[{"status":"public","ddc":["570"],"isi":1,"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa":1,"pmid":1,"author":[{"last_name":"Bussi","full_name":"Bussi, Claudio","first_name":"Claudio"},{"first_name":"Agustín","full_name":"Mangiarotti, Agustín","last_name":"Mangiarotti"},{"last_name":"Vanhille-Campos","id":"3adeca52-9313-11ed-b1ac-c170b2505714","first_name":"Christian Eduardo","full_name":"Vanhille-Campos, Christian Eduardo"},{"last_name":"Aylan","first_name":"Beren","full_name":"Aylan, Beren"},{"last_name":"Pellegrino","first_name":"Enrica","full_name":"Pellegrino, Enrica"},{"last_name":"Athanasiadi","first_name":"Natalia","full_name":"Athanasiadi, Natalia"},{"full_name":"Fearns, Antony","first_name":"Antony","last_name":"Fearns"},{"first_name":"Angela","full_name":"Rodgers, Angela","last_name":"Rodgers"},{"full_name":"Franzmann, Titus M.","first_name":"Titus M.","last_name":"Franzmann"},{"first_name":"Anđela","full_name":"Šarić, Anđela","orcid":"0000-0002-7854-2139","last_name":"Šarić","id":"bf63d406-f056-11eb-b41d-f263a6566d8b"},{"last_name":"Dimova","full_name":"Dimova, Rumiana","first_name":"Rumiana"},{"last_name":"Gutierrez","full_name":"Gutierrez, Maximiliano G.","first_name":"Maximiliano G."}],"intvolume":"       623","has_accepted_license":"1","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","page":"1062-1069","language":[{"iso":"eng"}],"title":"Stress granules plug and stabilize damaged endolysosomal membranes","volume":623,"oa_version":"Published Version","quality_controlled":"1","file_date_updated":"2024-07-16T07:41:39Z","publication_status":"published","citation":{"apa":"Bussi, C., Mangiarotti, A., Vanhille-Campos, C. E., Aylan, B., Pellegrino, E., Athanasiadi, N., … Gutierrez, M. G. (2023). Stress granules plug and stabilize damaged endolysosomal membranes. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-023-06726-w\">https://doi.org/10.1038/s41586-023-06726-w</a>","ista":"Bussi C, Mangiarotti A, Vanhille-Campos CE, Aylan B, Pellegrino E, Athanasiadi N, Fearns A, Rodgers A, Franzmann TM, Šarić A, Dimova R, Gutierrez MG. 2023. Stress granules plug and stabilize damaged endolysosomal membranes. Nature. 623, 1062–1069.","mla":"Bussi, Claudio, et al. “Stress Granules Plug and Stabilize Damaged Endolysosomal Membranes.” <i>Nature</i>, vol. 623, Springer Nature, 2023, pp. 1062–69, doi:<a href=\"https://doi.org/10.1038/s41586-023-06726-w\">10.1038/s41586-023-06726-w</a>.","short":"C. Bussi, A. Mangiarotti, C.E. Vanhille-Campos, B. Aylan, E. Pellegrino, N. Athanasiadi, A. Fearns, A. Rodgers, T.M. Franzmann, A. Šarić, R. Dimova, M.G. Gutierrez, Nature 623 (2023) 1062–1069.","chicago":"Bussi, Claudio, Agustín Mangiarotti, Christian Eduardo Vanhille-Campos, Beren Aylan, Enrica Pellegrino, Natalia Athanasiadi, Antony Fearns, et al. “Stress Granules Plug and Stabilize Damaged Endolysosomal Membranes.” <i>Nature</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41586-023-06726-w\">https://doi.org/10.1038/s41586-023-06726-w</a>.","ieee":"C. Bussi <i>et al.</i>, “Stress granules plug and stabilize damaged endolysosomal membranes,” <i>Nature</i>, vol. 623. Springer Nature, pp. 1062–1069, 2023.","ama":"Bussi C, Mangiarotti A, Vanhille-Campos CE, et al. Stress granules plug and stabilize damaged endolysosomal membranes. <i>Nature</i>. 