoRF represents a human head as a continuous volumetric field and learns a prior model of human heads using a coordinate-based MLP with individual latent spaces for identity and illumination. The prior model is learned in an auto-decoder manner over a diverse class of head shapes and appearances, allowing VoRF to generalize to novel test identities from a single input image. Additionally, VoRF has a reflectance MLP that uses the intermediate features of the prior model for rendering One-Light-at-A-Time (OLAT) images under novel views. We synthesize novel illuminations by combining these OLAT images with target environment maps. Qualitative and quantitative evaluations demonstrate the effectiveness of VoRF for relighting and novel view synthesis, even when applied to unseen subjects under uncontrolled illumination. This work is an extension of Rao et al. (VoRF: Volumetric Relightable Faces 2022). We provide extensive evaluation and ablative studies of our model and also provide an application, where any face can be relighted using textual input."}],"quality_controlled":"1","author":[{"last_name":"Rao","first_name":"Pramod","full_name":"Rao, Pramod"},{"first_name":"B. R.","last_name":"Mallikarjun","full_name":"Mallikarjun, B. R."},{"first_name":"Gereon","last_name":"Fox","full_name":"Fox, Gereon"},{"last_name":"Weyrich","first_name":"Tim","full_name":"Weyrich, Tim"},{"first_name":"Bernd","orcid":"0000-0001-6511-9385","last_name":"Bickel","full_name":"Bickel, Bernd","id":"49876194-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Pfister","first_name":"Hanspeter","full_name":"Pfister, Hanspeter"},{"first_name":"Wojciech","last_name":"Matusik","full_name":"Matusik, Wojciech"},{"last_name":"Zhan","first_name":"Fangneng","full_name":"Zhan, Fangneng"},{"full_name":"Tewari, Ayush","first_name":"Ayush","last_name":"Tewari"},{"full_name":"Theobalt, Christian","last_name":"Theobalt","first_name":"Christian"},{"last_name":"Elgharib","first_name":"Mohamed","full_name":"Elgharib, Mohamed"}],"date_published":"2023-10-31T00:00:00Z","date_updated":"2023-11-06T08:52:30Z","doi":"10.1007/s11263-023-01899-3","article_processing_charge":"Yes (via OA deal)","oa_version":"Published Version","date_created":"2023-11-05T23:00:54Z","title":"A deeper analysis of volumetric relightiable faces","department":[{"_id":"BeBi"}],"publication":"International Journal of Computer Vision","publisher":"Springer Nature","citation":{"ieee":"P. Rao <i>et al.</i>, “A deeper analysis of volumetric relightiable faces,” <i>International Journal of Computer Vision</i>. Springer Nature, 2023.","chicago":"Rao, Pramod, B. R. Mallikarjun, Gereon Fox, Tim Weyrich, Bernd Bickel, Hanspeter Pfister, Wojciech Matusik, et al. “A Deeper Analysis of Volumetric Relightiable Faces.” <i>International Journal of Computer Vision</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s11263-023-01899-3\">https://doi.org/10.1007/s11263-023-01899-3</a>.","apa":"Rao, P., Mallikarjun, B. R., Fox, G., Weyrich, T., Bickel, B., Pfister, H., … Elgharib, M. (2023). A deeper analysis of volumetric relightiable faces. <i>International Journal of Computer Vision</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11263-023-01899-3\">https://doi.org/10.1007/s11263-023-01899-3</a>","ama":"Rao P, Mallikarjun BR, Fox G, et al. A deeper analysis of volumetric relightiable faces. <i>International Journal of Computer Vision</i>. 2023. doi:<a href=\"https://doi.org/10.1007/s11263-023-01899-3\">10.1007/s11263-023-01899-3</a>","mla":"Rao, Pramod, et al. “A Deeper Analysis of Volumetric Relightiable Faces.” <i>International Journal of Computer Vision</i>, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s11263-023-01899-3\">10.1007/s11263-023-01899-3</a>.","ista":"Rao P, Mallikarjun BR, Fox G, Weyrich T, Bickel B, Pfister H, Matusik W, Zhan F, Tewari A, Theobalt C, Elgharib M. 2023. A deeper analysis of volumetric relightiable faces. International Journal of Computer Vision.","short":"P. Rao, B.R. Mallikarjun, G. Fox, T. Weyrich, B. Bickel, H. Pfister, W. Matusik, F. Zhan, A. Tewari, C. Theobalt, M. Elgharib, International Journal of Computer Vision (2023)."},"language":[{"iso":"eng"}],"publication_identifier":{"eissn":["1573-1405"],"issn":["0920-5691"]},"month":"10","acknowledgement":"Open Access funding enabled and organized by Projekt DEAL.","oa":1,"status":"public","day":"31","article_type":"original","_id":"14488","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1007/s11263-023-01899-3"}],"publication_status":"epub_ahead","year":"2023","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"year":"2023","_id":"14489","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":17,"publication_identifier":{"issn":["1863-8880"],"eissn":["1863-8899"]},"citation":{"mla":"Fan, Zhi Yuan, et al. “Microwave-Optics Entanglement via Cavity Optomagnomechanics.” <i>Laser and Photonics Reviews</i>, vol. 17, no. 12, 2200866, Wiley, 2023, doi:<a href=\"https://doi.org/10.1002/lpor.202200866\">10.1002/lpor.202200866</a>.","short":"Z.Y. Fan, L. Qiu, S. Gröblacher, J. Li, Laser and Photonics Reviews 17 (2023).","ista":"Fan ZY, Qiu L, Gröblacher S, Li J. 2023. Microwave-optics entanglement via cavity optomagnomechanics. Laser and Photonics Reviews. 17(12), 2200866.","ama":"Fan ZY, Qiu L, Gröblacher S, Li J. Microwave-optics entanglement via cavity optomagnomechanics. <i>Laser and Photonics Reviews</i>. 2023;17(12). doi:<a href=\"https://doi.org/10.1002/lpor.202200866\">10.1002/lpor.202200866</a>","apa":"Fan, Z. Y., Qiu, L., Gröblacher, S., &#38; Li, J. (2023). Microwave-optics entanglement via cavity optomagnomechanics. <i>Laser and Photonics Reviews</i>. Wiley. <a href=\"https://doi.org/10.1002/lpor.202200866\">https://doi.org/10.1002/lpor.202200866</a>","chicago":"Fan, Zhi Yuan, Liu Qiu, Simon Gröblacher, and Jie Li. “Microwave-Optics Entanglement via Cavity Optomagnomechanics.” <i>Laser and Photonics Reviews</i>. Wiley, 2023. <a href=\"https://doi.org/10.1002/lpor.202200866\">https://doi.org/10.1002/lpor.202200866</a>.","ieee":"Z. Y. Fan, L. Qiu, S. Gröblacher, and J. Li, “Microwave-optics entanglement via cavity optomagnomechanics,” <i>Laser and Photonics Reviews</i>, vol. 17, no. 12. Wiley, 2023."