[{"type":"research_data","publisher":"Institute of Science and Technology Austria","year":"2024","retracted":"1","doi":"10.15479/AT:ISTA:14705","date_published":"2024-01-02T00:00:00Z","oa":1,"contributor":[{"last_name":"Bett","id":"57854184-AAE0-11E9-8D04-98D6E5697425","first_name":"Vincent K","contributor_type":"researcher"},{"last_name":"Macon","id":"2A0848E2-F248-11E8-B48F-1D18A9856A87","contributor_type":"project_member","first_name":"Ariana"},{"first_name":"Beatriz","contributor_type":"supervisor","last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4579-8306"},{"first_name":"Marwan N","contributor_type":"researcher","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","last_name":"Elkrewi","orcid":"0000-0002-5328-7231"}],"_id":"14705","author":[{"first_name":"Marwan N","full_name":"Elkrewi, Marwan N","orcid":"0000-0002-5328-7231","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","last_name":"Elkrewi"}],"keyword":["sex chromosome evolution","genome assembly","dosage compensation"],"article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["576"],"file_date_updated":"2023-12-22T14:14:06Z","department":[{"_id":"GradSch"},{"_id":"BeVi"}],"date_created":"2023-12-22T13:40:48Z","month":"01","license":"https://creativecommons.org/licenses/by/4.0/","status":"public","date_updated":"2025-07-24T11:06:43Z","abstract":[{"text":"Since the commercialization of brine shrimp (genus Artemia) in the 1950s, this lineage, and in particular the model species Artemia franciscana, has been the subject of extensive research. However, our understanding of the genetic mechanisms underlying various aspects of their reproductive biology, including sex determination, are still lacking. This is partly due to the scarcity of genomic resources for Artemia species and crustaceans in general. Here, we present a chromosome-level genome assembly of Artemia franciscana (Kellogg 1906), from the Great Salt Lake, USA. The genome is 1GB, and the majority of the genome (81%) is scaffolded into 21 linkage groups using a previously published high-density linkage map. We performed coverage and FST analyses using male and female genomic and transcriptomic reads to quantify the extent of differentiation between the Z and W chromosomes. Additionally, we quantified the expression levels in male and female heads and gonads and found further evidence for dosage compensation in this species.","lang":"eng"}],"oa_version":"Published Version","day":"02","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"has_accepted_license":"1","project":[{"grant_number":"F8810","_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396","name":"The highjacking of meiosis for asexual reproduction"}],"citation":{"ama":"Elkrewi MN. Data from “Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation.” 2024. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14705\">10.15479/AT:ISTA:14705</a>","mla":"Elkrewi, Marwan N. <i>Data from “Chromosome-Level Assembly of Artemia Franciscana Sheds Light on Sex-Chromosome Differentiation.”</i> Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14705\">10.15479/AT:ISTA:14705</a>.","apa":"Elkrewi, M. N. (2024). Data from “Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:14705\">https://doi.org/10.15479/AT:ISTA:14705</a>","ista":"Elkrewi MN. 2024. Data from ‘Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:14705\">10.15479/AT:ISTA:14705</a>.","short":"M.N. Elkrewi, (2024).","ieee":"M. N. Elkrewi, “Data from ‘Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation.’” Institute of Science and Technology Austria, 2024.","chicago":"Elkrewi, Marwan N. “Data from ‘Chromosome-Level Assembly of Artemia Franciscana Sheds Light on Sex-Chromosome Differentiation.’” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/AT:ISTA:14705\">https://doi.org/10.15479/AT:ISTA:14705</a>."},"related_material":{"record":[{"id":"15009","status":"public","relation":"used_in_publication"}]},"title":"Data from \"Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation\"","file":[{"file_size":847,"file_name":"readme.txt.txt","success":1,"date_updated":"2023-12-22T13:54:21Z","file_id":"14707","checksum":"bdaf1392867786634ec5466d528c36ca","date_created":"2023-12-22T13:54:21Z","creator":"melkrewi","content_type":"text/plain","relation":"main_file","access_level":"open_access"},{"success":1,"date_updated":"2023-12-22T14:14:06Z","date_created":"2023-12-22T14:14:06Z","checksum":"973e1cbdab923a71709782177980829f","file_id":"14708","file_size":343632753,"file_name":"data_artemia_franciscana_genome.zip","content_type":"application/x-zip-compressed","relation":"main_file","access_level":"open_access","creator":"melkrewi"}]},{"related_material":{"record":[{"id":"10658","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","id":"10787","status":"public"},{"status":"public","id":"14732","relation":"part_of_dissertation"}]},"title":"Local adaptation, genetic load and extinction in metapopulations","file":[{"creator":"oolusany","access_level":"closed","relation":"source_file","content_type":"application/zip","file_name":"FinalSubmission_Thesis_OLUSANYA.zip","file_size":16986244,"file_id":"14730","checksum":"de179b1c6758f182ff0c70d8b38c1501","date_created":"2024-01-03T18:30:13Z","date_updated":"2024-01-03T18:30:13Z"},{"creator":"oolusany","relation":"main_file","content_type":"application/pdf","access_level":"open_access","file_size":6460403,"file_name":"FinalSubmission2_Thesis_OLUSANYA.pdf","date_updated":"2024-01-03T18:31:34Z","success":1,"file_id":"14731","checksum":"0e331585e3cd4823320aab4e69e64ccf","date_created":"2024-01-03T18:31:34Z"}],"project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program","grant_number":"665385","call_identifier":"H2020"},{"grant_number":"P32896","_id":"c08d3278-5a5b-11eb-8a69-fdb09b55f4b8","name":"Causes and consequences of population fragmentation"},{"_id":"34c872fe-11ca-11ed-8bc3-8534b82131e6","name":"Polygenic Adaptation in a Metapopulation","grant_number":"26380"}],"alternative_title":["ISTA Thesis"],"has_accepted_license":"1","degree_awarded":"MS","page":"183","publication_status":"published","oa_version":"Published Version","day":"19","tmp":{"image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","short":"CC BY-NC-SA (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"ec_funded":1,"abstract":[{"text":"In nature, different species find their niche in a range of environments, each with its unique characteristics. While some thrive in uniform (homogeneous) landscapes where environmental conditions stay relatively consistent across space, others traverse the complexities of spatially heterogeneous terrains. Comprehending how species are distributed and how they interact within these landscapes holds the key to gaining insights into their evolutionary dynamics while also informing conservation and management strategies.\r\n\r\nFor species inhabiting heterogeneous landscapes, when the rate of dispersal is low compared to spatial fluctuations in selection pressure, localized adaptations may emerge. Such adaptation in response to varying selection strengths plays an important role in the persistence of populations in our rapidly changing world. Hence, species in nature are continuously in a struggle to adapt to local environmental conditions, to ensure their continued survival. Natural populations can often adapt in time scales short enough for evolutionary changes to influence ecological dynamics and vice versa, thereby creating a feedback between evolution and demography. The analysis of this feedback and the relative contributions of gene flow, demography, drift, and natural selection to genetic variation and differentiation has remained a recurring theme in evolutionary biology. Nevertheless, the effective role of these forces in maintaining variation and shaping patterns of diversity is not fully understood. Even in homogeneous environments devoid of local adaptations, such understanding remains elusive. Understanding this feedback is crucial, for example in determining the conditions under which extinction risk can be mitigated in peripheral populations subject to deleterious mutation accumulation at the edges of species’ ranges\r\nas well as in highly fragmented populations.\r\n\r\nIn this thesis we explore both uniform and spatially heterogeneous metapopulations, investigating and providing theoretical insights into the dynamics of local adaptation in the latter and examining the dynamics of load and extinction as well as the impact of joint ecological and evolutionary (eco-evolutionary) dynamics in the former. The thesis is divided into 5 chapters.\r\n\r\nChapter 1 provides a general introduction into the subject matter, clarifying concepts and ideas used throughout the thesis. In chapter 2, we explore how fast a species distributed across a heterogeneous landscape adapts to changing conditions marked by alterations in carrying capacity, selection pressure, and migration rate.\r\n\r\nIn chapter 3, we investigate how migration selection and drift influences adaptation and the maintenance of variation in a metapopulation with three habitats, an extension of previous models of adaptation in two habitats. We further develop analytical approximations for the critical threshold required for polymorphism to persist.\r\n\r\nThe focus of chapter 4 of the thesis is on understanding the interplay between ecology and evolution as coupled processes. We investigate how eco-evolutionary feedback between migration, selection, drift, and demography influences eco-evolutionary outcomes in marginal populations subject to deleterious mutation accumulation. Using simulations as well as theoretical approximations of the coupled dynamics of population size and allele frequency, we analyze how gene flow from a large mainland source influences genetic load and population size on an island (i.e., in a marginal population) under genetically realistic assumptions. Analyses of this sort are important because small isolated populations, are repeatedly affected by complex interactions between ecological and evolutionary processes, which can lead to their death. Understanding these interactions can therefore provide an insight into the conditions under which extinction risk can be mitigated in peripheral populations thus, contributing to conservation and restoration efforts.\r\n\r\nChapter 5 extends the analysis in chapter 4 to consider the dynamics of load (due to deleterious mutation accumulation) and extinction risk in a metapopulation. We explore the role of gene flow, selection, and dominance on load and extinction risk and further pinpoint critical thresholds required for metapopulation persistence.\r\n\r\nOverall this research contributes to our understanding of ecological and evolutionary mechanisms that shape species’ persistence in fragmented landscapes, a crucial foundation for successful conservation efforts and biodiversity management.","lang":"eng"}],"date_updated":"2025-05-26T09:05:10Z","acknowledged_ssus":[{"_id":"SSU"}],"status":"public","license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","month":"01","publication_identifier":{"issn":["2663 - 337X"]},"supervisor":[{"first_name":"Nicholas H","full_name":"Barton, Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240"},{"full_name":"Polechova, Jitka","first_name":"Jitka","last_name":"Polechova"},{"full_name":"Sachdeva, Himani","first_name":"Himani","last_name":"Sachdeva"}],"date_created":"2023-12-26T22:49:53Z","department":[{"_id":"NiBa"},{"_id":"GradSch"}],"ddc":["576"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","file_date_updated":"2024-01-03T18:31:34Z","author":[{"full_name":"Olusanya, Oluwafunmilola O","first_name":"Oluwafunmilola O","last_name":"Olusanya","id":"41AD96DC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1971-8314"}],"oa":1,"_id":"14711","date_published":"2024-01-19T00:00:00Z","language":[{"iso":"eng"}],"doi":"10.15479/at:ista:14711","publisher":"Institute of Science and Technology Austria","year":"2024","type":"dissertation"},{"has_accepted_license":"1","alternative_title":["ISTA Thesis"],"citation":{"ieee":"H. S. C. Chiossi, “Adaptive hierarchical representations in the hippocampus,” Institute of Science and Technology Austria, 2024.","chicago":"Chiossi, Heloisa S. C. “Adaptive Hierarchical Representations in the Hippocampus.” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/at:ista:14821\">https://doi.org/10.15479/at:ista:14821</a>.","ama":"Chiossi HSC. Adaptive hierarchical representations in the hippocampus. 2024. doi:<a href=\"https://doi.org/10.15479/at:ista:14821\">10.15479/at:ista:14821</a>","ista":"Chiossi HSC. 2024. Adaptive hierarchical representations in the hippocampus. Institute of Science and Technology Austria.","short":"H.S.C. Chiossi, Adaptive Hierarchical Representations in the Hippocampus, Institute of Science and Technology Austria, 2024.","mla":"Chiossi, Heloisa S. C. <i>Adaptive Hierarchical Representations in the Hippocampus</i>. Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/at:ista:14821\">10.15479/at:ista:14821</a>.","apa":"Chiossi, H. S. C. (2024). <i>Adaptive hierarchical representations in the hippocampus</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14821\">https://doi.org/10.15479/at:ista:14821</a>"},"project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program","grant_number":"665385","call_identifier":"H2020"}],"file":[{"access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","relation":"source_file","creator":"hchiossi","file_id":"14838","date_created":"2024-01-19T11:04:05Z","checksum":"d3fa3de1abd5af5204c13e9d55375615","date_updated":"2024-01-19T11:04:05Z","file_name":"PhD_Thesis_190124.docx","file_size":8656268},{"embargo":"2025-01-19","creator":"hchiossi","relation":"main_file","content_type":"application/pdf","access_level":"closed","file_size":6567275,"file_name":"PhD_Thesis_190124.pdf","embargo_to":"open_access","date_updated":"2024-01-19T11:03:59Z","checksum":"13adc8dcfb5b6b18107f89f0a98fa8bd","file_id":"14839","date_created":"2024-01-19T11:03:59Z"}],"title":"Adaptive hierarchical representations in the hippocampus","status":"public","date_updated":"2024-02-01T09:50:29Z","ec_funded":1,"day":"19","page":"89","oa_version":"Published Version","publication_status":"published","degree_awarded":"PhD","file_date_updated":"2024-01-19T11:04:05Z","ddc":["570"],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","article_processing_charge":"No","department":[{"_id":"GradSch"},{"_id":"JoCs"}],"date_created":"2024-01-16T14:25:21Z","supervisor":[{"orcid":"0000-0002-5193-4036","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","last_name":"Csicsvari","full_name":"Csicsvari, Jozsef L","first_name":"Jozsef L"}],"publication_identifier":{"issn":["2663 - 337X"]},"month":"01","type":"dissertation","year":"2024","publisher":"Institute of Science and Technology Austria","doi":"10.15479/at:ista:14821","language":[{"iso":"eng"}],"date_published":"2024-01-19T00:00:00Z","_id":"14821","author":[{"id":"2BBA502C-F248-11E8-B48F-1D18A9856A87","last_name":"Chiossi","full_name":"Chiossi, Heloisa","first_name":"Heloisa"}]},{"type":"journal_article","year":"2024","publisher":"Oxford University Press","doi":"10.1093/mnras/stad3853","language":[{"iso":"eng"}],"date_published":"2024-02-01T00:00:00Z","_id":"14852","oa":1,"author":[{"full_name":"Kramarenko, Ivan","first_name":"Ivan","id":"9a9394cb-3200-11ee-973b-f5ba2a8b16e4","last_name":"Kramarenko"},{"first_name":"J","full_name":"Kerutt, J","last_name":"Kerutt"},{"first_name":"A","full_name":"Verhamme, A","last_name":"Verhamme"},{"first_name":"P A","full_name":"Oesch, P A","last_name":"Oesch"},{"last_name":"Barrufet","first_name":"L","full_name":"Barrufet, L"},{"full_name":"Matthee, Jorryt J","first_name":"Jorryt J","id":"7439a258-f3c0-11ec-9501-9df22fe06720","last_name":"Matthee","orcid":"0000-0003-2871-127X"},{"full_name":"Kusakabe, H","first_name":"H","last_name":"Kusakabe"},{"last_name":"Goovaerts","first_name":"I","full_name":"Goovaerts, I"},{"first_name":"T T","full_name":"Thai, T T","last_name":"Thai"}],"intvolume":"       527","keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"file_date_updated":"2024-01-23T12:30:45Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"Yes (in subscription journal)","ddc":["520"],"acknowledgement":"We thank the anonymous referee for the constructive feedback that helped to improve the manuscript. We thank Michael Maseda, Daniel Schaerer, Charlotte Simmonds, and Rashmi Gottumukkala for useful comments and productive discussions. We also thank the organizers and participants of the 24th MUSE Science Busy Week in Leiden. IGK acknowledges an Excellence Master Fellowship granted by the Faculty of Science of the University of Geneva. This work has received funding from the Swiss State Secretariat for Education, Research and Innovation (SERI) under contract number MB22.00072, as well as from the Swiss National Science Foundation (SNSF) through project grant number 200020_207349 and SNSF Professorship grant number 190079. The Cosmic Dawn Center (DAWN) is funded by the Danish National Research Foundation under grant number 140. This paper is based on observations collected at the European Organisation for Astronomical Research in the Southern Hemisphere under ESO programmes 094.A-0289(B), 095.A-0010(A), 096.A-0045(A), 096.A-0045(B), 094.A-0205, 095.A-0240, 096.A-0090, 097.A-0160, and 098.A-0017. We made extensive use of several open-source software packages and we are thankful to the respective authors for sharing their work: NUMPY (Harris et al. 2020), ASTROPY (Astropy Collaboration 2022), MATPLOTLIB (Hunter 2007), IPYTHON (Perez & Granger 2007), and TOPCAT (Taylor 2005).","department":[{"_id":"GradSch"},{"_id":"JoMa"}],"date_created":"2024-01-22T08:22:17Z","article_type":"original","volume":527,"publication_identifier":{"issn":["0035-8711"],"eissn":["1365-2966"]},"quality_controlled":"1","month":"02","status":"public","date_updated":"2024-01-23T12:33:50Z","abstract":[{"lang":"eng","text":"The physical conditions giving rise to high escape fractions of ionizing radiation (LyC fesc) in star-forming galaxies – most likely protagonists of cosmic reionization – are not yet fully understood. Using the VLT/MUSE observations of ∼1400 Ly α emitters at 2.9 &amp;lt; z &amp;lt; 6.7, we compare stacked rest-frame UV spectra of candidates for LyC leakers and non-leakers selected based on their Ly α profiles. We find that the stacks of potential LyC leakers, i.e. galaxies with narrow, symmetric Ly α profiles with small peak separation, generally show (i) strong nebular O iii]λ1666, [Si iii]λ1883, and [C iii]λ1907 +C iii]λ1909 emission, indicating a high-ionization state of the interstellar medium (ISM); (ii) high equivalent widths of He iiλ1640 (∼1 − 3 Å), suggesting the presence of hard ionizing radiation fields; (iii) Si ii*λ1533 emission, revealing substantial amounts of neutral hydrogen off the line of sight; (iv) high C ivλλ1548,1550 to [C iii]λ1907 +C iii]λ1909 ratios (C iv/C iii] ≳0.75) , signalling the presence of low column density channels in the ISM. In contrast, the stacks with broad, asymmetric Ly α profiles with large peak separation show weak nebular emission lines, low He iiλ1640 equivalent widths (≲1 Å), and low C iv/C iii] (≲0.25), implying low-ionization states and high-neutral hydrogen column densities. Our results suggest that C iv/C iii] might be sensitive to the physical conditions that govern LyC photon escape, providing a promising tool for identification of ionizing sources among star-forming galaxies in the epoch of reionization."}],"day":"01","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"publication_status":"published","oa_version":"Published Version","page":"9853-9871","has_accepted_license":"1","issue":"4","citation":{"chicago":"Kramarenko, Ivan, J Kerutt, A Verhamme, P A Oesch, L Barrufet, Jorryt J Matthee, H Kusakabe, I Goovaerts, and T T Thai. “Linking UV Spectral Properties of MUSE Ly α Emitters at <i>z</i> ≳ 3 to Lyman Continuum Escape.” <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/mnras/stad3853\">https://doi.org/10.1093/mnras/stad3853</a>.","ieee":"I. Kramarenko <i>et al.</i>, “Linking UV spectral properties of MUSE Ly α emitters at <i>z</i> ≳ 3 to Lyman continuum escape,” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 527, no. 4. Oxford University Press, pp. 9853–9871, 2024.","mla":"Kramarenko, Ivan, et al. “Linking UV Spectral Properties of MUSE Ly α Emitters at <i>z</i> ≳ 3 to Lyman Continuum Escape.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 527, no. 4, Oxford University Press, 2024, pp. 9853–71, doi:<a href=\"https://doi.org/10.1093/mnras/stad3853\">10.1093/mnras/stad3853</a>.","apa":"Kramarenko, I., Kerutt, J., Verhamme, A., Oesch, P. A., Barrufet, L., Matthee, J. J., … Thai, T. T. (2024). Linking UV spectral properties of MUSE Ly α emitters at <i>z</i> ≳ 3 to Lyman continuum escape. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/mnras/stad3853\">https://doi.org/10.1093/mnras/stad3853</a>","short":"I. Kramarenko, J. Kerutt, A. Verhamme, P.A. Oesch, L. Barrufet, J.J. Matthee, H. Kusakabe, I. Goovaerts, T.T. Thai, Monthly Notices of the Royal Astronomical Society 527 (2024) 9853–9871.","ista":"Kramarenko I, Kerutt J, Verhamme A, Oesch PA, Barrufet L, Matthee JJ, Kusakabe H, Goovaerts I, Thai TT. 2024. Linking UV spectral properties of MUSE Ly α emitters at <i>z</i> ≳ 3 to Lyman continuum escape. Monthly Notices of the Royal Astronomical Society. 527(4), 9853–9871.","ama":"Kramarenko I, Kerutt J, Verhamme A, et al. Linking UV spectral properties of MUSE Ly α emitters at <i>z</i> ≳ 3 to Lyman continuum escape. <i>Monthly Notices of the Royal Astronomical Society</i>. 2024;527(4):9853-9871. doi:<a href=\"https://doi.org/10.1093/mnras/stad3853\">10.1093/mnras/stad3853</a>"},"arxiv":1,"title":"Linking UV spectral properties of MUSE Ly α emitters at <i>z</i> ≳ 3 to Lyman continuum escape","file":[{"relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"dernst","date_updated":"2024-01-23T12:30:45Z","success":1,"checksum":"9d02df4035c4951cf63dee0db1e462e9","file_id":"14879","date_created":"2024-01-23T12:30:45Z","file_size":4521738,"file_name":"2024_MNAstronomSoc_Kramarenko.pdf"}],"external_id":{"arxiv":["2305.07044"]},"publication":"Monthly Notices of the Royal Astronomical Society"},{"volume":18,"article_type":"original","month":"01","quality_controlled":"1","publication_identifier":{"issn":["1875-0281"]},"article_processing_charge":"Yes","ddc":["550"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2024-02-05T10:06:35Z","keyword":["Sociology and Political Science"],"intvolume":"        18","date_created":"2024-01-30T11:58:02Z","acknowledgement":"The authors would like to thank the special issue co-editors, Marco Janssen and Xiao-Shan Yap, and the anonymous reviewers for their comments that helped improve the manuscript. The paper also benefited from suggestions by other author participants in this special issue. We would also like to thank the 2022 Santa Fe Institute Complex Systems Summer School for providing space to initiate this study.","department":[{"_id":"GradSch"},{"_id":"GaTk"}],"date_published":"2024-01-11T00:00:00Z","author":[{"last_name":"Nomura","first_name":"Keiko","full_name":"Nomura, Keiko"},{"last_name":"Rella","id":"B4765ACA-AA38-11E9-AC9A-0930E6697425","full_name":"Rella, Simon","first_name":"Simon"},{"first_name":"Haily","full_name":"Merritt, Haily","last_name":"Merritt"},{"full_name":"Baltussen, Mathieu","first_name":"Mathieu","last_name":"Baltussen"},{"full_name":"Bird, Darcy","first_name":"Darcy","last_name":"Bird"},{"full_name":"Tjuka, Annika","first_name":"Annika","last_name":"Tjuka"},{"last_name":"Falk","first_name":"Dan","full_name":"Falk, Dan"}],"oa":1,"_id":"14901","type":"journal_article","language":[{"iso":"eng"}],"doi":"10.5334/ijc.1275","publisher":"Ubiquity Press","year":"2024","publication":"International Journal of the Commons","title":"Tipping points of space debris in low earth orbit","file":[{"access_level":"open_access","content_type":"application/pdf","relation":"main_file","creator":"dernst","file_id":"14939","checksum":"b80ebc889033c365d8f8c05a0c655382","date_created":"2024-02-05T10:06:35Z","success":1,"date_updated":"2024-02-05T10:06:35Z","file_name":"2023_IntJourCommons_Nomura.pdf","file_size":1305786}],"issue":"1","scopus_import":"1","has_accepted_license":"1","citation":{"ieee":"K. Nomura <i>et al.</i>, “Tipping points of space debris in low earth orbit,” <i>International Journal of the Commons</i>, vol. 18, no. 1. Ubiquity Press, 2024.","chicago":"Nomura, Keiko, Simon Rella, Haily Merritt, Mathieu Baltussen, Darcy Bird, Annika Tjuka, and Dan Falk. “Tipping Points of Space Debris in Low Earth Orbit.” <i>International Journal of the Commons</i>. Ubiquity Press, 2024. <a href=\"https://doi.org/10.5334/ijc.1275\">https://doi.org/10.5334/ijc.1275</a>.","ama":"Nomura K, Rella S, Merritt H, et al. Tipping points of space debris in low earth orbit. <i>International Journal of the Commons</i>. 2024;18(1). doi:<a href=\"https://doi.org/10.5334/ijc.1275\">10.5334/ijc.1275</a>","short":"K. Nomura, S. Rella, H. Merritt, M. Baltussen, D. Bird, A. Tjuka, D. Falk, International Journal of the Commons 18 (2024).","apa":"Nomura, K., Rella, S., Merritt, H., Baltussen, M., Bird, D., Tjuka, A., &#38; Falk, D. (2024). Tipping points of space debris in low earth orbit. <i>International Journal of the Commons</i>. Ubiquity Press. <a href=\"https://doi.org/10.5334/ijc.1275\">https://doi.org/10.5334/ijc.1275</a>","ista":"Nomura K, Rella S, Merritt H, Baltussen M, Bird D, Tjuka A, Falk D. 2024. Tipping points of space debris in low earth orbit. International Journal of the Commons. 18(1).","mla":"Nomura, Keiko, et al. “Tipping Points of Space Debris in Low Earth Orbit.” <i>International Journal of the Commons</i>, vol. 18, no. 1, Ubiquity Press, 2024, doi:<a href=\"https://doi.org/10.5334/ijc.1275\">10.5334/ijc.1275</a>."