2023;623:1062-1069. doi:<a href=\"https://doi.org/10.1038/s41586-023-06726-w\">10.1038/s41586-023-06726-w</a>"},"_id":"14610","article_processing_charge":"Yes (via OA deal)","doi":"10.1038/s41586-023-06726-w","external_id":{"isi":["001105882300018"],"pmid":["37968398"]},"acknowledgement":"We thank the Human Embryonic Stem Cell Unit, Advanced Light Microscopy and High-throughput Screening facilities at the Crick for their support in various aspects of the work. We thank the laboratory of P. Anderson for providing the G3BP-DKO U2OS cells. The authors thank N. Chen for providing the purified glycinin protein; Z. Zhao for providing the microfluidic chip wafers; and M. Amaral and F. Frey for helpful discussions and valuable input regarding analysis methods. This work was supported by the Francis Crick Institute (to M.G.G.), which receives its core funding from Cancer Research UK (FC001092), the UK Medical Research Council (FC001092) and the Wellcome Trust (FC001092). This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement no. 772022 to M.G.G.). C.B. has received funding from the European Respiratory Society and the European Union’s H2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement no. 713406. A.M. acknowledges support from Alexander von Humboldt Foundation and C.V.-C. acknowledges funding by the Royal Society and the European Research Council under the European Union’s Horizon 2020 Research and Innovation Programme (grant no. 802960 to A.S.). All simulations were carried out on the high-performance computing cluster at the Institute of Science and Technology Austria. For the purpose of Open Access, the author has applied a CC BY public copyright licence to any Author Accepted Manuscript version arising from this submission.\r\nOpen Access funding provided by The Francis Crick Institute.","date_created":"2023-11-27T07:56:37Z","article_type":"original","scopus_import":"1","related_material":{"record":[{"relation":"research_data","status":"public","id":"14472"}],"link":[{"relation":"erratum","url":"https://doi.org/10.1038/s41586-023-06882-z"}]},"date_updated":"2025-09-09T13:30:34Z","abstract":[{"lang":"eng","text":"Endomembrane damage represents a form of stress that is detrimental for eukaryotic cells<jats:sup>1,2</jats:sup>. To cope with this threat, cells possess mechanisms that repair the damage and restore cellular homeostasis<jats:sup>3–7</jats:sup>. Endomembrane damage also results in organelle instability and the mechanisms by which cells stabilize damaged endomembranes to enable membrane repair remains unknown. Here, by combining in vitro and in cellulo studies with computational modelling we uncover a biological function for stress granules whereby these biomolecular condensates form rapidly at endomembrane damage sites and act as a plug that stabilizes the ruptured membrane. Functionally, we demonstrate that stress granule formation and membrane stabilization enable efficient repair of damaged endolysosomes, through both ESCRT (endosomal sorting complex required for transport)-dependent and independent mechanisms. We also show that blocking stress granule formation in human macrophages creates a permissive environment for <jats:italic>Mycobacterium tuberculosis</jats:italic>, a human pathogen that exploits endomembrane damage to survive within the host."}],"type":"journal_article","publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"department":[{"_id":"AnSa"}],"month":"11","year":"2023","publisher":"Springer Nature","file":[{"content_type":"application/pdf","date_created":"2024-07-16T07:41:39Z","file_id":"17248","access_level":"open_access","checksum":"b939a19e4c228fbf3beca298ac2ac014","success":1,"file_name":"2023_Nature_Bussi.pdf","creator":"dernst","relation":"main_file","date_updated":"2024-07-16T07:41:39Z","file_size":17047711}],"publication":"Nature","date_published":"2023-11-30T00:00:00Z","day":"30"},{"day":"01","file_date_updated":"2023-11-30T14:16:59Z","date_published":"2023-12-01T00:00:00Z","file":[{"creator":"clasne","relation":"main_file","file_size":404968272,"date_updated":"2023-11-28T13:15:26Z","file_name":"panorpaX.zip","checksum":"cd0f13322b5156819ecaebd2bc8e7d12","access_level":"open_access","success