},"article_type":"original","external_id":{"arxiv":["2208.10703"]},"issue":"12","oa":1,"status":"public","acknowledgement":"This work was supported by the National Key Research and Development Program of China (Grant no. 2022YFA1405200), the National Natural Science Foundation of China (Nos. 92265202), and the European Research Council (ERC CoG Q-ECHOS, 101001005).","oa_version":"Preprint","date_created":"2023-11-05T23:00:54Z","publisher":"Wiley","department":[{"_id":"JoFi"}],"title":"Microwave-optics entanglement via cavity optomagnomechanics","publication":"Laser and Photonics Reviews","abstract":[{"text":"Microwave-optics entanglement is a vital component for building hybrid quantum networks. Here, a new mechanism for preparing stationary entanglement between microwave and optical cavity fields in a cavity optomagnomechanical system is proposed. It consists of a magnon mode in a ferrimagnetic crystal that couples directly to a microwave cavity mode via the magnetic dipole interaction and indirectly to an optical cavity through the deformation displacement of the crystal. The mechanical displacement is induced by the magnetostrictive force and coupled to the optical cavity via radiation pressure. Both the opto- and magnomechanical couplings are dispersive. Magnon–phonon entanglement is created via magnomechanical parametric down-conversion, which is further distributed to optical and microwave photons via simultaneous optomechanical beamsplitter interaction and electromagnonic state-swap interaction, yielding stationary microwave-optics entanglement. The microwave-optics entanglement is robust against thermal noise, which will find broad potential applications in quantum networks and quantum information processing with hybrid quantum systems.","lang":"eng"}],"arxiv":1,"publication_status":"published","intvolume":"        17","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2208.10703","open_access":"1"}],"language":[{"iso":"eng"}],"month":"12","day":"01","article_number":"2200866","quality_controlled":"1","scopus_import":"1","date_updated":"2024-01-30T14:36:42Z","doi":"10.1002/lpor.202200866","article_processing_charge":"No","date_published":"2023-12-01T00:00:00Z","author":[{"full_name":"Fan, Zhi Yuan","first_name":"Zhi Yuan","last_name":"Fan"},{"id":"45e99c0d-1eb1-11eb-9b96-ed8ab2983cac","full_name":"Qiu, Liu","orcid":"0000-0003-4345-4267","last_name":"Qiu","first_name":"Liu"},{"full_name":"Gröblacher, Simon","last_name":"Gröblacher","first_name":"Simon"},{"full_name":"Li, Jie","first_name":"Jie","last_name":"Li"}]},{"intvolume":"      2023","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2306.16006"}],"publication_status":"published","day":"11","language":[{"iso":"eng"}],"month":"10","conference":{"end_date":"2023-07-21","name":"ICDCS: International Conference on Distributed Computing Systems","start_date":"2023-07-18","location":"Hong Kong, China"},"author":[{"full_name":"Avarikioti, Zeta","first_name":"Zeta","last_name":"Avarikioti"},{"last_name":"Lizurej","first_name":"Tomasz","full_name":"Lizurej, Tomasz"},{"full_name":"Michalak, Tomasz","first_name":"Tomasz","last_name":"Michalak"},{"full_name":"Yeo, Michelle X","id":"2D82B818-F248-11E8-B48F-1D18A9856A87","first_name":"Michelle X","last_name":"Yeo"}],"date_published":"2023-10-11T00:00:00Z","doi":"10.1109/ICDCS57875.2023.00037","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"14506"}]},"date_updated":"2023-11-30T10:54:51Z","article_processing_charge":"No","scopus_import":"1","quality_controlled":"1","page":"603-613","volume":2023,"type":"conference","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14490","year":"2023","acknowledgement":"The work was partially supported by the Austrian Science Fund (FWF) through the project CoRaF (grant 2020388). It was also partially supported by NCN Grant 2019/35/B/ST6/04138 and ERC Grant 885666.","oa":1,"status":"public","external_id":{"arxiv":["2306.16006"]},"citation":{"ama":"Avarikioti Z, Lizurej T, Michalak T, Yeo MX. Lightning creation games. In: <i>43rd International Conference on Distributed Computing Systems</i>. Vol 2023. IEEE; 2023:603-613. doi:<a href=\"https://doi.org/10.1109/ICDCS57875.2023.00037\">10.1109/ICDCS57875.2023.00037</a>","mla":"Avarikioti, Zeta, et al. “Lightning Creation Games.” <i>43rd International Conference on Distributed Computing Systems</i>, vol. 2023, IEEE, 2023, pp. 603–13, doi:<a href=\"https://doi.org/10.1109/ICDCS57875.2023.00037\">10.1109/ICDCS57875.2023.00037</a>.","short":"Z. Avarikioti, T. Lizurej, T. Michalak, M.X. Yeo, in:, 43rd International Conference on Distributed Computing Systems, IEEE, 2023, pp. 603–613.","ista":"Avarikioti Z, Lizurej T, Michalak T, Yeo MX. 2023. Lightning creation games. 43rd International Conference on Distributed Computing Systems. ICDCS: International Conference on Distributed Computing Systems vol. 2023, 603–613.","chicago":"Avarikioti, Zeta, Tomasz Lizurej, Tomasz Michalak, and Michelle X Yeo. “Lightning Creation Games.” In <i>43rd International Conference on Distributed Computing Systems</i>, 2023:603–13. IEEE, 2023. <a href=\"https://doi.org/10.1109/ICDCS57875.2023.00037\">https://doi.org/10.1109/ICDCS57875.2023.00037</a>.","ieee":"Z. Avarikioti, T. Lizurej, T. Michalak, and M. X. Yeo, “Lightning creation games,” in <i>43rd International Conference on Distributed Computing Systems</i>, Hong Kong, China, 2023, vol. 2023, pp. 603–613.","apa":"Avarikioti, Z., Lizurej, T., Michalak, T., &#38; Yeo, M. X. (2023). Lightning creation games. In <i>43rd International Conference on Distributed Computing Systems</i> (Vol. 2023, pp. 603–613). Hong Kong, China: IEEE. <a href=\"https://doi.org/10.1109/ICDCS57875.2023.00037\">https://doi.org/10.1109/ICDCS57875.2023.00037</a>"},"publication_identifier":{"eissn":["2575-8411"],"isbn":["9798350339864"]},"title":"Lightning creation games","department":[{"_id":"KrPi"}],"publication":"43rd International Conference on Distributed Computing Systems","publisher":"IEEE","oa_version":"Preprint","date_created":"2023-11-05T23:00:54Z","arxiv":1,"abstract":[{"text":"Payment channel networks (PCNs) are a promising solution to the scalability problem of cryptocurrencies. Any two users connected by a payment channel in the network can theoretically send an unbounded number of instant, costless transactions between them. Users who are not directly connected can also transact with each other in a multi-hop fashion. In this work, we study the incentive structure behind the creation of payment channel networks, particularly from the point of view of a single user that wants to join the network. We define a utility function for a new user in terms of expected revenue, expected fees, and the cost of creating channels, and then provide constant factor approximation algorithms that optimise the utility function given a certain budget. Additionally, we take a step back from a single user to the whole network and examine the parameter spaces under which simple graph topologies form a Nash equilibrium.","lang":"eng"}]},{"ddc":["550"],"day":"03","oa":1,"status":"public","month":"10","citation":{"ama":"Buri P, Fatichi S, Shaw T, et al. Model output data to “Land surface modeling in the Himalayas: on the importance of evaporative fluxes for the water balance of a high elevation catchment.” 2023. doi:<a href=\"https://doi.org/10.5281/ZENODO.8402426\">10.5281/ZENODO.8402426</a>","short":"P. Buri, S. Fatichi, T. Shaw, E. Miles, M. McCarthy, C.L. Fyffe, S. Fugger, S. Ren, M. Kneib, A. Jouberton, J. Steiner, K. Fujita, F. Pellicciotti, (2023).","mla":"Buri, Pascal, et al. <i>Model Output Data to “Land Surface Modeling in the Himalayas: On the Importance of Evaporative Fluxes for the Water Balance of a High Elevation Catchment.”