},"oa_version":"Published Version","publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"day":"11","abstract":[{"text":"Global services like navigation, communication, and Earth observation have increased dramatically in the 21st century due to advances in outer space industries. But as orbits become increasingly crowded with both satellites and inevitable space debris pollution, continued operations become endangered by the heightened risks of debris collisions in orbit. Kessler Syndrome is the term for when a critical threshold of orbiting debris triggers a runaway positive feedback loop of debris collisions, creating debris congestion that can render orbits unusable. As this potential tipping point becomes more widely recognized, there have been renewed calls for debris mitigation and removal. Here, we combine complex systems and social-ecological systems approaches to study how these efforts may affect space debris accumulation and the likelihood of reaching Kessler Syndrome. Specifically, we model how debris levels are affected by future launch rates, cleanup activities, and collisions between extant debris. We contextualize and interpret our dynamic model within a discussion of existing space debris governance and other social, economic, and geopolitical factors that may influence effective collective management of the orbital commons. In line with previous studies, our model finds that debris congestion may be reached in less than 200 years, though a holistic management strategy combining removal and mitigation actions can avoid such outcomes while continuing space activities. Moreover, although active debris removal may be particularly effective, the current lack of market and governance support may impede its implementation. Research into these critical dynamics and the multi-faceted variables that influence debris outcomes can support policymakers in curating impactful governance strategies and realistic transition pathways to sustaining debris-free orbits. Overall, our study is useful for communicating about space debris sustainability in policy and education settings by providing an exploration of policy portfolio options supported by a simple and clear social-ecological modeling approach.","lang":"eng"}],"status":"public","date_updated":"2024-02-05T10:10:27Z"},{"date_created":"2024-02-23T14:02:04Z","department":[{"_id":"GradSch"},{"_id":"NiBa"},{"_id":"GaTk"}],"ddc":["576","519"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","file_date_updated":"2024-02-23T14:20:16Z","keyword":["Theoretical biology","Optimality","Evolution","Information"],"month":"02","publication_identifier":{"issn":["2663 - 337X"]},"supervisor":[{"first_name":"Nicholas H","full_name":"Barton, Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240"},{"first_name":"Gašper","full_name":"Tkačik, Gašper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","last_name":"Tkačik"}],"language":[{"iso":"eng"}],"doi":"10.15479/at:ista:15020","publisher":"Institute of Science and Technology Austria","year":"2024","type":"dissertation","author":[{"first_name":"Michal","full_name":"Hledik, Michal","last_name":"Hledik","id":"4171253A-F248-11E8-B48F-1D18A9856A87"}],"oa":1,"_id":"15020","date_published":"2024-02-23T00:00:00Z","project":[{"name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","call_identifier":"H2020"},{"name":"Can evolution minimize spurious signaling crosstalk to reach optimal performance?","_id":"2665AAFE-B435-11E9-9278-68D0E5697425","grant_number":"RGP0034/2018"},{"_id":"bd6958e0-d553-11ed-ba76-86eba6a76c00","name":"Understanding the evolution of continuous genomes","grant_number":"101055327"}],"citation":{"chicago":"Hledik, Michal. “Genetic Information and Biological Optimization.” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/at:ista:15020\">https://doi.org/10.15479/at:ista:15020</a>.","ieee":"M. Hledik, “Genetic information and biological optimization,” Institute of Science and Technology Austria, 2024.","ista":"Hledik M. 2024. Genetic information and biological optimization. Institute of Science and Technology Austria.","apa":"Hledik, M. (2024). <i>Genetic information and biological optimization</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:15020\">https://doi.org/10.15479/at:ista:15020</a>","short":"M. Hledik, Genetic Information and Biological Optimization, Institute of Science and Technology Austria, 2024.","mla":"Hledik, Michal. <i>Genetic Information and Biological Optimization</i>. Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/at:ista:15020\">10.15479/at:ista:15020</a>.","ama":"Hledik M. Genetic information and biological optimization. 2024. doi:<a href=\"https://doi.org/10.15479/at:ista:15020\">10.15479/at:ista:15020</a>"},"alternative_title":["ISTA Thesis"],"has_accepted_license":"1","related_material":{"record":[{"status":"public","id":"7553","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"7606"},{"relation":"part_of_dissertation","status":"public","id":"12081"}]},"title":"Genetic information and biological optimization","file":[{"creator":"mhledik","access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_name":"hledik thesis pdfa 2b.pdf","file_size":7102089,"date_created":"2024-02-23T13:50:53Z","file_id":"15021","checksum":"b2d3da47c98d481577a4baf68944fe41","date_updated":"2024-02-23T13:50:53Z","success":1},{"file_name":"hledik thesis source.zip","file_size":14014790,"file_id":"15022","checksum":"eda9b9430da2610fee7ce1c1419a479a","date_created":"2024-02-23T13:50:54Z","date_updated":"2024-02-23T14:20:16Z","creator":"mhledik","access_level":"closed","relation":"source_file","content_type":"application/zip"}],"date_updated":"2025-06-30T13:21:09Z","acknowledged_ssus":[{"_id":"ScienComp"}],"status":"public","publication_status":"published","oa_version":"Published Version","page":"158","day":"23","ec_funded":1,"abstract":[{"lang":"eng","text":"This thesis consists of four distinct pieces of work within theoretical biology, with two themes in common: the concept of optimization in biological systems, and the use of information-theoretic tools to quantify biological stochasticity and statistical uncertainty.\r\nChapter 2 develops a statistical framework for studying biological systems which we believe to be optimized for a particular utility function, such as retinal neurons conveying information about visual stimuli. We formalize such beliefs as maximum-entropy Bayesian priors, constrained by the expected utility. We explore how such priors aid inference of system parameters with limited data and enable optimality hypothesis testing: is the utility higher than by chance?\r\nChapter 3 examines the ultimate biological optimization process: evolution by natural selection. As some individuals survive and reproduce more successfully than others, populations evolve towards fitter genotypes and phenotypes. We formalize this as accumulation of genetic information, and use population genetics theory to study how much such information can be accumulated per generation and maintained in the face of random mutation and genetic drift. We identify the population size and fitness variance as the key quantities that control information accumulation and maintenance.\r\nChapter 4 reuses the concept of genetic information from Chapter 3, but from a different perspective: we ask how much genetic information organisms actually need, in particular in the context of gene regulation. For example, how much information is needed to bind transcription factors at correct locations within the genome? Population genetics provides us with a refined answer: with an increasing population size, populations achieve higher fitness by maintaining more genetic information. Moreover, regulatory parameters experience selection pressure to optimize the fitness-information trade-off, i.e. minimize the information needed for a given fitness. This provides an evolutionary derivation of the optimization priors introduced in Chapter 2.\r\nChapter 5 proves an upper bound on mutual information between a signal and a communication channel output (such as neural activity). Mutual information is an important utility measure for biological systems, but its practical use can be difficult due to the large dimensionality of many biological channels. Sometimes, a lower bound on mutual information is computed by replacing the high-dimensional channel outputs with decodes (signal estimates). Our result provides a corresponding upper bound, provided that the decodes are the maximum posterior estimates of the signal."}]},{"_id":"14323","author":[{"full_name":"Kuzmicz-Kowalska, Katarzyna","first_name":"Katarzyna","last_name":"Kuzmicz-Kowalska","id":"4CED352A-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2023-09-13T00:00:00Z","year":"2023","publisher":"Institute of Science and Technology Austria","doi":"10.15479/at:ista:14323","language":[{"iso":"eng"}],"type":"dissertation","publication_identifier":{"issn":["2663 - 337X"]},"month":"09","supervisor":[{"first_name":"Anna","full_name":"Kicheva, Anna","orcid":"0000-0003-4509-4998","last_name":"Kicheva","id":"3959A2A0-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"GradSch"},{"_id":"AnKi"}],"date_created":"2023-09-13T10:07:18Z","file_date_updated":"2023-09-13T10:08:25Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","article_processing_charge":"No","ddc":["570"],"degree_awarded":"PhD","abstract":[{"lang":"eng","text":"Morphogens are signaling molecules that are known for their prominent role in pattern formation within developing tissues. In addition to patterning, morphogens also control tissue growth. However, the underlying mechanisms are poorly understood. We studied the role of morphogens in regulating tissue growth in the developing vertebrate neural tube. In this system, opposing morphogen gradients of Shh and BMP establish the dorsoventral pattern of neural progenitor domains. Perturbations in these morphogen pathways result in alterations in tissue growth and cell cycle progression, however, it has been unclear what cellular process is affected. To address this, we analysed the rates of cell proliferation and cell death in mouse mutants in which signaling is perturbed, as well as in chick neural plate explants exposed to defined concentrations of signaling activators or inhibitors. Our results indicated that the rate of cell proliferation was not altered in these assays. By contrast, both the Shh and BMP signaling pathways had profound effects on neural progenitor survival. Our results indicate that these pathways synergise to promote cell survival within neural progenitors. Consistent with this, we found that progenitors within the intermediate region of the neural tube, where the combined levels of Shh and BMP are the lowest, are most prone to cell death when signaling activity is inhibited. In addition, we found that downregulation of Shh results in increased apoptosis within the roof plate, which is the dorsal source of BMP ligand production. This revealed a cross-interaction between the Shh and BMP morphogen signaling pathways that may be relevant for understanding how gradients scale in neural tubes with different overall sizes. We further studied the mechanism acting downstream of Shh in cell survival regulation using genetic and genomic approaches. We propose that Shh transcriptionally regulates a non-canonical apoptotic pathway. Altogether, our study points to a novel role of opposing morphogen gradients in tissue size regulation and provides new insights into complex interactions between Shh and BMP signaling gradients in the neural tube."}],"tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"day":"13","publication_status":"published","oa_version":"Published Version","page":"151","date_updated":"2024-03-07T15:02:59Z","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","status":"public","acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"file":[{"file_name":"PhDThesis_KK_final_pdfA.pdf","file_size":10147911,"checksum":"bd83596869c814b24aeff7077d031c0e","file_id":"14324","date_created":"2023-09-13T09:52:52Z","embargo_to":"open_access","date_updated":"2023-09-13T10:08:25Z","creator":"kkuzmicz","embargo":"2025-03-13","access_level":"closed","content_type":"application/pdf","relation":"main_file"},{"date_updated":"2023-09-13T09:53:29Z","file_id":"14325","checksum":"aa2757ae4c3478041fd7e62c587d3e4d","date_created":"2023-09-13T09:53:29Z","file_size":103980668,"file_name":"thesis_KK_final_corrections_092023.docx","relation":"source_file","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","access_level":"closed","creator":"kkuzmicz"}],"title":"Regulation of neural progenitor survival by Shh and BMP in the developing spinal cord","related_material":{"record":[{"status":"public","id":"7883","relation":"part_of_dissertation"}]},"citation":{"chicago":"Kuzmicz-Kowalska, Katarzyna. “Regulation of Neural Progenitor Survival by Shh and BMP in the Developing Spinal Cord.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:14323\">https://doi.org/10.15479/at:ista:14323</a>.","ieee":"K. Kuzmicz-Kowalska, “Regulation of neural progenitor survival by Shh and BMP in the developing spinal cord,” Institute of Science and Technology Austria, 2023.","apa":"Kuzmicz-Kowalska, K. (2023). <i>Regulation of neural progenitor survival by Shh and BMP in the developing spinal cord</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14323\">https://doi.org/10.15479/at:ista:14323</a>","mla":"Kuzmicz-Kowalska, Katarzyna. <i>Regulation of Neural Progenitor Survival by Shh and BMP in the Developing Spinal Cord</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:14323\">10.15479/at:ista:14323</a>.","ista":"Kuzmicz-Kowalska K. 2023. Regulation of neural progenitor survival by Shh and BMP in the developing spinal cord. Institute of Science and Technology Austria.","short":"K. Kuzmicz-Kowalska, Regulation of Neural Progenitor Survival by Shh and BMP in the Developing Spinal Cord, Institute of Science and Technology Austria, 2023.","ama":"Kuzmicz-Kowalska K. Regulation of neural progenitor survival by Shh and BMP in the developing spinal cord. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:14323\">10.15479/at:ista:14323</a>"},"project":[{"_id":"267AF0E4-B435-11E9-9278-68D0E5697425","name":"The role of morphogens in the regulation of neural tube growth"}],"has_accepted_license":"1","alternative_title":["ISTA Thesis"]},{"status":"public","date_updated":"2023-12-13T12:24:23Z","abstract":[{"lang":"eng","text":"The total energy of an eigenstate in a composite quantum system tends to be distributed equally among its constituents. We identify the quantum fluctuation around this equipartition principle in the simplest disordered quantum system consisting of linear combinations of Wigner matrices. As our main ingredient, we prove the Eigenstate Thermalisation Hypothesis and Gaussian fluctuation for general quadratic forms of the bulk eigenvectors of Wigner matrices with an arbitrary deformation."}],"ec_funded":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"day":"23","oa_version":"Published Version","publication_status":"published","has_accepted_license":"1","scopus_import":"1","arxiv":1,"citation":{"chicago":"Cipolloni, Giorgio, László Erdös, Sven Joscha Henheik, and Oleksii Kolupaiev. “Gaussian Fluctuations in the Equipartition Principle for Wigner Matrices.” <i>Forum of Mathematics, Sigma</i>. Cambridge University Press, 2023. <a href=\"https://doi.org/10.1017/fms.2023.70\">https://doi.org/10.1017/fms.2023.70</a>.","ieee":"G. Cipolloni, L. Erdös, S. J. Henheik, and O. Kolupaiev, “Gaussian fluctuations in the equipartition principle for Wigner matrices,” <i>Forum of Mathematics, Sigma</i>, vol. 11. Cambridge University Press, 2023.","short":"G. Cipolloni, L. Erdös, S.J. Henheik, O. Kolupaiev, Forum of Mathematics, Sigma 11 (2023).","mla":"Cipolloni, Giorgio, et al. “Gaussian Fluctuations in the Equipartition Principle for Wigner Matrices.” <i>Forum of Mathematics, Sigma</i>, vol. 11, e74, Cambridge University Press, 2023, doi:<a href=\"https://doi.org/10.1017/fms.2023.70\">10.1017/fms.2023.70</a>.","ista":"Cipolloni G, Erdös L, Henheik SJ, Kolupaiev O. 2023. Gaussian fluctuations in the equipartition principle for Wigner matrices. Forum of Mathematics, Sigma. 11, e74.","apa":"Cipolloni, G., Erdös, L., Henheik, S. J., &#38; Kolupaiev, O. (2023). Gaussian fluctuations in the equipartition principle for Wigner matrices. <i>Forum of Mathematics, Sigma</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/fms.2023.70\">https://doi.org/10.1017/fms.2023.70</a>","ama":"Cipolloni G, Erdös L, Henheik SJ, Kolupaiev O. Gaussian fluctuations in the equipartition principle for Wigner matrices. <i>Forum of Mathematics, Sigma</i>. 2023;11. doi:<a href=\"https://doi.org/10.1017/fms.2023.70\">10.1017/fms.2023.70</a>"},"project":[{"name":"Random matrices beyond Wigner-Dyson-Mehta","_id":"62796744-2b32-11ec-9570-940b20777f1d","call_identifier":"H2020","grant_number":"101020331"}],"file":[{"creator":"dernst","access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_name":"2023_ForumMathematics_Cipolloni.pdf","file_size":852652,"file_id":"14352","checksum":"eb747420e6a88a7796fa934151957676","date_created":"2023-09-20T11:09:35Z","success":1,"date_updated":"2023-09-20T11:09:35Z"}],"title":"Gaussian fluctuations in the equipartition principle for Wigner matrices","external_id":{"arxiv":["2301.05181"],"isi":["001051980200001"]},"publication":"Forum of Mathematics, Sigma","type":"journal_article","year":"2023","publisher":"Cambridge University Press","doi":"10.1017/fms.2023.70","language":[{"iso":"eng"}],"date_published":"2023-08-23T00:00:00Z","_id":"14343","oa":1,"author":[{"orcid":"0000-0002-4901-7992","last_name":"Cipolloni","id":"42198EFA-F248-11E8-B48F-1D18A9856A87","first_name":"Giorgio","full_name":"Cipolloni, Giorgio"},{"full_name":"Erdös, László","first_name":"László","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5366-9603"},{"full_name":"Henheik, Sven Joscha","first_name":"Sven Joscha","last_name":"Henheik","id":"31d731d7-d235-11ea-ad11-b50331c8d7fb","orcid":"0000-0003-1106-327X"},{"id":"149b70d4-896a-11ed-bdf8-8c63fd44ca61","last_name":"Kolupaiev","first_name":"Oleksii","full_name":"Kolupaiev, Oleksii"}],"intvolume":"        11","file_date_updated":"2023-09-20T11:09:35Z","ddc":["510"],"article_processing_charge":"Yes","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"G.C. and L.E. gratefully acknowledge many discussions with Dominik Schröder at the preliminary stage of this project, especially his essential contribution to identify the correct generalisation of traceless observables to the deformed Wigner ensembles.\r\nL.E. and J.H. acknowledges support by ERC Advanced Grant ‘RMTBeyond’ No. 101020331.","department":[{"_id":"LaEr"},{"_id":"GradSch"}],"article_number":"e74","date_created":"2023-09-17T22:01:09Z","article_type":"original","volume":11,"isi":1,"publication_identifier":{"eissn":["2050-5094"]},"quality_controlled":"1","month":"08"},{"article_processing_charge":"No","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","ddc":["515","539"],"file_date_updated":"2023-10-06T11:38:01Z","date_created":"2023-09-28T14:23:04Z","department":[{"_id":"GradSch"},{"_id":"RoSe"}],"supervisor":[{"full_name":"Seiringer, Robert","first_name":"Robert","orcid":"0000-0002-6781-0521","last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"}],"month":"09","publication_identifier":{"issn":["2663 - 337X"]},"type":"dissertation","language":[{"iso":"eng"}],"doi":"10.15479/at:ista:14374","publisher":"Institute of Science and Technology Austria","year":"2023","date_published":"2023-09-30T00:00:00Z","author":[{"orcid":"0000-0002-9071-5880","last_name":"Roos","id":"5DA90512-D80F-11E9-8994-2E2EE6697425","first_name":"Barbara","full_name":"Roos, Barbara"}],"oa":1,"_id":"14374","alternative_title":["ISTA Thesis"],"has_accepted_license":"1","project":[{"_id":"25C6DC12-B435-11E9-9278-68D0E5697425","name":"Analysis of quantum many-body systems","grant_number":"694227","call_identifier":"H2020"},{"_id":"bda63fe5-d553-11ed-ba76-a16e3d2f256b","name":"Mathematical Challenges in BCS Theory of Superconductivity","grant_number":"I06427"}],"citation":{"ieee":"B. Roos, “Boundary superconductivity in BCS theory,” Institute of Science and Technology Austria, 2023.","chicago":"Roos, Barbara. “Boundary Superconductivity in BCS Theory.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:14374\">https://doi.org/10.15479/at:ista:14374</a>.","ama":"Roos B. Boundary superconductivity in BCS theory. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:14374\">10.15479/at:ista:14374</a>","ista":"Roos B. 2023. Boundary superconductivity in BCS theory. Institute of Science and Technology Austria.","mla":"Roos, Barbara. <i>Boundary Superconductivity in BCS Theory</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:14374\">10.15479/at:ista:14374</a>.","apa":"Roos, B. (2023). <i>Boundary superconductivity in BCS theory</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14374\">https://doi.org/10.15479/at:ista:14374</a>","short":"B. Roos, Boundary Superconductivity in BCS Theory, Institute of Science and Technology Austria, 2023."},"related_material":{"record":[{"status":"public","id":"13207","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"10850"}]},"title":"Boundary superconductivity in BCS theory","file":[{"relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"broos","date_updated":"2023-10-06T11:35:56Z","date_created":"2023-10-06T11:35:56Z","checksum":"ef039ffc3de2cb8dee5b14110938e9b6","file_id":"14398","file_size":2365702,"file_name":"phd-thesis-draft_pdfa_acrobat.pdf"},{"creator":"broos","content_type":"application/x-zip-compressed","relation":"source_file","access_level":"closed","file_size":4691734,"file_name":"Version5.zip","date_updated":"2023-10-06T11:38:01Z","date_created":"2023-10-06T11:38:01Z","checksum":"81dcac33daeefaf0111db52f41bb1fd0","file_id":"14399"}],"status":"public","date_updated":"2023-10-27T10:37:30Z","oa_version":"Published Version","publication_status":"published","page":"206","day":"30","tmp":{"image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","short":"CC BY-NC-SA (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"ec_funded":1,"abstract":[{"lang":"eng","text":"Superconductivity has many important applications ranging from levitating trains over qubits to MRI scanners. The phenomenon is successfully modeled by Bardeen-Cooper-Schrieffer (BCS) theory. From a mathematical perspective, BCS theory has been studied extensively for systems without boundary. However, little is known in the presence of boundaries. With the help of numerical methods physicists observed that the critical temperature may increase in the presence of a boundary. The goal of this thesis is to understand the influence of boundaries on the critical temperature in BCS theory and to give a first rigorous justification of these observations. On the way, we also study two-body Schrödinger operators on domains with boundaries and prove additional results for superconductors without boundary.\r\n\r\nBCS theory is based on a non-linear functional, where the minimizer indicates whether the system is superconducting or in the normal, non-superconducting state. By considering the Hessian of the BCS functional at the normal state, one can analyze whether the normal state is possibly a minimum of the BCS functional and estimate the critical temperature. The Hessian turns out to be a linear operator resembling a Schrödinger operator for two interacting particles, but with more complicated kinetic energy. As a first step, we study the two-body Schrödinger operator in the presence of boundaries.\r\nFor Neumann boundary conditions, we prove that the addition of a boundary can create new eigenvalues, which correspond to the two particles forming a bound state close to the boundary.\r\n\r\nSecond, we need to understand superconductivity in the translation invariant setting. While in three dimensions this has been extensively studied, there is no mathematical literature for the one and two dimensional cases. In dimensions one and two, we compute the weak coupling asymptotics of the critical temperature and the energy gap  in the translation invariant setting. We also prove that their ratio is independent of the microscopic details of the model in the weak coupling limit; this property is referred to as universality.\r\n\r\nIn the third part, we study the critical temperature of superconductors in the presence of boundaries. We start by considering the one-dimensional case of a half-line with contact interaction. Then, we generalize the results to generic interactions and half-spaces in one, two and three dimensions. Finally, we compare the critical temperature of a quarter space in two dimensions to the critical temperatures of a half-space and of the full space."}],"degree_awarded":"PhD"},{"day":"11","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"publication_status":"published","oa_version":"Published Version","abstract":[{"lang":"eng","text":"Only recently has it been possible to construct a self-adjoint Hamiltonian that involves the creation of Dirac particles at a point source in 3d space. Its definition makes use of an interior-boundary condition. Here, we develop for this Hamiltonian a corresponding theory of the Bohmian configuration. That is, we (non-rigorously) construct a Markov jump process $(Q_t)_{t\\in\\mathbb{R}}$ in the configuration space of a variable number of particles that is $|\\psi_t|^2$-distributed at every time t and follows Bohmian trajectories between the jumps. The jumps correspond to particle creation or annihilation events and occur either to or from a configuration with a particle located at the source. The process is the natural analog of Bell's jump process, and a central piece in its construction is the determination of the rate of particle creation. The construction requires an analysis of the asymptotic behavior of the Bohmian trajectories near the source. We find that the particle reaches the source with radial speed 0, but orbits around the source infinitely many times in finite time before absorption (or after emission)."}],"ec_funded":1,"date_updated":"2023-12-13T13:01:25Z","status":"public","publication":"Journal of Physics A: Mathematical and Theoretical","file":[{"relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"dernst","date_updated":"2023-10-16T07:07:24Z","success":1,"file_id":"14429","checksum":"5b68de147dd4c608b71a6e0e844d2ce9","date_created":"2023-10-16T07:07:24Z","file_size":721399,"file_name":"2023_JourPhysics_Henheik.pdf"}],"title":"Creation rate of Dirac particles at a point source","external_id":{"arxiv":["2211.16606"],"isi":["001080908000001"]},"citation":{"short":"S.J. Henheik, R. Tumulka, Journal of Physics A: Mathematical and Theoretical 56 (2023).","apa":"Henheik, S. J., &#38; Tumulka, R. (2023). Creation rate of Dirac particles at a point source. <i>Journal of Physics A: Mathematical and Theoretical</i>. IOP Publishing. <a href=\"https://doi.org/10.1088/1751-8121/acfe62\">https://doi.org/10.1088/1751-8121/acfe62</a>","mla":"Henheik, Sven Joscha, and Roderich Tumulka. “Creation Rate of Dirac Particles at a Point Source.” <i>Journal of Physics A: Mathematical and Theoretical</i>, vol. 56, no. 44, 445201, IOP Publishing, 2023, doi:<a href=\"https://doi.org/10.1088/1751-8121/acfe62\">10.1088/1751-8121/acfe62</a>.","ista":"Henheik SJ, Tumulka R. 2023. Creation rate of Dirac particles at a point source. Journal of Physics A: Mathematical and Theoretical. 