":1,"content_type":"application/zip","file_id":"14625","date_created":"2023-11-28T13:15:26Z"},{"file_size":2625,"date_updated":"2023-11-30T14:16:59Z","creator":"clasne","relation":"main_file","file_name":"panorpa_readme.txt","success":1,"checksum":"9ff600416577687a737cb3c96dfcb26c","access_level":"open_access","file_id":"14634","date_created":"2023-11-30T14:16:59Z","content_type":"text/plain"}],"publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","department":[{"_id":"BeVi"}],"month":"12","year":"2023","title":"The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome","corr_author":"1","contributor":[{"last_name":"Elkrewi","orcid":"0000-0002-5328-7231","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","contributor_type":"researcher","first_name":"Marwan N"}],"keyword":["Panorpa","scorpionfly","genome","transcriptome"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"research_data","has_accepted_license":"1","abstract":[{"lang":"eng","text":"Many insects carry an ancient X chromosome—the Drosophila Muller element F—that likely predates their origin. Interestingly, the X has undergone turnover in multiple fly species (Diptera) after being conserved for more than 450 My. The long evolutionary distance between Diptera and other sequenced insect clades makes it difficult to infer what could have contributed to this sudden increase in rate of turnover. Here, we produce the first genome and transcriptome of scorpionflies (genus Panorpa), an insect belonging to a long overlooked sister-order to Diptera: Mecoptera. Combining our genome assembly with genomic short-read data, we obtain genome coverage and identify X-linked super-scaffolds. We further perform a gene homology analysis between the Panorpa X and a closely related Diptera species, and we assess the conservation of the Panorpa X-linked gene content with that of more distantly related insect species. We explored the structure of the Panorpa X by determining its repeat content, GC content, and nucleotide diversity. Finally, we used RNAseq data to detect the presence of dosage compensation in somatic tissues, as well as to explore gene expression tissue-specificity, and sex-bias in gene expression. We find high conservation of gene content between the mecopteran X and the dipteran Muller F element, as well as several shared biological features, such as the presence of dosage compensation and a low amount of genetic diversity, consistent with a low recombination rate. However, the 2 homologous X chromosomes differ strikingly in their size and number of genes they carry. Our results therefore support a common ancestry of the mecopteran and ancestral dipteran X chromosomes, and suggest that Muller element F shrank in size and gene content after the split of Diptera and Mecoptera, which may have contributed to its turnover in dipteran insects."}],"author":[{"first_name":"Clementine","full_name":"Lasne, Clementine","last_name":"Lasne","orcid":"0000-0002-1197-8616","id":"02225f57-50d2-11eb-9ed8-8c92b9a34237"},{"orcid":"0000-0002-5328-7231","last_name":"Elkrewi","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","first_name":"Marwan N","full_name":"Elkrewi, Marwan N"}],"date_updated":"2025-09-09T13:33:22Z","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"14613"}]},"date_created":"2023-11-27T16:39:19Z","oa":1,"doi":"10.15479/AT:ISTA:14614","article_processing_charge":"No","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"citation":{"apa":"Lasne, C., &#38; Elkrewi, M. N. (2023). The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:14614\">https://doi.org/10.15479/AT:ISTA:14614</a>","mla":"Lasne, Clementine, and Marwan N. Elkrewi. <i>The Scorpionfly (Panorpa Cognata) Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14614\">10.15479/AT:ISTA:14614</a>.","ista":"Lasne C, Elkrewi MN. 2023. The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:14614\">10.15479/AT:ISTA:14614</a>.","chicago":"Lasne, Clementine, and Marwan N Elkrewi. “The Scorpionfly (Panorpa Cognata) Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:14614\">https://doi.org/10.15479/AT:ISTA:14614</a>.","short":"C. Lasne, M.N. Elkrewi, (2023).","ama":"Lasne C, Elkrewi MN. The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome. 