</i> Zenodo, 2023, doi:<a href=\"https://doi.org/10.5281/ZENODO.8402426\">10.5281/ZENODO.8402426</a>.","ista":"Buri P, Fatichi S, Shaw T, Miles E, McCarthy M, Fyffe CL, Fugger S, Ren S, Kneib M, Jouberton A, Steiner J, Fujita K, Pellicciotti F. 2023. Model output data to ‘Land surface modeling in the Himalayas: on the importance of evaporative fluxes for the water balance of a high elevation catchment’, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.8402426\">10.5281/ZENODO.8402426</a>.","ieee":"P. Buri <i>et al.</i>, “Model output data to ‘Land surface modeling in the Himalayas: on the importance of evaporative fluxes for the water balance of a high elevation catchment.’” Zenodo, 2023.","chicago":"Buri, Pascal, Simone Fatichi, Thomas Shaw, Evan  Miles, Michael McCarthy, Catriona Louise Fyffe, Stefan Fugger, et al. “Model Output Data to ‘Land Surface Modeling in the Himalayas: On the Importance of Evaporative Fluxes for the Water Balance of a High Elevation Catchment.’” Zenodo, 2023. <a href=\"https://doi.org/10.5281/ZENODO.8402426\">https://doi.org/10.5281/ZENODO.8402426</a>.","apa":"Buri, P., Fatichi, S., Shaw, T., Miles, E., McCarthy, M., Fyffe, C. L., … Pellicciotti, F. (2023). Model output data to “Land surface modeling in the Himalayas: on the importance of evaporative fluxes for the water balance of a high elevation catchment.” Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.8402426\">https://doi.org/10.5281/ZENODO.8402426</a>"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"research_data_reference","year":"2023","has_accepted_license":"1","_id":"14494","main_file_link":[{"url":"https://10.5281/ZENODO.8402426","open_access":"1"}],"article_processing_charge":"No","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"14487"}]},"doi":"10.5281/ZENODO.8402426","date_updated":"2023-11-07T08:12:35Z","date_published":"2023-10-03T00:00:00Z","author":[{"first_name":"Pascal","last_name":"Buri","full_name":"Buri, Pascal"},{"first_name":"Simone","last_name":"Fatichi","full_name":"Fatichi, Simone"},{"id":"3caa3f91-1f03-11ee-96ce-e0e553054d6e","full_name":"Shaw, Thomas","last_name":"Shaw","first_name":"Thomas"},{"full_name":"Miles, Evan ","first_name":"Evan ","last_name":"Miles"},{"full_name":"McCarthy, Michael","id":"22a2674a-61ce-11ee-94b5-d18813baf16f","first_name":"Michael","last_name":"McCarthy"},{"first_name":"Catriona Louise","last_name":"Fyffe","full_name":"Fyffe, Catriona Louise","id":"001b0422-8d15-11ed-bc51-cab6c037a228"},{"full_name":"Fugger, Stefan","first_name":"Stefan","last_name":"Fugger"},{"first_name":"Shaoting","last_name":"Ren","full_name":"Ren, Shaoting"},{"last_name":"Kneib","first_name":"Marin","full_name":"Kneib, Marin"},{"full_name":"Jouberton, Achille","first_name":"Achille","last_name":"Jouberton"},{"last_name":"Steiner","first_name":"Jakob","full_name":"Steiner, Jakob"},{"first_name":"Koji","last_name":"Fujita","full_name":"Fujita, Koji"},{"last_name":"Pellicciotti","orcid":"0000-0002-5554-8087","first_name":"Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","full_name":"Pellicciotti, Francesca"}],"abstract":[{"lang":"eng","text":"We provide i) gridded initial conditions (.tif), ii) modeled gridded monthly outputs (.tif), and iii) modeled hourly outputs at the station locations (.txt) for the hydrological year 2019. Information about the variables and units can be found in the figures (.png) associated to each dataset. Details about the datasets can be found in the original publication by Buri and others (2023).\r\n\r\nBuri, P., Fatichi, S., Shaw, T. E., Miles, E. S., McCarthy, M. J., Fyffe, C. L., ... & Pellicciotti, F. (2023). Land Surface Modeling in the Himalayas: On the Importance of Evaporative Fluxes for the Water Balance of a High‐Elevation Catchment. Water Resources Research, 59(10), e2022WR033841. DOI: 10.1029/2022WR033841"}],"publisher":"Zenodo","title":"Model output data to \"Land surface modeling in the Himalayas: on the importance of evaporative fluxes for the water balance of a high elevation catchment\"","department":[{"_id":"FrPe"}],"date_created":"2023-11-07T08:01:39Z","oa_version":"Published Version","tmp":{"short":"CC0 (1.0)","image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)"}},{"project":[{"_id":"bd95085b-d553-11ed-ba76-e55d3349be45","grant_number":"101076777","name":"Randomness and structure in combinatorics"}],"language":[{"iso":"eng"}],"month":"08","day":"24","ddc":["510"],"publication_status":"published","file":[{"date_created":"2023-11-07T09:16:23Z","success":1,"content_type":"application/pdf","access_level":"open_access","creator":"dernst","relation":"main_file","checksum":"54b824098d59073cc87a308d458b0a3e","file_name":"2023_ForumMathematics_Kwan.pdf","file_size":1218719,"file_id":"14500","date_updated":"2023-11-07T09:16:23Z"}],"intvolume":"        11","quality_controlled":"1","scopus_import":"1","keyword":["Discrete Mathematics and Combinatorics","Geometry and Topology","Mathematical Physics","Statistics and Probability","Algebra and Number Theory","Analysis"],"date_updated":"2023-11-07T09:18:57Z","doi":"10.1017/fmp.2023.17","article_processing_charge":"Yes","date_published":"2023-08-24T00:00:00Z","author":[{"first_name":"Matthew Alan","last_name":"Kwan","orcid":"0000-0002-4003-7567","full_name":"Kwan, Matthew Alan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3"},{"full_name":"Sah, Ashwin","first_name":"Ashwin","last_name":"Sah"},{"full_name":"Sauermann, Lisa","last_name":"Sauermann","first_name":"Lisa"},{"full_name":"Sawhney, Mehtaab","last_name":"Sawhney","first_name":"Mehtaab"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"article_number":"e21","file_date_updated":"2023-11-07T09:16:23Z","publication_identifier":{"issn":["2050-5086"]},"citation":{"ista":"Kwan MA, Sah A, Sauermann L, Sawhney M. 2023. Anticoncentration in Ramsey graphs and a proof of the Erdős–McKay conjecture. Forum of Mathematics, Pi. 11, e21.","short":"M.A. Kwan, A. Sah, L. Sauermann, M. Sawhney, Forum of Mathematics, Pi 11 (2023).","mla":"Kwan, Matthew Alan, et al. “Anticoncentration in Ramsey Graphs and a Proof of the Erdős–McKay Conjecture.” <i>Forum of Mathematics, Pi</i>, vol. 11, e21, Cambridge University Press, 2023, doi:<a href=\"https://doi.org/10.1017/fmp.2023.17\">10.1017/fmp.2023.17</a>.","ama":"Kwan MA, Sah A, Sauermann L, Sawhney M. Anticoncentration in Ramsey graphs and a proof of the Erdős–McKay conjecture. <i>Forum of Mathematics, Pi</i>. 2023;11. doi:<a href=\"https://doi.org/10.1017/fmp.2023.17\">10.1017/fmp.2023.17</a>","apa":"Kwan, M. A., Sah, A., Sauermann, L., &#38; Sawhney, M. (2023). Anticoncentration in Ramsey graphs and a proof of the Erdős–McKay conjecture. <i>Forum of Mathematics, Pi</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/fmp.2023.17\">https://doi.org/10.1017/fmp.2023.17</a>","chicago":"Kwan, Matthew Alan, Ashwin Sah, Lisa Sauermann, and Mehtaab Sawhney. “Anticoncentration in Ramsey Graphs and a Proof of the Erdős–McKay Conjecture.” <i>Forum of Mathematics, Pi</i>. Cambridge University Press, 2023. <a href=\"https://doi.org/10.1017/fmp.2023.17\">https://doi.org/10.1017/fmp.2023.17</a>.","ieee":"M. A. Kwan, A. Sah, L. Sauermann, and M. Sawhney, “Anticoncentration in Ramsey graphs and a proof of the Erdős–McKay conjecture,” <i>Forum of Mathematics, Pi</i>, vol. 11. Cambridge University Press, 2023."