56(44), 445201.","ama":"Henheik SJ, Tumulka R. Creation rate of Dirac particles at a point source. <i>Journal of Physics A: Mathematical and Theoretical</i>. 2023;56(44). doi:<a href=\"https://doi.org/10.1088/1751-8121/acfe62\">10.1088/1751-8121/acfe62</a>","chicago":"Henheik, Sven Joscha, and Roderich Tumulka. “Creation Rate of Dirac Particles at a Point Source.” <i>Journal of Physics A: Mathematical and Theoretical</i>. IOP Publishing, 2023. <a href=\"https://doi.org/10.1088/1751-8121/acfe62\">https://doi.org/10.1088/1751-8121/acfe62</a>.","ieee":"S. J. Henheik and R. Tumulka, “Creation rate of Dirac particles at a point source,” <i>Journal of Physics A: Mathematical and Theoretical</i>, vol. 56, no. 44. IOP Publishing, 2023."},"arxiv":1,"project":[{"_id":"62796744-2b32-11ec-9570-940b20777f1d","name":"Random matrices beyond Wigner-Dyson-Mehta","call_identifier":"H2020","grant_number":"101020331"}],"scopus_import":"1","issue":"44","has_accepted_license":"1","author":[{"first_name":"Sven Joscha","full_name":"Henheik, Sven Joscha","id":"31d731d7-d235-11ea-ad11-b50331c8d7fb","last_name":"Henheik","orcid":"0000-0003-1106-327X"},{"full_name":"Tumulka, Roderich","first_name":"Roderich","last_name":"Tumulka"}],"_id":"14421","oa":1,"date_published":"2023-10-11T00:00:00Z","doi":"10.1088/1751-8121/acfe62","language":[{"iso":"eng"}],"year":"2023","publisher":"IOP Publishing","type":"journal_article","month":"10","publication_identifier":{"eissn":["1751-8121"],"issn":["1751-8113"]},"quality_controlled":"1","isi":1,"article_type":"original","volume":56,"date_created":"2023-10-12T12:42:53Z","article_number":"445201","acknowledgement":"J H gratefully acknowledges partial financial support by the ERC Advanced Grant 'RMTBeyond' No. 101020331.","department":[{"_id":"GradSch"},{"_id":"LaEr"}],"file_date_updated":"2023-10-16T07:07:24Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["510"],"article_processing_charge":"Yes (via OA deal)","intvolume":"        56"},{"_id":"14422","author":[{"full_name":"Confavreux, Basile J","first_name":"Basile J","last_name":"Confavreux","id":"C7610134-B532-11EA-BD9F-F5753DDC885E"}],"date_published":"2023-10-12T00:00:00Z","publisher":"Institute of Science and Technology Austria","year":"2023","language":[{"iso":"eng"}],"doi":"10.15479/at:ista:14422","type":"dissertation","publication_identifier":{"issn":["2663 - 337X"]},"month":"10","supervisor":[{"first_name":"Tim P","full_name":"Vogels, Tim P","orcid":"0000-0003-3295-6181","last_name":"Vogels","id":"CB6FF8D2-008F-11EA-8E08-2637E6697425"}],"department":[{"_id":"GradSch"},{"_id":"TiVo"}],"date_created":"2023-10-12T14:13:25Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","article_processing_charge":"No","ddc":["610"],"file_date_updated":"2023-10-18T07:56:08Z","degree_awarded":"PhD","ec_funded":1,"abstract":[{"lang":"eng","text":"Animals exhibit a remarkable ability to learn and remember new behaviors, skills, and associations throughout their lifetime. These capabilities are made possible thanks to a variety of\r\nchanges in the brain throughout adulthood, regrouped under the term \"plasticity\". Some cells\r\nin the brain —neurons— and specifically changes in the connections between neurons, the\r\nsynapses, were shown to be crucial for the formation, selection, and consolidation of memories\r\nfrom past experiences. These ongoing changes of synapses across time are called synaptic\r\nplasticity. Understanding how a myriad of biochemical processes operating at individual\r\nsynapses can somehow work in concert to give rise to meaningful changes in behavior is a\r\nfascinating problem and an active area of research.\r\nHowever, the experimental search for the precise plasticity mechanisms at play in the brain\r\nis daunting, as it is difficult to control and observe synapses during learning. Theoretical\r\napproaches have thus been the default method to probe the plasticity-behavior connection. Such\r\nstudies attempt to extract unifying principles across synapses and model all observed synaptic\r\nchanges using plasticity rules: equations that govern the evolution of synaptic strengths across\r\ntime in neuronal network models. These rules can use many relevant quantities to determine\r\nthe magnitude of synaptic changes, such as the precise timings of pre- and postsynaptic\r\naction potentials, the recent neuronal activity levels, the state of neighboring synapses, etc.\r\nHowever, analytical studies rely heavily on human intuition and are forced to make simplifying\r\nassumptions about plasticity rules.\r\nIn this thesis, we aim to assist and augment human intuition in this search for plasticity rules.\r\nWe explore whether a numerical approach could automatically discover the plasticity rules\r\nthat elicit desired behaviors in large networks of interconnected neurons. This approach is\r\ndubbed meta-learning synaptic plasticity: learning plasticity rules which themselves will make\r\nneuronal networks learn how to solve a desired task. We first write all the potential plasticity\r\nmechanisms to consider using a single expression with adjustable parameters. We then optimize\r\nthese plasticity parameters using evolutionary strategies or Bayesian inference on tasks known\r\nto involve synaptic plasticity, such as familiarity detection and network stabilization.\r\nWe show that these automated approaches are powerful tools, able to complement established\r\nanalytical methods. By comprehensively screening plasticity rules at all synapse types in\r\nrealistic, spiking neuronal network models, we discover entire sets of degenerate plausible\r\nplasticity rules that reliably elicit memory-related behaviors. Our approaches allow for more\r\nrobust experimental predictions, by abstracting out the idiosyncrasies of individual plasticity\r\nrules, and provide fresh insights on synaptic plasticity in spiking network models.\r\n"}],"publication_status":"published","oa_version":"Published Version","page":"148","tmp":{"image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","short":"CC BY-NC-SA (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"day":"12","date_updated":"2023-10-18T09:20:56Z","status":"public","related_material":{"record":[{"relation":"part_of_dissertation","id":"9633","status":"public"}]},"title":"Synapseek: Meta-learning synaptic plasticity rules","file":[{"file_name":"Confavreux_Thesis_2A.pdf","file_size":30599717,"file_id":"14424","checksum":"7f636555eae7803323df287672fd13ed","date_created":"2023-10-12T14:53:50Z","date_updated":"2023-10-12T14:54:52Z","embargo_to":"open_access","creator":"cchlebak","embargo":"2024-10-12","access_level":"closed","content_type":"application/pdf","relation":"main_file"},{"date_updated":"2023-10-18T07:56:08Z","file_id":"14440","date_created":"2023-10-18T07:38:34Z","checksum":"725e85946db92290a4583a0de9779e1b","file_size":68406739,"file_name":"Confavreux Thesis.zip","relation":"source_file","content_type":"application/x-zip-compressed","access_level":"closed","creator":"cchlebak"}],"project":[{"grant_number":"819603","call_identifier":"H2020","name":"Learning the shape of synaptic plasticity rules for neuronal architectures and function through machine learning.","_id":"0aacfa84-070f-11eb-9043-d7eb2c709234"}],"citation":{"chicago":"Confavreux, Basile J. “Synapseek: Meta-Learning Synaptic Plasticity Rules.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:14422\">https://doi.org/10.15479/at:ista:14422</a>.","ieee":"B. J. Confavreux, “Synapseek: Meta-learning synaptic plasticity rules,” Institute of Science and Technology Austria, 2023.","mla":"Confavreux, Basile J. <i>Synapseek: Meta-Learning Synaptic Plasticity Rules</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:14422\">10.15479/at:ista:14422</a>.","apa":"Confavreux, B. J. (2023). <i>Synapseek: Meta-learning synaptic plasticity rules</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14422\">https://doi.org/10.15479/at:ista:14422</a>","short":"B.J. Confavreux, Synapseek: Meta-Learning Synaptic Plasticity Rules, Institute of Science and Technology Austria, 2023.","ista":"Confavreux BJ. 2023. Synapseek: Meta-learning synaptic plasticity rules. Institute of Science and Technology Austria.","ama":"Confavreux BJ. Synapseek: Meta-learning synaptic plasticity rules. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:14422\">10.15479/at:ista:14422</a>"},"alternative_title":["ISTA Thesis"],"has_accepted_license":"1"},{"type":"journal_article","doi":"10.1038/s41467-023-41865-8","language":[{"iso":"eng"}],"year":"2023","publisher":"Springer Nature","date_published":"2023-10-02T00:00:00Z","author":[{"full_name":"Zeng, Zezhu","first_name":"Zezhu","last_name":"Zeng","id":"54a2c730-803f-11ed-ab7e-95b29d2680e7"},{"orcid":"0009-0000-1457-795X","id":"8b4b6a9f-32b0-11ee-9fa8-bbe85e26258e","last_name":"Wodaczek","full_name":"Wodaczek, Felix","first_name":"Felix"},{"full_name":"Liu, Keyang","first_name":"Keyang","last_name":"Liu"},{"first_name":"Frederick","full_name":"Stein, Frederick","last_name":"Stein"},{"full_name":"Hutter, Jürg","first_name":"Jürg","last_name":"Hutter"},{"last_name":"Chen","full_name":"Chen, Ji","first_name":"Ji"},{"orcid":"0000-0002-3584-9632","last_name":"Cheng","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","full_name":"Cheng, Bingqing","first_name":"Bingqing"}],"_id":"14425","oa":1,"file_date_updated":"2023-10-16T07:34:49Z","ddc":["540","000"],"article_processing_charge":"Yes","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"        14","article_number":"6131","date_created":"2023-10-15T22:01:10Z","acknowledgement":"F.S., J.H., and B.C. thank the Swiss National Supercomputing Centre (CSCS) for the generous allocation of CPU hours via production project s1108 at the Piz Daint supercomputer. B.C. acknowledges resources provided by the Cambridge Tier-2 system operated by the University of Cambridge Research Computing Service funded by EPSRC Tier-2 capital grant EP/P020259/1. J.C. acknowledges the Beijing Natural Science Foundation for support under grant No. JQ22001. F.S., and J.H. thank the Swiss Platform for Advanced Scientific Computing (PASC) via the 2021-2024 “Ab Initio Molecular Dynamics at the Exa-Scale” project. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 101034413.","department":[{"_id":"BiCh"},{"_id":"GradSch"}],"pmid":1,"isi":1,"volume":14,"article_type":"original","month":"10","publication_identifier":{"eissn":["2041-1723"]},"quality_controlled":"1","status":"public","date_updated":"2023-12-13T13:02:07Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"day":"02","publication_status":"published","oa_version":"Published Version","abstract":[{"lang":"eng","text":"Water adsorption and dissociation processes on pristine low-index TiO2 interfaces are important but poorly understood outside the well-studied anatase (101) and rutile (110). To understand these, we construct three sets of machine learning potentials that are simultaneously applicable to various TiO2 surfaces, based on three density-functional-theory approximations. Here we show the water dissociation free energies on seven pristine TiO2 surfaces, and predict that anatase (100), anatase (110), rutile (001), and rutile (011) favor water dissociation, anatase (101) and rutile (100) have mostly molecular adsorption, while the simulations of rutile (110) sensitively depend on the slab thickness and molecular adsorption is preferred with thick slabs. Moreover, using an automated algorithm, we reveal that these surfaces follow different types of atomistic mechanisms for proton transfer and water dissociation: one-step, two-step, or both. These mechanisms can be rationalized based on the arrangements of water molecules on the different surfaces. Our finding thus demonstrates that the different pristine TiO2 surfaces react with water in distinct ways, and cannot be represented using just the low-energy anatase (101) and rutile (110) surfaces."}],"ec_funded":1,"scopus_import":"1","has_accepted_license":"1","arxiv":1,"citation":{"short":"Z. Zeng, F. Wodaczek, K. Liu, F. Stein, J. Hutter, J. Chen, B. Cheng, Nature Communications 14 (2023).","mla":"Zeng, Zezhu, et al. “Mechanistic Insight on Water Dissociation on Pristine Low-Index TiO2 Surfaces from Machine Learning Molecular Dynamics Simulations.” <i>Nature Communications</i>, vol. 14, 6131, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-41865-8\">10.1038/s41467-023-41865-8</a>.","ista":"Zeng Z, Wodaczek F, Liu K, Stein F, Hutter J, Chen J, Cheng B. 2023. Mechanistic insight on water dissociation on pristine low-index TiO2 surfaces from machine learning molecular dynamics simulations. Nature Communications. 14, 6131.","apa":"Zeng, Z., Wodaczek, F., Liu, K., Stein, F., Hutter, J., Chen, J., &#38; Cheng, B. (2023). Mechanistic insight on water dissociation on pristine low-index TiO2 surfaces from machine learning molecular dynamics simulations. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-41865-8\">https://doi.org/10.1038/s41467-023-41865-8</a>","ama":"Zeng Z, Wodaczek F, Liu K, et al. Mechanistic insight on water dissociation on pristine low-index TiO2 surfaces from machine learning molecular dynamics simulations. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-41865-8\">10.1038/s41467-023-41865-8</a>","chicago":"Zeng, Zezhu, Felix Wodaczek, Keyang Liu, Frederick Stein, Jürg Hutter, Ji Chen, and Bingqing Cheng. “Mechanistic Insight on Water Dissociation on Pristine Low-Index TiO2 Surfaces from Machine Learning Molecular Dynamics Simulations.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-41865-8\">https://doi.org/10.1038/s41467-023-41865-8</a>.","ieee":"Z. Zeng <i>et al.</i>, “Mechanistic insight on water dissociation on pristine low-index TiO2 surfaces from machine learning molecular dynamics simulations,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023."},"project":[{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","name":"IST-BRIDGE: International postdoctoral program","call_identifier":"H2020","grant_number":"101034413"}],"publication":"Nature Communications","title":"Mechanistic insight on water dissociation on pristine low-index TiO2 surfaces from machine learning molecular dynamics simulations","file":[{"checksum":"7d1dffd36b672ec679f08f70ce79da87","file_id":"14432","date_created":"2023-10-16T07:34:49Z","success":1,"date_updated":"2023-10-16T07:34:49Z","file_name":"2023_NatureComm_Zeng.pdf","file_size":3194116,"access_level":"open_access","content_type":"application/pdf","relation":"main_file","creator":"dernst"}],"related_material":{"link":[{"url":"https://github.com/BingqingCheng/TiO2-water","relation":"software"}]},"external_id":{"isi":["001084354900008"],"arxiv":["2303.07433"],"pmid":["37783698"]}},{"oa_version":"Published Version","publication_status":"published","day":"10","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"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"}],"date_updated":"2024-02-15T09:06:23Z","status":"public","publication":"Journal of Fluid Mechanics","external_id":{"arxiv":["2212.12406"],"isi":["001088363700001"]},"title":"Dynamics and proliferation of turbulent stripes in plane-Poiseuille and plane-Couette flows","file":[{"file_name":"2023_JourFluidMechanics_Marensi.pdf","file_size":2804641,"file_id":"14996","date_created":"2024-02-15T09:05:21Z","checksum":"17c64c1fb0d5f73252364bf98b0b9e1a","date_updated":"2024-02-15T09:05:21Z","success":1,"creator":"dernst","access_level":"open_access","relation":"main_file","content_type":"application/pdf"}],"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"}],"citation":{"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>.","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>","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>","short":"E. Marensi, G. Yalniz, B. Hof, Journal of Fluid Mechanics 974 (2023).","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.","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>."},"arxiv":1,"has_accepted_license":"1","author":[{"orcid":"0000-0001-7173-4923","id":"0BE7553A-1004-11EA-B805-18983DDC885E","last_name":"Marensi","full_name":"Marensi, Elena","first_name":"Elena"},{"id":"66E74FA2-D8BF-11E9-8249-8DE2E5697425","last_name":"Yalniz","orcid":"0000-0002-8490-9312","full_name":"Yalniz, Gökhan","first_name":"Gökhan"},{"orcid":"0000-0003-2057-2754","id":"3A374330-F248-11E8-B48F-1D18A9856A87","last_name":"Hof","first_name":"Björn","full_name":"Hof, Björn"}],"oa":1,"_id":"14466","date_published":"2023-11-10T00:00:00Z","language":[{"iso":"eng"}],"doi":"10.1017/jfm.2023.780","publisher":"Cambridge University Press","year":"2023","type":"journal_article","month":"11","quality_controlled":"1","publication_identifier":{"eissn":["1469-7645"],"issn":["0022-1120"]},"isi":1,"article_type":"original","volume":974,"article_number":"A21","date_created":"2023-10-30T09:32:28Z","acknowledgement":"E.M. acknowledges funding from the ISTplus fellowship programme. G.Y. and B.H. acknowledge a grant from the Simons Foundation (662960, BH).","department":[{"_id":"GradSch"},{"_id":"BjHo"}],"ddc":["530"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"Yes (via OA deal)","file_date_updated":"2024-02-15T09:05:21Z","keyword":["turbulence","transition to turbulence","patterns"],"intvolume":"       974"},{"type":"conference","language":[{"iso":"eng"}],"doi":"10.4230/LIPIcs.DISC.2023.35","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","year":"2023","date_published":"2023-10-01T00:00:00Z","author":[{"first_name":"Vitaly","full_name":"Aksenov, Vitaly","last_name":"Aksenov"},{"last_name":"Anoprenko","first_name":"Michael","full_name":"Anoprenko, Michael"},{"id":"2e711909-896a-11ed-bdf8-eb0f5a2984c6","last_name":"Fedorov","first_name":"Alexander","full_name":"Fedorov, Alexander"},{"last_name":"Spear","first_name":"Michael","full_name":"Spear, Michael"}],"oa":1,"_id":"14485","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["000"],"article_processing_charge":"Yes","conference":{"name":"DISC: Symposium on Distributed Computing","end_date":"2023-10-13","start_date":"2023-10-09","location":"L'Aquila, Italy"},"file_date_updated":"2023-11-06T11:45:21Z","intvolume":"       281","article_number":"35","date_created":"2023-11-05T23:00:53Z","department":[{"_id":"GradSch"}],"volume":281,"month":"10","quality_controlled":"1","publication_identifier":{"isbn":["9783959773010"],"issn":["1868-8969"]},"status":"public","date_updated":"2023-11-07T07:48:01Z","publication_status":"published","oa_version":"Published Version","day":"01","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"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"}],"scopus_import":"1","alternative_title":["LIPIcs"],"has_accepted_license":"1","citation":{"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>","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>.","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.","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>."},"publication":"37th International Symposium on Distributed Computing","file":[{"file_name":"2023_LIPIcs_Aksenov.pdf","file_size":646665,"checksum":"d9f8d2915cccdf2df5905b7cd1b4a560","file_id":"14492","date_created":"2023-11-06T11:45:21Z","success":1,"date_updated":"2023-11-06T11:45:21Z","creator":"dernst","access_level":"open_access","content_type":"application/pdf","relation":"main_file"}],"title":"Brief announcement: BatchBoost: Universal batching for concurrent data structures"},{"date_updated":"2025-07-14T09:09:52Z","status":"public","degree_awarded":"PhD","abstract":[{"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.","lang":"eng"}],"ec_funded":1,"day":"10","publication_status":"published","oa_version":"Published Version","page":"162","citation":{"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>","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>","ista":"Yeo MX. 2023. Advances in efficiency and privacy in payment channel network analysis. Institute of Science and Technology Austria.","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.","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>."},"project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program","call_identifier":"H2020","grant_number":"665385"}],"has_accepted_license":"1","alternative_title":["ISTA Thesis"],"file":[{"file_id":"14598","date_created":"2023-11-23T10:29:55Z","checksum":"521c72818d720a52b377207b2ee87b6a","date_updated":"2023-11-23T10:29:55Z","file_name":"thesis_yeo.zip","file_size":3037720,"access_level":"closed","relation":"source_file","content_type":"application/x-zip-compressed","creator":"cchlebak"},{"file_id":"14599","date_created":"2023-11-23T10:30:08Z","checksum":"0ed5d16899687aecf13d843c9878c9f2","date_updated":"2023-11-23T10:30:08Z","success":1,"file_name":"thesis_yeo.pdf","file_size":2717256,"access_level":"open_access","relation":"main_file","content_type":"application/pdf","creator":"cchlebak"}],"title":"Advances in efficiency and privacy in payment channel network analysis","related_material":{"record":[{"id":"9969","status":"public","relation":"part_of_dissertation"},{"status":"public","id":"14490","relation":"part_of_dissertation"},{"id":"13238","status":"public","relation":"part_of_dissertation"}]},"year":"2023","publisher":"Institute of Science and Technology Austria","doi":"10.15479/14506","language":[{"iso":"eng"}],"type":"dissertation","_id":"14506","oa":1,"author":[{"first_name":"Michelle X","full_name":"Yeo, Michelle X","orcid":"0009-0001-3676-4809","last_name":"Yeo","id":"2D82B818-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2023-11-10T00:00:00Z","department":[{"_id":"GradSch"},{"_id":"KrPi"}],"date_created":"2023-11-10T08:10:43Z","file_date_updated":"2023-11-23T10:30:08Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","article_processing_charge":"No","ddc":["000"],"publication_identifier":{"issn":["2663 - 337X"]},"month":"11","supervisor":[{"id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","last_name":"Pietrzak","orcid":"0000-0002-9139-1654","first_name":"Krzysztof Z","full_name":"Pietrzak, Krzysztof Z"}]},{"related_material":{"record":[{"status":"public","id":"14591","relation":"part_of_dissertation"},{"status":"public","id":"9887","relation":"part_of_dissertation"},{"id":"8139","status":"public","relation":"part_of_dissertation"}]},"title":"Mechanism of clathrin-coated vesicle  formation during endocytosis in plants","file":[{"creator":"ngnyliuk","access_level":"closed","relation":"source_file","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_name":"Thesis_Gnyliukh_final_08_11_23.docx","file_size":20824903,"date_created":"2023-11-20T09:18:51Z","file_id":"14567","checksum":"3d5e680bfc61f98e308c434f45cc9bd6","date_updated":"2023-11-20T09:18:51Z"},{"embargo_to":"open_access","date_updated":"2023-11-23T13:10:55Z","date_created":"2023-11-20T09:23:11Z","file_id":"14568","checksum":"bfc96d47fc4e7e857dd71656097214a4","file_size":24871844,"file_name":"Thesis_Gnyliukh_final_20_11_23.pdf","content_type":"application/pdf","relation":"main_file","access_level":"closed","embargo":"2024-11-23","creator":"ngnyliuk"}],"alternative_title":["ISTA Thesis"],"has_accepted_license":"1","project":[{"name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"665385"}],"citation":{"short":"N. Gnyliukh, Mechanism of Clathrin-Coated Vesicle  Formation during Endocytosis in Plants, Institute of Science and Technology Austria, 2023.","ista":"Gnyliukh N. 2023. Mechanism of clathrin-coated vesicle  formation during endocytosis in plants. Institute of Science and Technology Austria.","mla":"Gnyliukh, Nataliia. <i>Mechanism of Clathrin-Coated Vesicle  Formation during Endocytosis in Plants</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:14510\">10.15479/at:ista:14510</a>.","apa":"Gnyliukh, N. (2023). <i>Mechanism of clathrin-coated vesicle  formation during endocytosis in plants</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14510\">https://doi.org/10.15479/at:ista:14510</a>","ama":"Gnyliukh N. Mechanism of clathrin-coated vesicle  formation during endocytosis in plants. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:14510\">10.15479/at:ista:14510</a>","chicago":"Gnyliukh, Nataliia. “Mechanism of Clathrin-Coated Vesicle  Formation during Endocytosis in Plants.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:14510\">https://doi.org/10.15479/at:ista:14510</a>.","ieee":"N. Gnyliukh, “Mechanism of clathrin-coated vesicle  formation during endocytosis in plants,” Institute of Science and Technology Austria, 2023."},"ec_funded":1,"publication_status":"published","oa_version":"Published Version","page":"180","day":"10","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"degree_awarded":"PhD","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"Bio"},{"_id":"LifeSc"}],"status":"public","date_updated":"2024-03-25T23:30:25Z","supervisor":[{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","orcid":"0000-0002-8302-7596","first_name":"Jiří","full_name":"Friml, Jiří"},{"orcid":"0000-0001-7309-9724","last_name":"Loose","id":"462D4284-F248-11E8-B48F-1D18A9856A87","full_name":"Loose, Martin","first_name":"Martin"}],"publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-037-4"]},"month":"11","keyword":["Clathrin-Mediated Endocytosis","vesicle scission","Dynamin-Related Protein 2","SH3P2","TPLATE complex","Total internal reflection fluorescence microscopy","Arabidopsis thaliana"],"ddc":["570"],"article_processing_charge":"No","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","file_date_updated":"2023-11-23T13:10:55Z","department":[{"_id":"GradSch"},{"_id":"JiFr"},{"_id":"MaLo"}],"date_created":"2023-11-10T09:10:06Z","date_published":"2023-11-10T00:00:00Z","_id":"14510","author":[{"id":"390C1120-F248-11E8-B48F-1D18A9856A87","last_name":"Gnyliukh","orcid":"0000-0002-2198-0509","first_name":"Nataliia","full_name":"Gnyliukh, Nataliia"}],"type":"dissertation","publisher":"Institute of Science and Technology Austria","year":"2023","language":[{"iso":"eng"}],"doi":"10.15479/at:ista:14510"},{"publication_identifier":{"issn":["2663 - 337X"]},"month":"11","supervisor":[{"full_name":"Hof, Björn","first_name":"Björn","orcid":"0000-0003-2057-2754","id":"3A374330-F248-11E8-B48F-1D18A9856A87","last_name":"Hof"}],"department":[{"_id":"GradSch"},{"_id":"MiSi"}],"date_created":"2023-11-15T09:59:03Z","keyword":["Synchronization","Collective Movement","Active Matter","Cell Migration","Active Colloids"],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","ddc":["530","570"],"article_processing_charge":"No","file_date_updated":"2023-11-15T09:52:54Z","oa":1,"_id":"14530","author":[{"first_name":"Michael","full_name":"Riedl, Michael","orcid":"0000-0003-4844-6311","last_name":"Riedl","id":"3BE60946-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2023-11-16T00:00:00Z","publisher":"Institute of Science and Technology Austria","year":"2023","language":[{"iso":"eng"}],"doi":"10.15479/14530","type":"dissertation","related_material":{"record":[{"status":"public","id":"10703","relation":"part_of_dissertation"},{"id":"10791","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","id":"7932","status":"public"},{"id":"461","status":"public","relation":"part_of_dissertation"},{"status":"public","id":"12726","relation":"old_edition"}]},"file":[{"file_name":"Thesis_Riedl_2023_corr.pdf","file_size":36743942,"file_id":"14536","date_created":"2023-11-15T09:52:54Z","checksum":"52e1d0ab6c1abe59c82dfe8c9ff5f83a","date_updated":"2023-11-15T09:52:54Z","success":1,"creator":"mriedl","access_level":"open_access","relation":"main_file","content_type":"application/pdf"}],"title":"Synchronization in collectively moving active matter","citation":{"ista":"Riedl M. 2023. Synchronization in collectively moving active matter. Institute of Science and Technology Austria.","mla":"Riedl, Michael. <i>Synchronization in Collectively Moving Active Matter</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/14530\">10.15479/14530</a>.","short":"M. Riedl, Synchronization in Collectively Moving Active Matter, Institute of Science and Technology Austria, 2023.","apa":"Riedl, M. (2023). <i>Synchronization in collectively moving active matter</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/14530\">https://doi.org/10.15479/14530</a>","ama":"Riedl M. Synchronization in collectively moving active matter. 