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14614\">10.15479/AT:ISTA:14614</a>","ieee":"C. Lasne and M. N. Elkrewi, “The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome.” Institute of Science and Technology Austria, 2023."},"_id":"14614","status":"public","ddc":["576"]},{"date_updated":"2025-09-09T13:32:05Z","author":[{"orcid":"0000-0002-9752-7380","last_name":"Toups","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","first_name":"Melissa A","full_name":"Toups, Melissa A"},{"orcid":"0000-0002-4579-8306","last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","full_name":"Vicoso, Beatriz"}],"related_material":{"record":[{"id":"14604","relation":"used_in_publication","status":"public"}]},"has_accepted_license":"1","abstract":[{"text":"Sex chromosomes have evolved independently multiple times, but why some are conserved for more than 100 million years whereas others turnover rapidly remains an open question. Here, we examine the homology of sex chromosomes across nine orders of insects, plus the outgroup springtails. We find that the X chromosome is likely homologous across insects and springtails; the only exception is in the Lepidoptera, which has lost the X and now has a ZZ/ZW sex chromosome system. These results suggest the ancestral insect X chromosome has persisted for more than 450 million years – the oldest known sex chromosome to date. Further, we propose that the shrinking of gene content of the Dipteran X chromosome has allowed for a burst of sex-chromosome turnover that is absent from other speciose insect orders.","lang":"eng"}],"tmp":{"image":"/images/cc_0.png","name":"Creative Commons Public Domain Dedication (CC0 1.0)","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","short":"CC0 (1.0)"},"article_processing_charge":"No","_id":"14616","ddc":["570"],"status":"public","main_file_link":[{"url":"https://doi.org/10.5061/dryad.hx3ffbgkt","open_access":"1"}],"citation":{"ista":"Toups MA, Vicoso B. 2023. The X chromosome of insects likely predates the origin of Class Insecta, Dryad, <a href=\"https://doi.org/10.5061/DRYAD.HX3FFBGKT\">10.5061/DRYAD.HX3FFBGKT</a>.","mla":"Toups, Melissa A., and Beatriz Vicoso. <i>The X Chromosome of Insects Likely Predates the Origin of Class Insecta</i>. Dryad, 2023, doi:<a href=\"https://doi.org/10.5061/DRYAD.HX3FFBGKT\">10.5061/DRYAD.HX3FFBGKT</a>.","chicago":"Toups, Melissa A, and Beatriz Vicoso. “The X Chromosome of Insects Likely Predates the Origin of Class Insecta.” Dryad, 2023. <a href=\"https://doi.org/10.5061/DRYAD.HX3FFBGKT\">https://doi.org/10.5061/DRYAD.HX3FFBGKT</a>.","ama":"Toups MA, Vicoso B. The X chromosome of insects likely predates the origin of Class Insecta. 2023. doi:<a href=\"https://doi.org/10.5061/DRYAD.HX3FFBGKT\">10.5061/DRYAD.HX3FFBGKT</a>","short":"M.A. Toups, B. Vicoso, (2023).","ieee":"M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the origin of Class Insecta.” Dryad, 2023.","apa":"Toups, M. A., &#38; Vicoso, B. (2023). The X chromosome of insects likely predates the origin of Class Insecta. Dryad. <a href=\"https://doi.org/10.5061/DRYAD.HX3FFBGKT\">https://doi.org/10.5061/DRYAD.HX3FFBGKT</a>"},"date_created":"2023-11-28T08:01:53Z","doi":"10.5061/DRYAD.HX3FFBGKT","oa":1,"date_published":"2023-09-15T00:00:00Z","license":"https://creativecommons.org/publicdomain/zero/1.0/","publisher":"Dryad","day":"15","title":"The