},"article_type":"original","external_id":{"arxiv":["2208.02874"]},"oa":1,"status":"public","acknowledgement":"Kwan was supported for part of this work by ERC Starting Grant ‘RANDSTRUCT’ No. 101076777. Sah and Sawhney were supported by NSF Graduate Research Fellowship Program DGE-2141064. Sah was supported by the PD Soros Fellowship. Sauermann was supported by NSF Award DMS-2100157, and for part of this work by a Sloan Research Fellowship.","has_accepted_license":"1","year":"2023","_id":"14499","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":11,"abstract":[{"lang":"eng","text":"An n-vertex graph is called C-Ramsey if it has no clique or independent set of size Clog2n (i.e., if it has near-optimal Ramsey behavior). In this paper, we study edge statistics in Ramsey graphs, in particular obtaining very precise control of the distribution of the number of edges in a random vertex subset of a C-Ramsey graph. This brings together two ongoing lines of research: the study of ‘random-like’ properties of Ramsey graphs and the study of small-ball probability for low-degree polynomials of independent random variables.\r\n\r\nThe proof proceeds via an ‘additive structure’ dichotomy on the degree sequence and involves a wide range of different tools from Fourier analysis, random matrix theory, the theory of Boolean functions, probabilistic combinatorics and low-rank approximation. In particular, a key ingredient is a new sharpened version of the quadratic Carbery–Wright theorem on small-ball probability for polynomials of Gaussians, which we believe is of independent interest. One of the consequences of our result is the resolution of an old conjecture of Erdős and McKay, for which Erdős reiterated in several of his open problem collections and for which he offered one of his notorious monetary prizes."}],"arxiv":1,"oa_version":"Published Version","date_created":"2023-11-07T09:02:48Z","publisher":"Cambridge University Press","department":[{"_id":"MaKw"}],"title":"Anticoncentration in Ramsey graphs and a proof of the Erdős–McKay conjecture","publication":"Forum of Mathematics, Pi"},{"abstract":[{"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 fila- mentous 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.","lang":"eng"}],"keyword":["cryo-electron tomography","actin cytoskeleton","toolbox"],"author":[{"first_name":"Georgi A","orcid":"0000-0001-8370-6161","last_name":"Dimchev","full_name":"Dimchev, Georgi A","id":"38C393BE-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Amiri","first_name":"Behnam","full_name":"Amiri, Behnam"},{"last_name":"Fäßler","orcid":"0000-0001-7149-769X","first_name":"Florian","id":"404F5528-F248-11E8-B48F-1D18A9856A87","full_name":"Fäßler, Florian"},{"first_name":"Martin","last_name":"Falcke","full_name":"Falcke, Martin"},{"id":"48AD8942-F248-11E8-B48F-1D18A9856A87","full_name":"Schur, Florian KM","last_name":"Schur","orcid":"0000-0003-4790-8078","first_name":"Florian KM"}],"date_published":"2023-11-21T00:00:00Z","doi":"10.15479/AT:ISTA:14502","date_updated":"2023-11-21T08:36:02Z","related_material":{"record":[{"status":"public","relation":"used_for_analysis_in","id":"10290"}]},"tmp":{"name":"GNU Affero General Public License v3.0","legal_code_url":"https://www.gnu.org/licenses/agpl-3.0.html","short":"GNU AGPLv3  "},"date_created":"2023-11-08T19:40:54Z","department":[{"_id":"FlSc"}],"file_date_updated":"2023-11-21T08:20:23Z","title":"Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data","publisher":"Institute of Science and Technology Austria","citation":{"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.” Institute of Science and Technology Austria, 2023.","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.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:14502\">https://doi.org/10.15479/AT:ISTA:14502</a>.","apa":"Dimchev, G. A., Amiri, B., Fäßler, F., Falcke, M., &#38; Schur, F. K. (2023). Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:14502\">https://doi.org/10.15479/AT:ISTA:14502</a>","ama":"Dimchev GA, Amiri B, Fäßler F, Falcke M, Schur FK. Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data. 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14502\">10.15479/AT:ISTA:14502</a>","ista":"Dimchev GA, Amiri B, Fäßler F, Falcke M, Schur FK. 2023. Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:14502\">10.15479/AT:ISTA:14502</a>.","mla":"Dimchev, Georgi A., et al. <i>Computational Toolbox for Ultrastructural Quantitative Analysis of Filament Networks in Cryo-ET Data</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14502\">10.15479/AT:ISTA:14502</a>.","short":"G.A. Dimchev, B. Amiri, F. Fäßler, M. Falcke, F.K. Schur, (2023)."},"project":[{"_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A","name":"Structure and isoform diversity of the Arp2/3 complex","grant_number":"P33367"}],"month":"11","oa":1,"status":"public","day":"21","ddc":["570"],"_id":"14502","file":[{"file_size":347641117,"checksum":"a8b9adeb53a4109dea4d5e39fa1acccf","file_name":"Computational_Toolbox_v1.2.zip","file_id":"14503","date_updated":"2023-11-08T20:23:07Z","content_type":"application/zip","date_created":"2023-11-08T20:23:07Z","success":1,"relation":"main_file","creator":"fschur","access_level":"open_access"},{"relation":"main_file","creator":"dernst","access_level":"open_access","content_type":"text/plain","success":1,"date_created":"2023-11-21T08:20:23Z","date_updated":"2023-11-21T08:20:23Z","file_id":"14586","file_size":1522,"file_name":"Readme.txt","checksum":"14db2addbfca61a085ba301ed6f2900b"}],"year":"2023","has_accepted_license":"1","license":"https://choosealicense.com/licenses/agpl-3.0/","type":"software","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"day":"10","ddc":["000"],"language":[{"iso":"eng"}],"project":[{"call_identifier":"H2020","grant_number":"665385","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"month":"11","publication_status":"published","file":[{"file_size":3037720,"file_name":"thesis_yeo.zip","checksum":"521c72818d720a52b377207b2ee87b6a","date_updated":"2023-11-23T10:29:55Z","file_id":"14598","content_type":"application/x-zip-compressed","date_created":"2023-11-23T10:29:55Z","relation":"source_file","creator":"cchlebak","access_level":"closed"},{"file_id":"14599","date_updated":"2023-11-23T10:30:08Z","file_size":2717256,"checksum":"0ed5d16899687aecf13d843c9878c9f2","file_name":"thesis_yeo.pdf","relation":"main_file","creator":"cchlebak","access_level":"open_access","content_type":"application/pdf","date_created":"2023-11-23T10:30:08Z","success":1}],"date_published":"2023-11-10T00:00:00Z","author":[{"full_name":"Yeo, Michelle X","id":"2D82B818-F248-11E8-B48F-1D18A9856A87","first_name":"Michelle X","orcid":"0009-0001-3676-4809","last_name":"Yeo"}],"date_updated":"2025-07-14T09:09:52Z","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"9969"},{"status":"public","relation":"part_of_dissertation","id":"14490"},{"id":"13238","status":"public","relation":"part_of_dissertation"}]},"doi":"10.15479/14506","alternative_title":["ISTA Thesis"],"article_processing_charge":"No","degree_awarded":"PhD","file_date_updated":"2023-11-23T10:30:08Z","oa":1,"status":"public","citation":{"ieee":"M. X. Yeo, “Advances in efficiency and privacy in payment channel network analysis,” Institute of Science and Technology Austria, 2023.","chicago":"Yeo, Michelle X. “Advances in Efficiency and Privacy in Payment Channel Network Analysis.