2023. doi:<a href=\"https://doi.org/10.15479/14530\">10.15479/14530</a>","chicago":"Riedl, Michael. “Synchronization in Collectively Moving Active Matter.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/14530\">https://doi.org/10.15479/14530</a>.","ieee":"M. Riedl, “Synchronization in collectively moving active matter,” Institute of Science and Technology Austria, 2023."},"alternative_title":["ISTA Thesis"],"has_accepted_license":"1","degree_awarded":"PhD","abstract":[{"lang":"eng","text":"Most motions of many-body systems at any scale in nature with sufficient degrees of freedom tend to be chaotic; reaching from the orbital motion of planets, the air currents in our atmosphere, down to the water flowing through our pipelines or the movement of a population of bacteria. To the observer it is therefore intriguing when a moving collective exhibits order. Collective motion of flocks of birds, schools of fish or swarms of self-propelled particles or robots have been studied extensively over the past decades but the mechanisms involved in the transition from chaos to order remain unclear. Here, the interactions, that in most systems give rise to chaos, sustain order.  In this thesis we investigate mechanisms that preserve, destabilize or lead to the ordered state. We show that endothelial cells migrating in circular confinements transition to a collective rotating state and concomitantly synchronize the frequencies of nucleating actin waves within individual cells. Consequently, the frequency dependent cell migration speed uniformizes across the population. Complementary to the WAVE dependent nucleation of traveling actin waves, we show that in leukocytes the actin polymerization depending on WASp generates pushing forces locally at stationary patches. Next, in pipe flows, we study methods to disrupt the self--sustaining cycle of turbulence and therefore relaminarize the flow. While we find in pulsating flow conditions that turbulence emerges through a helical instability during the decelerating phase. Finally, we show quantitatively in brain slices of mice that wild-type control neurons can compensate the migratory deficits of a genetically modified neuronal sub--population in the developing cortex.  "}],"publication_status":"published","page":"260","oa_version":"Updated Version","day":"16","date_updated":"2023-11-30T10:55:13Z","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"Bio"}],"status":"public"},{"alternative_title":["ISTA Thesis"],"project":[{"call_identifier":"H2020","grant_number":"863818","name":"Formal Methods for Stochastic Models: Algorithms and Applications","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E"},{"call_identifier":"H2020","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program"}],"citation":{"ama":"Zikelic D. Automated verification and control of infinite state stochastic systems. 2023. doi:<a href=\"https://doi.org/10.15479/14539\">10.15479/14539</a>","apa":"Zikelic, D. (2023). <i>Automated verification and control of infinite state stochastic systems</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/14539\">https://doi.org/10.15479/14539</a>","ista":"Zikelic D. 2023. Automated verification and control of infinite state stochastic systems. Institute of Science and Technology Austria.","mla":"Zikelic, Dorde. <i>Automated Verification and Control of Infinite State Stochastic Systems</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/14539\">10.15479/14539</a>.","short":"D. Zikelic, Automated Verification and Control of Infinite State Stochastic Systems, Institute of Science and Technology Austria, 2023.","ieee":"D. Zikelic, “Automated verification and control of infinite state stochastic systems,” Institute of Science and Technology Austria, 2023.","chicago":"Zikelic, Dorde. “Automated Verification and Control of Infinite State Stochastic Systems.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/14539\">https://doi.org/10.15479/14539</a>."},"related_material":{"record":[{"id":"1194","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","id":"12000","status":"public"},{"id":"12511","status":"public","relation":"part_of_dissertation"},{"id":"14600","status":"public","relation":"part_of_dissertation"},{"id":"14601","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","id":"9644","status":"public"},{"relation":"part_of_dissertation","status":"public","id":"10414"}]},"title":"Automated verification and control of infinite state stochastic systems","file":[{"file_size":2116426,"file_name":"main.pdf","date_updated":"2023-11-15T13:43:28Z","success":1,"date_created":"2023-11-15T13:43:28Z","file_id":"14540","checksum":"f23e002b0059ca78e1fbb864da52dd7e","creator":"cchlebak","relation":"main_file","content_type":"application/pdf","access_level":"open_access"},{"relation":"source_file","content_type":"application/x-zip-compressed","access_level":"closed","creator":"cchlebak","date_updated":"2023-11-15T13:44:24Z","file_id":"14541","date_created":"2023-11-15T13:44:24Z","checksum":"80ca37618a3c7b59866875f8be9b15ed","file_size":35884057,"file_name":"thesis_source.zip"}],"status":"public","date_updated":"2025-07-14T09:10:10Z","page":"256","oa_version":"Published Version","publication_status":"published","day":"15","tmp":{"image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","short":"CC BY-NC-SA (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"ec_funded":1,"abstract":[{"text":"Stochastic systems provide a formal framework for modelling and quantifying uncertainty in systems and have been widely adopted in many application domains. Formal\r\nverification and control of finite state stochastic systems, a subfield of formal methods\r\nalso known as probabilistic model checking, is well studied. In contrast, formal verification and control of infinite state stochastic systems have received comparatively\r\nless attention. However, infinite state stochastic systems commonly arise in practice.\r\nFor instance, probabilistic models that contain continuous probability distributions such\r\nas normal or uniform, or stochastic dynamical systems which are a classical model for\r\ncontrol under uncertainty, both give rise to infinite state systems.\r\nThe goal of this thesis is to contribute to laying theoretical and algorithmic foundations\r\nof fully automated formal verification and control of infinite state stochastic systems,\r\nwith a particular focus on systems that may be executed over a long or infinite time.\r\nWe consider formal verification of infinite state stochastic systems in the setting of\r\nstatic analysis of probabilistic programs and formal control in the setting of controller\r\nsynthesis in stochastic dynamical systems. For both problems, we present some of the\r\nfirst fully automated methods for probabilistic (a.k.a. quantitative) reachability and\r\nsafety analysis applicable to infinite time horizon systems. We also advance the state\r\nof the art of probability 1 (a.k.a. qualitative) reachability analysis for both problems.\r\nFinally, for formal controller synthesis in stochastic dynamical systems, we present a\r\nnovel framework for learning neural network control policies in stochastic dynamical\r\nsystems with formal guarantees on correctness with respect to quantitative reachability,\r\nsafety or reach-avoid specifications.\r\n","lang":"eng"}],"degree_awarded":"PhD","ddc":["000"],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","article_processing_charge":"No","file_date_updated":"2023-11-15T13:44:24Z","date_created":"2023-11-15T13:39:10Z","department":[{"_id":"KrCh"},{"_id":"GradSch"}],"supervisor":[{"last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu"}],"month":"11","publication_identifier":{"issn":["2663 - 337X"],"isbn":["978-3-99078-036-7"]},"type":"dissertation","language":[{"iso":"eng"}],"doi":"10.15479/14539","publisher":"Institute of Science and Technology Austria","year":"2023","date_published":"2023-11-15T00:00:00Z","author":[{"orcid":"0000-0002-4681-1699","id":"294AA7A6-F248-11E8-B48F-1D18A9856A87","last_name":"Zikelic","first_name":"Dorde","full_name":"Zikelic, Dorde"}],"oa":1,"_id":"14539"},{"article_type":"original","publication_identifier":{"issn":["0129-055X"],"eissn":["1793-6659"]},"quality_controlled":"1","month":"10","article_processing_charge":"Yes (in subscription journal)","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"GradSch"},{"_id":"LaEr"},{"_id":"RoSe"}],"acknowledgement":"We thank Robert Seiringer for comments on the paper. J. H. gratefully acknowledges  partial  financial  support  by  the  ERC  Advanced  Grant  “RMTBeyond”No. 101020331.This research was funded in part by the Austrian Science Fund (FWF) grantnumber I6427.","date_created":"2023-11-15T23:48:14Z","article_number":"2360005 ","date_published":"2023-10-31T00:00:00Z","_id":"14542","oa":1,"author":[{"last_name":"Henheik","id":"31d731d7-d235-11ea-ad11-b50331c8d7fb","orcid":"0000-0003-1106-327X","first_name":"Sven Joscha","full_name":"Henheik, Sven Joscha"},{"full_name":"Lauritsen, Asbjørn Bækgaard","first_name":"Asbjørn Bækgaard","orcid":"0000-0003-4476-2288","id":"e1a2682f-dc8d-11ea-abe3-81da9ac728f1","last_name":"Lauritsen"},{"orcid":"0000-0002-9071-5880","last_name":"Roos","id":"5DA90512-D80F-11E9-8994-2E2EE6697425","first_name":"Barbara","full_name":"Roos, Barbara"}],"type":"journal_article","year":"2023","publisher":"World Scientific Publishing","doi":"10.1142/s0129055x2360005x","language":[{"iso":"eng"}],"title":"Universality in low-dimensional BCS theory","external_id":{"arxiv":["2301.05621"]},"publication":"Reviews in Mathematical Physics","main_file_link":[{"url":"https://doi.org/10.1142/S0129055X2360005X","open_access":"1"}],"has_accepted_license":"1","scopus_import":"1","arxiv":1,"citation":{"ama":"Henheik SJ, Lauritsen AB, Roos B. Universality in low-dimensional BCS theory. <i>Reviews in Mathematical Physics</i>. 2023. doi:<a href=\"https://doi.org/10.1142/s0129055x2360005x\">10.1142/s0129055x2360005x</a>","apa":"Henheik, S. J., Lauritsen, A. B., &#38; Roos, B. (2023). Universality in low-dimensional BCS theory. <i>Reviews in Mathematical Physics</i>. World Scientific Publishing. <a href=\"https://doi.org/10.1142/s0129055x2360005x\">https://doi.org/10.1142/s0129055x2360005x</a>","mla":"Henheik, Sven Joscha, et al. “Universality in Low-Dimensional BCS Theory.” <i>Reviews in Mathematical Physics</i>, 2360005, World Scientific Publishing, 2023, doi:<a href=\"https://doi.org/10.1142/s0129055x2360005x\">10.1142/s0129055x2360005x</a>.","short":"S.J. Henheik, A.B. Lauritsen, B. Roos, Reviews in Mathematical Physics (2023).","ista":"Henheik SJ, Lauritsen AB, Roos B. 2023. Universality in low-dimensional BCS theory. Reviews in Mathematical Physics., 2360005.","ieee":"S. J. Henheik, A. B. Lauritsen, and B. Roos, “Universality in low-dimensional BCS theory,” <i>Reviews in Mathematical Physics</i>. World Scientific Publishing, 2023.","chicago":"Henheik, Sven Joscha, Asbjørn Bækgaard Lauritsen, and Barbara Roos. “Universality in Low-Dimensional BCS Theory.” <i>Reviews in Mathematical Physics</i>. World Scientific Publishing, 2023. <a href=\"https://doi.org/10.1142/s0129055x2360005x\">https://doi.org/10.1142/s0129055x2360005x</a>."