X chromosome of insects likely predates the origin of Class Insecta","type":"research_data_reference","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","year":"2023","department":[{"_id":"BeVi"}],"month":"09"},{"day":"15","date_published":"2023-09-15T00:00:00Z","publisher":"Zenodo","oa_version":"Published Version","department":[{"_id":"BeVi"}],"month":"09","year":"2023","title":"The X chromosome of insects likely predates the origin of Class Insecta","type":"research_data_reference","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","has_accepted_license":"1","abstract":[{"lang":"eng","text":"Sex chromosomes have evolved independently multiple times, but why some are conserved for more than 100 million years whereas others turnover rapidly remains an open question. Here, we examine the homology of sex chromosomes across nine orders of insects, plus the outgroup springtails. We find that the X chromosome is likely homologous across insects and springtails; the only exception is in the Lepidoptera, which has lost the X and now has a ZZ/ZW sex chromosome system. These results suggest the ancestral insect X chromosome has persisted for more than 450 million years – the oldest known sex chromosome to date. Further, we propose that the shrinking of gene content of the Dipteran X chromosome has allowed for a burst of sex-chromosome turnover that is absent from other speciose insect orders."}],"author":[{"id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9752-7380","last_name":"Toups","full_name":"Toups, Melissa A","first_name":"Melissa A"},{"first_name":"Beatriz","full_name":"Vicoso, Beatriz","orcid":"0000-0002-4579-8306","last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"}],"date_updated":"2025-09-09T13:32:05Z","related_material":{"record":[{"status":"public","relation":"used_in_publication","id":"14604"}]},"date_created":"2023-11-28T08:04:03Z","oa":1,"doi":"10.5281/ZENODO.8138705","article_processing_charge":"No","other_data_license":"MIT License","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.8138705"}],"citation":{"mla":"Toups, Melissa A., and Beatriz Vicoso. <i>The X Chromosome of Insects Likely Predates the Origin of Class Insecta</i>. Zenodo, 2023, doi:<a href=\"https://doi.org/10.5281/ZENODO.8138705\">10.5281/ZENODO.8138705</a>.","ista":"Toups MA, Vicoso B. 2023. The X chromosome of insects likely predates the origin of Class Insecta, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.8138705\">10.5281/ZENODO.8138705</a>.","ieee":"M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the origin of Class Insecta.” Zenodo, 2023.","ama":"Toups MA, Vicoso B. The X chromosome of insects likely predates the origin of Class Insecta. 2023. doi:<a href=\"https://doi.org/10.5281/ZENODO.8138705\">10.5281/ZENODO.8138705</a>","short":"M.A. Toups, B. Vicoso, (2023).","chicago":"Toups, Melissa A, and Beatriz Vicoso. “The X Chromosome of Insects Likely Predates the Origin of Class Insecta.” Zenodo, 2023. <a href=\"https://doi.org/10.5281/ZENODO.8138705\">https://doi.org/10.5281/ZENODO.8138705</a>.","apa":"Toups, M. A., &#38; Vicoso, B. (2023). The X chromosome of insects likely predates the origin of Class Insecta. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.8138705\">https://doi.org/10.5281/ZENODO.8138705</a>"},"status":"public","_id":"14617","ddc":["570"]},{"year":"2023","month":"10","department":[{"_id":"BiCh"}],"oa_version":"Published Version","type":"research_data_reference","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","corr_author":"1","title":"BingqingCheng/solubility: V1.0","day":"02","publisher":"Zenodo","date_published":"2023-10-02T00:00:00Z","doi":"10.5281/ZENODO.8398094","oa":1,"date_created":"2023-11-28T08:32:18Z","_id":"14619","ddc":["530"],"status":"public","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.8398094"}],"citation":{"apa":"Cheng, B. (2023). BingqingCheng/solubility: V1.0. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.8398094\">https://doi.org/10.5281/ZENODO.8398094</a>","chicago":"Cheng, Bingqing. “BingqingCheng/Solubility: V1.0.” Zenodo, 2023. <a href=\"https://doi.org/10.5281/ZENODO.8398094\">https://doi.org/10.5281/ZENODO.8398094</a>.","ama":"Cheng B. BingqingCheng/solubility: V1.0. 2023. doi:<a href=\"https://doi.org/10.5281/ZENODO.8398094\">10.5281/ZENODO.8398094</a>","ieee":"B. Cheng, “BingqingCheng/solubility: V1.0.” Zenodo, 2023.","short":"B. Cheng, (2023).","ista":"Cheng B. 2023. BingqingCheng/solubility: V1.0, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.8398094\">10.5281/ZENODO.8398094</a>.","mla":"Cheng, Bingqing. <i>BingqingCheng/Solubility: V1.0</i>. Zenodo, 2023, doi:<a href=\"https://doi.org/10.5281/ZENODO.8398094\">10.5281/ZENODO.8398094</a>."},"article_processing_charge":"No","has_accepted_license":"1","abstract":[{"text":"Data underlying the publication \"A streamlined molecular-dynamics workflow for computing solubilities of molecular and ionic crystals\" (DOI https://doi.org/10.1063/5.0173341).","lang":"eng"}],"related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"14603"}]},"date_updated":"2025-09-09T13:32:46Z","author":[{"id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","orcid":"0000-0002-3584-9632","last_name":"Cheng","full_name":"Cheng, Bingqing","first_name":"Bingqing"}]},{"publisher":"Association for Computing Machinery","file":[{"date_updated":"2023-11-29T15:16:01Z","file_size":95467870,"relation":"main_file","creator":"yichen","file_name":"tog-22-0089-File004.zip","success":1,"checksum":"0192f597d7a2ceaf89baddfd6190d4c8","access_level":"open_access","file_id":"14630","date_created":"2023-11-29T15:16:01Z","content_type":"application/zip"},{"file_name":"tog-22-0089-File005.zip","date_updated":"2023-11-29T15:16:01Z","file_size":103731880,"creator":"yichen","relation":"main_file","file_id":"14631","date_created":"2023-11-29T15:16:01Z","content_type":"application/zip","success":1,"checksum":"7fb024963be81933494f38de191e4710","access_level":"open_access"},{"content_type":"application/pdf","date_created":"2023-12-04T08:04:14Z","file_id":"14638","access_level":"open_access","checksum":"b7d6829ce396e21cac9fae0ec7130a6b","success":1,"file_name":"2023_ACMToG_Makatura.pdf","creator":"dernst","relation":"main_file","date_updated":"2023-12-04T08:04:14Z","file_size":57067476}],"publication":"ACM Transactions on Graphics","project":[{"grant_number":"101045083","_id":"34bc2376-11ca-11ed-8bc3-9a3b3961a088","name":"Computational Discovery of Numerical Algorithms for Animation and Simulation of Natural Phenomena"}],"date_published":"2023-10-01T00:00:00Z","article_number":"168","day":"01","type":"journal_article","publication_identifier":{"issn":["0730-0301"],"eissn":["1557-7368"]},"department":[{"_id":"GradSch"},{"_id":"ChWo"},{"_id":"BeBi"}],"month":"10","year":"2023","scopus_import":"1","date_updated":"2025-09-09T13:33:58Z","abstract":[{"lang":"eng","text":"We introduce a compact, intuitive procedural graph representation for cellular metamaterials, which are small-scale, tileable structures that can be architected to exhibit many useful material properties. Because the structures’ “architectures” vary widely—with elements such as beams, thin shells, and solid bulks—it is difficult to explore them using existing representations. Generic approaches like voxel grids are versatile, but it is cumbersome to represent and edit individual structures; architecture-specific approaches address