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/14506\">https://doi.org/10.15479/14506</a>.","apa":"Yeo, M. X. (2023). <i>Advances in efficiency and privacy in payment channel network analysis</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/14506\">https://doi.org/10.15479/14506</a>","ama":"Yeo MX. Advances in efficiency and privacy in payment channel network analysis. 2023. doi:<a href=\"https://doi.org/10.15479/14506\">10.15479/14506</a>","mla":"Yeo, Michelle X. <i>Advances in Efficiency and Privacy in Payment Channel Network Analysis</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/14506\">10.15479/14506</a>.","short":"M.X. Yeo, Advances in Efficiency and Privacy in Payment Channel Network Analysis, Institute of Science and Technology Austria, 2023.","ista":"Yeo MX. 2023. Advances in efficiency and privacy in payment channel network analysis. Institute of Science and Technology Austria."},"publication_identifier":{"issn":["2663 - 337X"]},"page":"162","type":"dissertation","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","supervisor":[{"first_name":"Krzysztof Z","last_name":"Pietrzak","orcid":"0000-0002-9139-1654","full_name":"Pietrzak, Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87"}],"_id":"14506","has_accepted_license":"1","year":"2023","abstract":[{"lang":"eng","text":"Payment channel networks are a promising approach to improve the scalability bottleneck\r\nof cryptocurrencies. Two design principles behind payment channel networks are\r\nefficiency and privacy. Payment channel networks improve efficiency by allowing users\r\nto transact in a peer-to-peer fashion along multi-hop routes in the network, avoiding\r\nthe lengthy process of consensus on the blockchain. Transacting over payment channel\r\nnetworks also improves privacy as these transactions are not broadcast to the blockchain.\r\nDespite the influx of recent protocols built on top of payment channel networks and\r\ntheir analysis, a common shortcoming of many of these protocols is that they typically\r\nfocus only on either improving efficiency or privacy, but not both. Another limitation\r\non the efficiency front is that the models used to model actions, costs and utilities of\r\nusers are limited or come with unrealistic assumptions.\r\nThis thesis aims to address some of the shortcomings of recent protocols and algorithms\r\non payment channel networks, particularly in their privacy and efficiency aspects. We\r\nfirst present a payment route discovery protocol based on hub labelling and private\r\ninformation retrieval that hides the route query and is also efficient. We then present\r\na rebalancing protocol that formulates the rebalancing problem as a linear program\r\nand solves the linear program using multiparty computation so as to hide the channel\r\nbalances. The rebalancing solution as output by our protocol is also globally optimal.\r\nWe go on to develop more realistic models of the action space, costs, and utilities of\r\nboth existing and new users that want to join the network. In each of these settings,\r\nwe also develop algorithms to optimise the utility of these users with good guarantees\r\non the approximation and competitive ratios."}],"department":[{"_id":"GradSch"},{"_id":"KrPi"}],"title":"Advances in efficiency and privacy in payment channel network analysis","publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","date_created":"2023-11-10T08:10:43Z","ec_funded":1},{"oa":1,"status":"public","acknowledgement":"This review could not have been written without the many fruitful discussions and great collaborations with colleagues throughout the years, there are too many to mention. Here we acknowledge conversations regarding the context of the review with Joachim Brand, Fabian Brauneis, Adolfo del Campo, Alberto Cappellaro, Panagiotis Giannakeas, Tommaso Macrí, Oleksandr Marchukov, Lukas Rammelmüller and Manuel Valiente. S. I. M. acknowledges support from the NSF through a grant for ITAMP at Harvard University. T.F. acknowledges support from JSPS KAKENHI Grant Number JP23K03290 and T.F. and Th.B. acknowledge support from the Okinawa Institute for Science and Technology Graduate University, and JST Grant Number JPMJPF2221. A.F. and R. E. B. acknowledge support from CNPq (Conselho Nacional de Desenvolvimento Científico e Tecnológico) - Edital Universal 406563/2021-7. A. G. V. acknowledges support by European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411. P. S. is supported by the Cluster of Excellence ‘Advanced Imaging of Matter’ of the Deutsche Forschungsgemeinschaft (DFG) - EXC2056 - project ID 390715994. N. T. Z. is partially supported by the Independent Research Fund Denmark .","external_id":{"arxiv":["2202.11071"]},"article_type":"original","citation":{"mla":"Mistakidis, S. I., et al. “Few-Body Bose Gases in Low Dimensions - A Laboratory for Quantum Dynamics.” <i>Physics Reports</i>, vol. 1042, Elsevier, 2023, pp. 1–108, doi:<a href=\"https://doi.org/10.1016/j.physrep.2023.10.004\">10.1016/j.physrep.2023.10.004</a>.","ista":"Mistakidis SI, Volosniev A, Barfknecht RE, Fogarty T, Busch T, Foerster A, Schmelcher P, Zinner NT. 2023. Few-body Bose gases in low dimensions - A laboratory for quantum dynamics. Physics Reports. 1042, 1–108.","short":"S.I. Mistakidis, A. Volosniev, R.E. Barfknecht, T. Fogarty, T. Busch, A. Foerster, P. Schmelcher, N.T. Zinner, Physics Reports 1042 (2023) 1–108.","ama":"Mistakidis SI, Volosniev A, Barfknecht RE, et al. Few-body Bose gases in low dimensions - A laboratory for quantum dynamics. <i>Physics Reports</i>. 2023;1042:1-108. doi:<a href=\"https://doi.org/10.1016/j.physrep.2023.10.004\">10.1016/j.physrep.2023.10.004</a>","apa":"Mistakidis, S. I., Volosniev, A., Barfknecht, R. E., Fogarty, T., Busch, T., Foerster, A., … Zinner, N. T. (2023). Few-body Bose gases in low dimensions - A laboratory for quantum dynamics. <i>Physics Reports</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.physrep.2023.10.004\">https://doi.org/10.1016/j.physrep.2023.10.004</a>","ieee":"S. I. Mistakidis <i>et al.</i>, “Few-body Bose gases in low dimensions - A laboratory for quantum dynamics,” <i>Physics Reports</i>, vol. 1042. Elsevier, pp. 1–108, 2023.","chicago":"Mistakidis, S. I., Artem Volosniev, R. E. Barfknecht, T. Fogarty, Th Busch, A. Foerster, P. Schmelcher, and N. T. Zinner. “Few-Body Bose Gases in Low Dimensions - A Laboratory for Quantum Dynamics.” <i>Physics Reports</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.physrep.2023.10.004\">https://doi.org/10.1016/j.physrep.2023.10.004</a>."