},"project":[{"_id":"62796744-2b32-11ec-9570-940b20777f1d","name":"Random matrices beyond Wigner-Dyson-Mehta","call_identifier":"H2020","grant_number":"101020331"},{"grant_number":"I06427","name":"Mathematical Challenges in BCS Theory of Superconductivity","_id":"bda63fe5-d553-11ed-ba76-a16e3d2f256b"}],"abstract":[{"text":"It is a remarkable property of BCS theory that the ratio of the energy gap at zero temperature Ξ\r\n and the critical temperature Tc is (approximately) given by a universal constant, independent of the microscopic details of the fermionic interaction. This universality has rigorously been proven quite recently in three spatial dimensions and three different limiting regimes: weak coupling, low density and high density. The goal of this short note is to extend the universal behavior to lower dimensions d=1,2 and give an exemplary proof in the weak coupling limit.","lang":"eng"}],"ec_funded":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"day":"31","oa_version":"Published Version","publication_status":"epub_ahead","status":"public","date_updated":"2023-11-20T10:04:38Z"},{"scopus_import":"1","citation":{"chicago":"Kaiyrzhanov, Rauan, Aboulfazl Rad, Sheng-Jia Lin, Aida Bertoli-Avella, Wouter W Kallemeijn, Annie Godwin, Maha S Zaki, et al. “Bi-Allelic ACBD6 Variants Lead to a Neurodevelopmental Syndrome with Progressive and Complex Movement Disorders.” <i>Brain</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/brain/awad380\">https://doi.org/10.1093/brain/awad380</a>.","ieee":"R. Kaiyrzhanov <i>et al.</i>, “Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders,” <i>Brain</i>. Oxford University Press, 2023.","mla":"Kaiyrzhanov, Rauan, et al. “Bi-Allelic ACBD6 Variants Lead to a Neurodevelopmental Syndrome with Progressive and Complex Movement Disorders.” <i>Brain</i>, awad380, Oxford University Press, 2023, doi:<a href=\"https://doi.org/10.1093/brain/awad380\">10.1093/brain/awad380</a>.","apa":"Kaiyrzhanov, R., Rad, A., Lin, S.-J., Bertoli-Avella, A., Kallemeijn, W. W., Godwin, A., … Maroofian, R. (2023). Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders. <i>Brain</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/brain/awad380\">https://doi.org/10.1093/brain/awad380</a>","short":"R. Kaiyrzhanov, A. Rad, S.-J. Lin, A. Bertoli-Avella, W.W. Kallemeijn, A. Godwin, M.S. Zaki, K. Huang, T. Lau, C. Petree, S. Efthymiou, E. Ghayoor Karimiani, M. Hempel, E.A. Normand, S. Rudnik-Schöneborn, U.A. Schatz, M.P. Baggelaar, M. Ilyas, T. Sultan, J.R. Alvi, M. Ganieva, B. Fowler, R. Aanicai, G. Akay Tayfun, A. Al Saman, A. Alswaid, N. Amiri, N. Asilova, V. Shotelersuk, P. Yeetong, M. Azam, M. Babaei, G. Bahrami Monajemi, P. Mohammadi, S. Samie, S.H. Banu, J.P. Basto, F. Kortüm, M. Bauer, P. Bauer, C. Beetz, M. Garshasbi, A. Hameed Issa, W. Eyaid, H. Ahmed, N. Hashemi, K. Hassanpour, I. Herman, S. Ibrohimov, B.A. Abdul-Majeed, M. Imdad, M. Isrofilov, Q. Kaiyal, S. Khan, B. Kirmse, J. Koster, C.M. Lourenço, T. Mitani, O. Moldovan, D. Murphy, M. Najafi, D. Pehlivan, M.E. Rocha, V. Salpietro, M. Schmidts, A. Shalata, M. Mahroum, J.K. Talbeya, R.W. Taylor, D. Vazquez, A. Vetro, H.R. Waterham, M. Zaman, T.A. Schrader, W.K. Chung, R. Guerrini, J.R. Lupski, J. Gleeson, M. Suri, Y. Jamshidi, K.P. Bhatia, B. Vona, M. Schrader, M. Severino, M. Guille, E.W. Tate, G.K. Varshney, H. Houlden, R. Maroofian, Brain (2023).","ista":"Kaiyrzhanov R, Rad A, Lin S-J, Bertoli-Avella A, Kallemeijn WW, Godwin A, Zaki MS, Huang K, Lau T, Petree C, Efthymiou S, Ghayoor Karimiani E, Hempel M, Normand EA, Rudnik-Schöneborn S, Schatz UA, Baggelaar MP, Ilyas M, Sultan T, Alvi JR, Ganieva M, Fowler B, Aanicai R, Akay Tayfun G, Al Saman A, Alswaid A, Amiri N, Asilova N, Shotelersuk V, Yeetong P, Azam M, Babaei M, Bahrami Monajemi G, Mohammadi P, Samie S, Banu SH, Basto JP, Kortüm F, Bauer M, Bauer P, Beetz C, Garshasbi M, Hameed Issa A, Eyaid W, Ahmed H, Hashemi N, Hassanpour K, Herman I, Ibrohimov S, Abdul-Majeed BA, Imdad M, Isrofilov M, Kaiyal Q, Khan S, Kirmse B, Koster J, Lourenço CM, Mitani T, Moldovan O, Murphy D, Najafi M, Pehlivan D, Rocha ME, Salpietro V, Schmidts M, Shalata A, Mahroum M, Talbeya JK, Taylor RW, Vazquez D, Vetro A, Waterham HR, Zaman M, Schrader TA, Chung WK, Guerrini R, Lupski JR, Gleeson J, Suri M, Jamshidi Y, Bhatia KP, Vona B, Schrader M, Severino M, Guille M, Tate EW, Varshney GK, Houlden H, Maroofian R. 2023. Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders. Brain., awad380.","ama":"Kaiyrzhanov R, Rad A, Lin S-J, et al. Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders. <i>Brain</i>. 2023. doi:<a href=\"https://doi.org/10.1093/brain/awad380\">10.1093/brain/awad380</a>"},"publication":"Brain","title":"Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders","main_file_link":[{"url":"https://doi.org/10.1093/brain/awad380","open_access":"1"}],"status":"public","date_updated":"2023-11-20T10:17:32Z","oa_version":"Submitted Version","publication_status":"epub_ahead","day":"10","abstract":[{"text":"The acyl-CoA-binding domain-containing protein 6 (ACBD6) is ubiquitously expressed, plays a role in the acylation of lipids and proteins, and regulates the N-myristoylation of proteins via N-myristoyltransferase enzymes (NMTs). However, its precise function in cells is still unclear, as is the consequence of ACBD6 defects on human pathophysiology. Utilizing exome sequencing and extensive international data sharing efforts, we identified 45 affected individuals from 28 unrelated families (consanguinity 93%) with bi-allelic pathogenic, predominantly loss-of-function (18/20) variants in ACBD6. We generated zebrafish and Xenopus tropicalis acbd6 knockouts by CRISPR/Cas9 and characterized the role of ACBD6 on protein N-myristoylation with YnMyr chemical proteomics in the model organisms and human cells, with the latter also being subjected further to ACBD6 peroxisomal localization studies. The affected individuals (23 males and 22 females), with ages ranging from 1 to 50 years old, typically present with a complex and progressive disease involving moderate-to-severe global developmental delay/intellectual disability (100%) with significant expressive language impairment (98%), movement disorders (97%), facial dysmorphism (95%), and mild cerebellar ataxia (85%) associated with gait impairment (94%), limb spasticity/hypertonia (76%), oculomotor (71%) and behavioural abnormalities (65%), overweight (59%), microcephaly (39%) and epilepsy (33%). The most conspicuous and common movement disorder was dystonia (94%), frequently leading to early-onset progressive postural deformities (97%), limb dystonia (55%), and cervical dystonia (31%). A jerky tremor in the upper limbs (63%), a mild head tremor (59%), parkinsonism/hypokinesia developing with advancing age (32%), and simple motor and vocal tics were among other frequent movement disorders. Midline brain malformations including corpus callosum abnormalities (70%), hypoplasia/agenesis of the anterior commissure (66%), short midbrain and small inferior cerebellar vermis (38% each), as well as hypertrophy of the clava (24%) were common neuroimaging findings. acbd6-deficient zebrafish and Xenopus models effectively recapitulated many clinical phenotypes reported in patients including movement disorders, progressive neuromotor impairment, seizures, microcephaly, craniofacial dysmorphism, and midbrain defects accompanied by developmental delay with increased mortality over time. Unlike ACBD5, ACBD6 did not show a peroxisomal localisation and ACBD6-deficiency was not associated with altered peroxisomal parameters in patient fibroblasts. Significant differences in YnMyr-labelling were observed for 68 co- and 18 post-translationally N-myristoylated proteins in patient-derived fibroblasts. N-Myristoylation was similarly affected in acbd6-deficient zebrafish and Xenopus tropicalis models, including Fus, Marcks, and Chchd-related proteins implicated in neurological diseases. The present study provides evidence that bi-allelic pathogenic variants in ACBD6 lead to a distinct neurodevelopmental syndrome accompanied by complex and progressive cognitive and movement disorders.","lang":"eng"}],"article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1","keyword":["Neurology (clinical)"],"article_number":"awad380","date_created":"2023-11-16T12:36:51Z","department":[{"_id":"GradSch"}],"article_type":"original","month":"11","quality_controlled":"1","publication_identifier":{"issn":["0006-8950"],"eissn":["1460-2156"]},"type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1093/brain/awad380","publisher":"Oxford University Press","year":"2023","date_published":"2023-11-10T00:00:00Z","author":[{"first_name":"Rauan","full_name":"Kaiyrzhanov, Rauan","last_name":"Kaiyrzhanov"},{"full_name":"Rad, Aboulfazl","first_name":"Aboulfazl","last_name":"Rad"},{"last_name":"Lin","full_name":"Lin, Sheng-Jia","first_name":"Sheng-Jia"},{"last_name":"Bertoli-Avella","full_name":"Bertoli-Avella, Aida","first_name":"Aida"},{"last_name":"Kallemeijn","first_name":"Wouter W","full_name":"Kallemeijn, Wouter W"},{"last_name":"Godwin","full_name":"Godwin, Annie","first_name":"Annie"},{"full_name":"Zaki, Maha S","first_name":"Maha S","last_name":"Zaki"},{"id":"3b3d2888-1ff6-11ee-9fa6-8f209ca91fe3","last_name":"Huang","orcid":"0000-0002-2512-7812","first_name":"Kevin","full_name":"Huang, Kevin"},{"first_name":"Tracy","full_name":"Lau, Tracy","last_name":"Lau"},{"last_name":"Petree","first_name":"Cassidy","full_name":"Petree, Cassidy"},{"last_name":"Efthymiou","first_name":"Stephanie","full_name":"Efthymiou, Stephanie"},{"full_name":"Ghayoor Karimiani, Ehsan","first_name":"Ehsan","last_name":"Ghayoor Karimiani"},{"full_name":"Hempel, Maja","first_name":"Maja","last_name":"Hempel"},{"last_name":"Normand","full_name":"Normand, Elizabeth A","first_name":"Elizabeth A"},{"last_name":"Rudnik-Schöneborn","full_name":"Rudnik-Schöneborn, Sabine","first_name":"Sabine"},{"last_name":"Schatz","full_name":"Schatz, Ulrich A","first_name":"Ulrich A"},{"first_name":"Marc P","full_name":"Baggelaar, Marc P","last_name":"Baggelaar"},{"first_name":"Muhammad","full_name":"Ilyas, Muhammad","last_name":"Ilyas"},{"last_name":"Sultan","full_name":"Sultan, Tipu","first_name":"Tipu"},{"last_name":"Alvi","full_name":"Alvi, Javeria Raza","first_name":"Javeria Raza"},{"last_name":"Ganieva","full_name":"Ganieva, Manizha","first_name":"Manizha"},{"last_name":"Fowler","full_name":"Fowler, Ben","first_name":"Ben"},{"first_name":"Ruxandra","full_name":"Aanicai, Ruxandra","last_name":"Aanicai"},{"last_name":"Akay Tayfun","first_name":"Gulsen","full_name":"Akay Tayfun, Gulsen"},{"last_name":"Al Saman","first_name":"Abdulaziz","full_name":"Al Saman, Abdulaziz"},{"first_name":"Abdulrahman","full_name":"Alswaid, Abdulrahman","last_name":"Alswaid"},{"last_name":"Amiri","first_name":"Nafise","full_name":"Amiri, Nafise"},{"full_name":"Asilova, Nilufar","first_name":"Nilufar","last_name":"Asilova"},{"full_name":"Shotelersuk, Vorasuk","first_name":"Vorasuk","last_name":"Shotelersuk"},{"first_name":"Patra","full_name":"Yeetong, Patra","last_name":"Yeetong"},{"last_name":"Azam","first_name":"Matloob","full_name":"Azam, Matloob"},{"last_name":"Babaei","full_name":"Babaei, Meisam","first_name":"Meisam"},{"first_name":"Gholamreza","full_name":"Bahrami Monajemi, Gholamreza","last_name":"Bahrami Monajemi"},{"last_name":"Mohammadi","first_name":"Pouria","full_name":"Mohammadi, Pouria"},{"full_name":"Samie, Saeed","first_name":"Saeed","last_name":"Samie"},{"first_name":"Selina Husna","full_name":"Banu, Selina Husna","last_name":"Banu"},{"last_name":"Basto","full_name":"Basto, Jorge Pinto","first_name":"Jorge Pinto"},{"first_name":"Fanny","full_name":"Kortüm, Fanny","last_name":"Kortüm"},{"first_name":"Mislen","full_name":"Bauer, Mislen","last_name":"Bauer"},{"last_name":"Bauer","first_name":"Peter","full_name":"Bauer, Peter"},{"first_name":"Christian","full_name":"Beetz, Christian","last_name":"Beetz"},{"first_name":"Masoud","full_name":"Garshasbi, Masoud","last_name":"Garshasbi"},{"first_name":"Awatif","full_name":"Hameed Issa, Awatif","last_name":"Hameed Issa"},{"last_name":"Eyaid","first_name":"Wafaa","full_name":"Eyaid, Wafaa"},{"last_name":"Ahmed","first_name":"Hind","full_name":"Ahmed, Hind"},{"full_name":"Hashemi, Narges","first_name":"Narges","last_name":"Hashemi"},{"first_name":"Kazem","full_name":"Hassanpour, Kazem","last_name":"Hassanpour"},{"last_name":"Herman","first_name":"Isabella","full_name":"Herman, Isabella"},{"full_name":"Ibrohimov, Sherozjon","first_name":"Sherozjon","last_name":"Ibrohimov"},{"last_name":"Abdul-Majeed","first_name":"Ban A","full_name":"Abdul-Majeed, Ban A"},{"full_name":"Imdad, Maria","first_name":"Maria","last_name":"Imdad"},{"full_name":"Isrofilov, Maksudjon","first_name":"Maksudjon","last_name":"Isrofilov"},{"full_name":"Kaiyal, Qassem","first_name":"Qassem","last_name":"Kaiyal"},{"last_name":"Khan","full_name":"Khan, Suliman","first_name":"Suliman"},{"last_name":"Kirmse","full_name":"Kirmse, Brian","first_name":"Brian"},{"last_name":"Koster","first_name":"Janet","full_name":"Koster, Janet"},{"last_name":"Lourenço","full_name":"Lourenço, Charles Marques","first_name":"Charles Marques"},{"full_name":"Mitani, Tadahiro","first_name":"Tadahiro","last_name":"Mitani"},{"last_name":"Moldovan","full_name":"Moldovan, Oana","first_name":"Oana"},{"first_name":"David","full_name":"Murphy, David","last_name":"Murphy"},{"last_name":"Najafi","first_name":"Maryam","full_name":"Najafi, Maryam"},{"full_name":"Pehlivan, Davut","first_name":"Davut","last_name":"Pehlivan"},{"first_name":"Maria Eugenia","full_name":"Rocha, Maria 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