these issues, but are incompatible with one another. By contrast, our procedural graph succinctly represents the construction process for any structure using a simple skeleton annotated with spatially varying thickness. To express the highly constrained triply periodic minimal surfaces (TPMS) in this manner, we present the first fully automated version of the conjugate surface construction method, which allows novices to create complex TPMS from intuitive input. We demonstrate our representation’s expressiveness, accuracy, and compactness by constructing a wide range of established structures and hundreds of novel structures with diverse architectures and material properties. We also conduct a user study to verify our representation’s ease-of-use and ability to expand engineers’ capacity for exploration."}],"citation":{"ama":"Makatura L, Wang B, Chen Y-L, et al. Procedural metamaterials: A unified procedural graph for metamaterial design. <i>ACM Transactions on Graphics</i>. 2023;42(5). doi:<a href=\"https://doi.org/10.1145/3605389\">10.1145/3605389</a>","ieee":"L. Makatura <i>et al.</i>, “Procedural metamaterials: A unified procedural graph for metamaterial design,” <i>ACM Transactions on Graphics</i>, vol. 42, no. 5. Association for Computing Machinery, 2023.","chicago":"Makatura, Liane, Bohan Wang, Yi-Lu Chen, Bolei Deng, Chris Wojtan, Bernd Bickel, and Wojciech Matusik. “Procedural Metamaterials: A Unified Procedural Graph for Metamaterial Design.” <i>ACM Transactions on Graphics</i>. Association for Computing Machinery, 2023. <a href=\"https://doi.org/10.1145/3605389\">https://doi.org/10.1145/3605389</a>.","short":"L. Makatura, B. Wang, Y.-L. Chen, B. Deng, C. Wojtan, B. Bickel, W. Matusik, ACM Transactions on Graphics 42 (2023).","mla":"Makatura, Liane, et al. “Procedural Metamaterials: A Unified Procedural Graph for Metamaterial Design.” <i>ACM Transactions on Graphics</i>, vol. 42, no. 5, 168, Association for Computing Machinery, 2023, doi:<a href=\"https://doi.org/10.1145/3605389\">10.1145/3605389</a>.","ista":"Makatura L, Wang B, Chen Y-L, Deng B, Wojtan C, Bickel B, Matusik W. 2023. Procedural metamaterials: A unified procedural graph for metamaterial design. ACM Transactions on Graphics. 42(5), 168.","apa":"Makatura, L., Wang, B., Chen, Y.-L., Deng, B., Wojtan, C., Bickel, B., &#38; Matusik, W. (2023). Procedural metamaterials: A unified procedural graph for metamaterial design. <i>ACM Transactions on Graphics</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3605389\">https://doi.org/10.1145/3605389</a>"},"_id":"14628","article_processing_charge":"Yes (in subscription journal)","doi":"10.1145/3605389","acknowledgement":"The authors thank Mina Konaković Luković and Michael Foshey for their early contributions to this project, David Palmer and Paul Zhang for their insightful discussions about minimal surfaces and the CSCM, Julian Panetta for providing the Elastic Textures code, and Hannes Hergeth for his feedback and support. We also thank our user study participants and anonymous reviewers.\r\nThis material is based upon work supported by the National Science Foundation\r\n(NSF) Graduate Research Fellowship under Grant No. 2141064; the MIT Morningside\r\nAcademy for Design Fellowship; the Defense Advanced Research Projects Agency\r\n(DARPA) Grant No. FA8750-20-C-0075; the ERC Consolidator Grant No. 101045083,\r\n“CoDiNA: Computational Discovery of Numerical Algorithms for Animation and Simulation of Natural Phenomena”; and the NewSat project, which is co-funded by the Operational Program for Competitiveness and Internationalisation (COMPETE2020), Portugal 2020, the European Regional Development Fund (ERDF), and the Portuguese Foundation for Science and Technology (FTC) under the