},"publication_identifier":{"issn":["0370-1573"]},"page":"1-108","volume":1042,"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14513","year":"2023","arxiv":1,"abstract":[{"text":"Cold atomic gases have become a paradigmatic system for exploring fundamental physics, which at the same time allows for applications in quantum technologies. The accelerating developments in the field have led to a highly advanced set of engineering techniques that, for example, can tune interactions, shape the external geometry, select among a large set of atomic species with different properties, or control the number of atoms. In particular, it is possible to operate in lower dimensions and drive atomic systems into the strongly correlated regime. In this review, we discuss recent advances in few-body cold atom systems confined in low dimensions from a theoretical viewpoint. We mainly focus on bosonic systems in one dimension and provide an introduction to the static properties before we review the state-of-the-art research into quantum dynamical processes stimulated by the presence of correlations. Besides discussing the fundamental physical phenomena arising in these systems, we also provide an overview of the calculational and numerical tools and methods that are commonly used, thus delivering a balanced and comprehensive overview of the field. We conclude by giving an outlook on possible future directions that are interesting to explore in these correlated systems.","lang":"eng"}],"department":[{"_id":"MiLe"}],"title":"Few-body Bose gases in low dimensions - A laboratory for quantum dynamics","publication":"Physics Reports","publisher":"Elsevier","oa_version":"Preprint","ec_funded":1,"date_created":"2023-11-12T23:00:54Z","day":"29","language":[{"iso":"eng"}],"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"}],"month":"11","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2202.11071","open_access":"1"}],"intvolume":"      1042","publication_status":"published","author":[{"last_name":"Mistakidis","first_name":"S. I.","full_name":"Mistakidis, S. I."},{"id":"37D278BC-F248-11E8-B48F-1D18A9856A87","full_name":"Volosniev, Artem","orcid":"0000-0003-0393-5525","last_name":"Volosniev","first_name":"Artem"},{"full_name":"Barfknecht, R. E.","last_name":"Barfknecht","first_name":"R. E."},{"last_name":"Fogarty","first_name":"T.","full_name":"Fogarty, T."},{"last_name":"Busch","first_name":"Th","full_name":"Busch, Th"},{"first_name":"A.","last_name":"Foerster","full_name":"Foerster, A."},{"first_name":"P.","last_name":"Schmelcher","full_name":"Schmelcher, P."},{"full_name":"Zinner, N. T.","last_name":"Zinner","first_name":"N. T."}],"date_published":"2023-11-29T00:00:00Z","date_updated":"2023-11-13T08:01:57Z","doi":"10.1016/j.physrep.2023.10.004","article_processing_charge":"No","scopus_import":"1","quality_controlled":"1"},{"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":131,"year":"2023","has_accepted_license":"1","_id":"14514","article_type":"original","issue":"16","oa":1,"status":"public","acknowledgement":"We are grateful to Dominic Vella, Jens Eggers, John Kolinski, Joshua Dijksman, and Daniel Bonn for insightful discussions. J. B. and A. S. acknowledge the support of the Engineering and Physical Sciences Research Council (EPSRC) through New Investigator Award No. EP/\r\nT000961/1. A. S. acknowledges the support of Royal Society under Grant No. RGS/R2/202135. J. E. S. acknowledges EPSRC Grants No. EP/N016602/1, EP/S022848/1, EP/S029966/1, and EP/P031684/1.","publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"citation":{"chicago":"Binysh, Jack, Indrajit Chakraborty, Mykyta V. Chubynsky, Vicente L Diaz Melian, Scott R Waitukaitis, James E. Sprittles, and Anton Souslov. “Modeling Leidenfrost Levitation of Soft Elastic Solids.” <i>Physical Review Letters</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevLett.131.168201\">https://doi.org/10.1103/PhysRevLett.131.168201</a>.","ieee":"J. Binysh <i>et al.</i>, “Modeling Leidenfrost levitation of soft elastic solids,” <i>Physical Review Letters</i>, vol. 131, no. 16. American Physical Society, 2023.","apa":"Binysh, J., Chakraborty, I., Chubynsky, M. V., Diaz Melian, V. L., Waitukaitis, S. R., Sprittles, J. E., &#38; Souslov, A. (2023). Modeling Leidenfrost levitation of soft elastic solids. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.131.168201\">https://doi.org/10.1103/PhysRevLett.131.168201</a>","ama":"Binysh J, Chakraborty I, Chubynsky MV, et al. Modeling Leidenfrost levitation of soft elastic solids. <i>Physical Review Letters</i>. 2023;131(16). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.131.168201\">10.1103/PhysRevLett.131.168201</a>","ista":"Binysh J, Chakraborty I, Chubynsky MV, Diaz Melian VL, Waitukaitis SR, Sprittles JE, Souslov A. 2023. Modeling Leidenfrost levitation of soft elastic solids. Physical Review Letters. 131(16), 168201.","mla":"Binysh, Jack, et al. “Modeling Leidenfrost Levitation of Soft Elastic Solids.” <i>Physical Review Letters</i>, vol. 131, no. 16, 168201, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.131.168201\">10.1103/PhysRevLett.131.168201</a>.","short":"J. Binysh, I. Chakraborty, M.V. Chubynsky, V.L. Diaz Melian, S.R. Waitukaitis, J.E. Sprittles, A. Souslov, Physical Review Letters 131 (2023)."},"publisher":"American Physical Society","title":"Modeling Leidenfrost levitation of soft elastic solids","department":[{"_id":"ScWa"}],"publication":"Physical Review Letters","oa_version":"Published Version","date_created":"2023-11-12T23:00:55Z","abstract":[{"lang":"eng","text":"The elastic Leidenfrost effect occurs when a vaporizable soft solid is lowered onto a hot surface. Evaporative flow couples to elastic deformation, giving spontaneous bouncing or steady-state floating. The effect embodies an unexplored interplay between thermodynamics, elasticity, and lubrication: despite being observed, its basic theoretical description remains a challenge. Here, we provide a theory of elastic Leidenfrost floating. As weight increases, a rigid solid sits closer to the hot surface. By contrast, we discover an elasticity-dominated regime where the heavier the solid, the higher it floats. This geometry-governed behavior is reminiscent of the dynamics of large liquid Leidenfrost drops. We show that this elastic regime is characterized by Hertzian behavior of the solid’s underbelly and derive how the float height scales with materials parameters. Introducing a dimensionless elastic Leidenfrost number, we capture the crossover between rigid and Hertzian behavior. Our results provide theoretical underpinning for recent experiments, and point to the design of novel soft machines."}],"publication_status":"published","file":[{"file_id":"14524","date_updated":"2023-11-13T09:12:58Z","checksum":"1a419e25b762aadffbcc8eb2e609bd97","file_name":"2023_PhysRevLetters_Binysh.pdf","file_size":724098,"creator":"dernst","access_level":"open_access","relation":"main_file","date_created":"2023-11-13T09:12:58Z","success":1,"content_type":"application/pdf"}],"intvolume":"       131","day":"20","ddc":["530"],"language":[{"iso":"eng"}],"month":"10","article_number":"168201","file_date_updated":"2023-11-13T09:12:58Z","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"doi":"10.1103/PhysRevLett.131.168201","related_material":{"record":[{"id":"14523","relation":"research_data","status":"public"}]},"date_updated":"2023-11-13T09:21:30Z","article_processing_charge":"Yes (in subscription journal)","date_published":"2023-10-20T00:00:00Z","author":[{"full_name":"Binysh, Jack","first_name":"Jack","last_name":"Binysh"},{"full_name":"Chakraborty, Indrajit","first_name":"Indrajit","last_name":"Chakraborty"},{"last_name":"Chubynsky","first_name":"Mykyta V.","full_name":"Chubynsky, Mykyta V."},{"last_name":"Diaz Melian","first_name":"Vicente L","id":"b6798902-eea0-11ea-9cbc-a8e14286c631","full_name":"Diaz Melian, Vicente L"},{"first_name":"Scott R","last_name":"Waitukaitis","orcid":"0000-0002-2299-3176","full_name":"Waitukaitis, Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87"},{"first_name":"James E.","last_name":"Sprittles","full_name":"Sprittles, James E."},{"last_name":"Souslov","first_name":"Anton","full_name":"Souslov, Anton"}],"quality_controlled":"1","scopus_import":"1"},{"citation":{"chicago":"Reinhardt, Manuel, Gašper Tkačik, and Pieter Rein Ten Wolde. “Path Weight Sampling: Exact Monte Carlo Computation of the Mutual Information between Stochastic Trajectories.” <i>Physical Review X</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevX.13.041017\">https://doi.org/10.1103/PhysRevX.13.041017</a>.","ieee":"M. Reinhardt, G. Tkačik, and P. R. Ten Wolde, “Path weight sampling: Exact Monte Carlo computation of the mutual information between stochastic trajectories,” <i>Physical Review X</i>, vol. 13, no. 4. American Physical Society, 2023.","apa":"Reinhardt, M., Tkačik, G., &#38; Ten Wolde, P. R. (2023). Path weight sampling: Exact Monte Carlo computation of the mutual information between stochastic trajectories. <i>Physical Review X</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevX.13.041017\">https://doi.org/10.1103/PhysRevX.13.041017</a>","ama":"Reinhardt M, Tkačik G, Ten Wolde PR. Path weight sampling: Exact Monte Carlo computation of the mutual information between stochastic trajectories. <i>Physical Review X</i>. 2023;13(4). doi:<a href=\"https://doi.org/10.1103/PhysRevX.13.041017\">10.1103/PhysRevX.13.041017</a>","mla":"Reinhardt, Manuel, et al. “Path Weight Sampling: Exact Monte Carlo Computation of the Mutual Information between Stochastic Trajectories.” <i>Physical Review X</i>, vol. 13, no. 4, 041017, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevX.13.041017\">10.1103/PhysRevX.13.041017</a>.","ista":"Reinhardt M, Tkačik G, Ten Wolde PR. 2023. Path weight sampling: Exact Monte Carlo computation of the mutual information between stochastic trajectories. Physical Review X. 13(4), 041017.","short":"M. Reinhardt, G. Tkačik, P.R. Ten Wolde, Physical Review X 13 (2023)."},"publication_identifier":{"eissn":["2160-3308"]},"status":"public","oa":1,"acknowledgement":"We thank Bela Mulder, Tom Shimizu, Fotios Avgidis, Peter Bolhuis, and Daan Frenkel for useful discussions and a careful reading of the manuscript, and we thank Age Tjalma for support with obtaining the Gaussian approximation of the chemotaxis system. This work is part of the Dutch Research Council (NWO) and was performed at the research institute AMOLF. This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (Grant Agreement No. 885065) and was\r\nfinancially supported by NWO through the “Building a Synthetic Cell (BaSyC)” Gravitation Grant (024.003.019).","issue":"4","article_type":"original","external_id":{"arxiv":["2203.03461"]},"_id":"14515","year":"2023","has_accepted_license":"1","volume":13,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","abstract":[{"text":"Most natural and engineered information-processing systems transmit information via signals that vary in time. Computing the information transmission rate or the information encoded in the temporal characteristics of these signals requires the mutual information between the input and output signals as a function of time, i.e., between the input and output trajectories. Yet, this is notoriously difficult because of the high-dimensional nature of the trajectory space, and all existing techniques require approximations. We present an exact Monte Carlo technique called path weight sampling (PWS) that, for the first time, makes it possible to compute the mutual information between input and output trajectories for any stochastic system that is described by a master equation. The principal idea is to use the master equation to evaluate the exact conditional probability of an individual output trajectory for a given input trajectory and average this via Monte Carlo sampling in trajectory space to obtain the mutual information. We present three variants of PWS, which all generate the trajectories using the standard stochastic simulation algorithm. While direct PWS is a brute-force method, Rosenbluth-Rosenbluth PWS exploits the analogy between signal trajectory sampling and polymer sampling, and thermodynamic integration PWS is based on a reversible work calculation in trajectory space. PWS also makes it possible to compute the mutual information between input and output trajectories for systems with hidden internal states as well as systems with feedback from output to input. Applying PWS to the bacterial chemotaxis system, consisting of 182 coupled chemical reactions, demonstrates not only that the scheme is highly efficient but also that the number of receptor clusters is much smaller than hitherto believed, while their size is much larger.","lang":"eng"}],"arxiv":1,"date_created":"2023-11-12T23:00:55Z","oa_version":"Published Version","publication":"Physical Review X","department":[{"_id":"GaTk"}],"title":"Path weight sampling: Exact Monte Carlo computation of the mutual information between stochastic trajectories","publisher":"American Physical Society","month":"10","language":[{"iso":"eng"}],"ddc":["530"],"day":"26","intvolume":"        13","file":[{"content_type":"application/pdf","success":1,"date_created":"2023-11-13T09:00:19Z","relation":"main_file","access_level":"open_access","creator":"dernst","file_size":1595223,"file_name":"2023_PhysReviewX_Reinhardt.pdf","checksum":"32574aeebcca7347a4152c611b66b3d5","file_id":"14522","date_updated":"2023-11-13T09:00:19Z"}],"publication_status":"published","scopus_import":"1","quality_controlled":"1","date_published":"2023-10-26T00:00:00Z","author":[{"full_name":"Reinhardt, Manuel","first_name":"Manuel","last_name":"Reinhardt"},{"first_name":"Gašper","orcid":"0000-0002-6699-1455","last_name":"Tkačik","full_name":"Tkačik, Gašper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Ten Wolde, Pieter Rein","first_name":"Pieter Rein","last_name":"Ten Wolde"}],"article_processing_charge":"Yes","doi":"10.1103/PhysRevX.13.041017","date_updated":"2023-11-13T09:03:30Z","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file_date_updated":"2023-11-13T09:00:19Z","article_number":"041017"},{"ddc":["000"],"day":"01","month":"10","language":[{"iso":"eng"}],"intvolume":"       282","main_file_link":[{"open_access":"1","url":"https://eprint.iacr.org/2021/1643"}],"file":[{"file_id":"14521","date_updated":"2023-11-13T08:44:34Z","file_name":"2023_LIPIcs_Beaver.pdf","checksum":"c1f98831cb5149d6c030c41999e6e960","file_size":793495,"creator":"dernst","access_level":"open_access","relation":"main_file","success":1,"date_created":"2023-11-13T08:44:34Z","content_type":"application/pdf"}],"publication_status":"published","author":[{"last_name":"Beaver","first_name":"Donald","full_name":"Beaver, Donald"},{"full_name":"Kelkar, Mahimna","first_name":"Mahimna","last_name":"Kelkar"},{"first_name":"Kevin","last_name":"Lewi","full_name":"Lewi, Kevin"},{"last_name":"Nikolaenko","first_name":"Valeria","full_name":"Nikolaenko, Valeria"},{"full_name":"Sonnino, Alberto","first_name":"Alberto","last_name":"Sonnino"},{"first_name":"Konstantinos","last_name":"Chalkias","full_name":"Chalkias, Konstantinos"},{"first_name":"Eleftherios","last_name":"Kokoris Kogias","full_name":"Kokoris Kogias, Eleftherios","id":"f5983044-d7ef-11ea-ac6d-fd1430a26d30"},{"first_name":"Ladi De","last_name":"Naurois","full_name":"Naurois, Ladi De"},{"first_name":"Arnab","last_name":"Roy","full_name":"Roy, Arnab"}],"date_published":"2023-10-01T00:00:00Z","article_processing_charge":"Yes","alternative_title":["LIPIcs"],"doi":"10.4230/LIPIcs.AFT.2023.7","date_updated":"2023-11-13T08:52:01Z","scopus_import":"1","quality_controlled":"1","file_date_updated":"2023-11-13T08:44:34Z","article_number":"7","conference":{"location":"Princeton, NJ, United States","start_date":"2023-10-23","name":"AFT: Conference on Advances in Financial Technologies","end_date":"2023-10-25"},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"status":"public","acknowledgement":"Work done when all the authors were at Novi Research, Meta.","oa":1,"citation":{"apa":"Beaver, D., Kelkar, M., Lewi, K., Nikolaenko, V., Sonnino, A., Chalkias, K., … Roy, A. (2023). STROBE: Streaming Threshold Random Beacons. In <i>5th Conference on Advances in Financial Technologies</i> (Vol. 282). Princeton, NJ, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.AFT.2023.7\">https://doi.org/10.4230/LIPIcs.AFT.2023.7</a>","chicago":"Beaver, Donald, Mahimna Kelkar, Kevin Lewi, Valeria Nikolaenko, Alberto Sonnino, Konstantinos Chalkias, Eleftherios Kokoris Kogias, Ladi De Naurois, and Arnab Roy. “STROBE: Streaming Threshold Random Beacons.” In <i>5th Conference on Advances in Financial Technologies</i>, Vol. 282. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023. <a href=\"https://doi.org/10.4230/LIPIcs.AFT.2023.7\">https://doi.org/10.4230/LIPIcs.AFT.2023.7</a>.","ieee":"D. Beaver <i>et al.</i>, “STROBE: Streaming Threshold Random Beacons,” in <i>5th Conference on Advances in Financial Technologies</i>, Princeton, NJ, United States, 2023, vol. 282.","ista":"Beaver D, Kelkar M, Lewi K, Nikolaenko V, Sonnino A, Chalkias K, Kokoris Kogias E, Naurois LD, Roy A. 2023. STROBE: Streaming Threshold Random Beacons. 5th Conference on Advances in Financial Technologies. AFT: Conference on Advances in Financial Technologies, LIPIcs, vol. 282, 7.","mla":"Beaver, Donald, et al. “STROBE: Streaming Threshold Random Beacons.” <i>5th Conference on Advances in Financial Technologies</i>, vol. 282, 7, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023, doi:<a href=\"https://doi.org/10.4230/LIPIcs.AFT.2023.7\">10.4230/LIPIcs.AFT.2023.7</a>.","short":"D. Beaver, M. Kelkar, K. Lewi, V. Nikolaenko, A. Sonnino, K. Chalkias, E. Kokoris Kogias, L.D. Naurois, A. Roy, in:, 5th Conference on Advances in Financial Technologies, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023.","ama":"Beaver D, Kelkar M, Lewi K, et al. STROBE: Streaming Threshold Random Beacons. In: <i>5th Conference on Advances in Financial Technologies</i>. Vol 282. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2023. doi:<a href=\"https://doi.org/10.4230/LIPIcs.AFT.2023.7\">10.4230/LIPIcs.AFT.2023.7</a>"},"publication_identifier":{"isbn":["9783959773034"],"issn":["1868-8969"]},"volume":282,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"conference","_id":"14516","year":"2023","has_accepted_license":"1","abstract":[{"lang":"eng","text":"We revisit decentralized random beacons with a focus on practical distributed applications. Decentralized random beacons (Beaver and So, Eurocrypt'93) provide the functionality for n parties to generate an unpredictable sequence of bits in a way that cannot be biased, which is useful for any decentralized protocol requiring trusted randomness. Existing beacon constructions are highly inefficient in practical settings where protocol parties need to rejoin after crashes or disconnections, and more significantly where smart contracts may rely on arbitrary index points in high-volume streams. For this, we introduce a new notion of history-generating decentralized random beacons (HGDRBs). Roughly, the history-generation property of HGDRBs allows for previous beacon outputs to be efficiently generated knowing only the current value and the public key. At application layers, history-generation supports registering a sparser set of on-chain values if desired, so that apps like lotteries can utilize on-chain values without incurring high-frequency costs, enjoying all the benefits of DRBs implemented off-chain or with decoupled, special-purpose chains. Unlike rollups, HG is tailored specifically to recovering and verifying pseudorandom bit sequences and thus enjoys unique optimizations investigated in this work. We introduce STROBE: an efficient HGDRB construction which generalizes the original squaring-based RSA approach of Beaver and So. STROBE enjoys several useful properties that make it suited for practical applications that use beacons: 1) history-generating: it can regenerate and verify high-throughput beacon streams, supporting sparse (thus cost-effective) ledger entries; 2) concisely self-verifying: NIZK-free, with state and validation employing a single ring element; 3) eco-friendly: stake-based rather than work based; 4) unbounded: refresh-free, addressing limitations of Beaver and So; 5) delay-free: results are immediately available. 6) storage-efficient: the last beacon suffices to derive all past outputs, thus O(1) storage requirements for nodes serving the whole history."}],"publication":"5th Conference on Advances in Financial Technologies","title":"STROBE: Streaming Threshold Random Beacons","department":[{"_id":"ElKo"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","date_created":"2023-11-12T23:00:55Z","oa_version":"Published Version"}]