MIT Portugal program.","external_id":{"isi":["001086833300007"]},"date_created":"2023-11-29T15:02:03Z","article_type":"original","quality_controlled":"1","file_date_updated":"2023-12-04T08:04:14Z","publication_status":"published","keyword":["Computer Graphics and Computer-Aided Design"],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","language":[{"iso":"eng"}],"title":"Procedural metamaterials: A unified procedural graph for metamaterial design","volume":42,"oa_version":"Published Version","author":[{"full_name":"Makatura, Liane","first_name":"Liane","last_name":"Makatura"},{"last_name":"Wang","first_name":"Bohan","full_name":"Wang, Bohan"},{"full_name":"Chen, Yi-Lu","first_name":"Yi-Lu","id":"0b467602-dbcd-11ea-9d1d-ed480aa46b70","last_name":"Chen"},{"last_name":"Deng","full_name":"Deng, Bolei","first_name":"Bolei"},{"first_name":"Christopher J","full_name":"Wojtan, Christopher J","orcid":"0000-0001-6646-5546","last_name":"Wojtan","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Bickel, Bernd","first_name":"Bernd","id":"49876194-F248-11E8-B48F-1D18A9856A87","last_name":"Bickel","orcid":"0000-0001-6511-9385"},{"first_name":"Wojciech","full_name":"Matusik, Wojciech","last_name":"Matusik"}],"issue":"5","intvolume":"        42","has_accepted_license":"1","status":"public","ddc":["531","006"],"isi":1,"oa":1},{"title":"Evaluating the association of biallelic OGDHL variants with significant phenotypic heterogeneity","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","keyword":["Genetics (clinical)","Genetics","Molecular Biology","Molecular Medicine"],"language":[{"iso":"eng"}],"oa_version":"Published Version","volume":15,"quality_controlled":"1","file_date_updated":"2023-12-04T08:15:43Z","publication_status":"published","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"status":"public","ddc":["570"],"oa":1,"author":[{"first_name":"Sheng-Jia","full_name":"Lin, Sheng-Jia","last_name":"Lin"},{"last_name":"Vona","first_name":"Barbara","full_name":"Vona, Barbara"},{"last_name":"Lau","first_name":"Tracy","full_name":"Lau, Tracy"},{"id":"3b3d2888-1ff6-11ee-9fa6-8f209ca91fe3","orcid":"0000-0002-2512-7812","last_name":"Huang","full_name":"Huang, Kevin","first_name":"Kevin"},{"last_name":"Zaki","full_name":"Zaki, Maha S.","first_name":"Maha S."},{"full_name":"Aldeen, Huda Shujaa","first_name":"Huda Shujaa","last_name":"Aldeen"},{"last_name":"Karimiani","full_name":"Karimiani, Ehsan Ghayoor","first_name":"Ehsan Ghayoor"},{"last_name":"Rocca","full_name":"Rocca, Clarissa","first_name":"Clarissa"},{"first_name":"Mahmoud M.","full_name":"Noureldeen, Mahmoud M.","last_name":"Noureldeen"},{"last_name":"Saad","first_name":"Ahmed K.","full_name":"Saad, Ahmed K."},{"first_name":"Cassidy","full_name":"Petree, Cassidy","last_name":"Petree"},{"full_name":"Bartolomaeus, Tobias","first_name":"Tobias","last_name":"Bartolomaeus"},{"last_name":"Abou Jamra","full_name":"Abou Jamra, Rami","first_name":"Rami"},{"first_name":"Giovanni","full_name":"Zifarelli, Giovanni","last_name":"Zifarelli"},{"last_name":"Gotkhindikar","first_name":"Aditi","full_name":"Gotkhindikar, Aditi"},{"last_name":"Wentzensen","first_name":"Ingrid M.","full_name":"Wentzensen, Ingrid M."},{"last_name":"Liao","full_name":"Liao, Mingjuan","first_name":"Mingjuan"},{"full_name":"Cork, Emalyn Elise","first_name":"Emalyn Elise","last_name":"Cork"},{"full_name":"Varshney, Pratishtha","first_name":"Pratishtha","last_name":"Varshney"},{"first_name":"Narges","full_name":"Hashemi, Narges","last_name":"Hashemi"},{"full_name":"Mohammadi, Mohammad Hasan","first_name":"Mohammad Hasan","last_name":"Mohammadi"},{"first_name":"Aboulfazl","full_name":"Rad, Aboulfazl","last_name":"Rad"},{"last_name":"Neira","full_name":"Neira, Juanita","first_name":"Juanita"},{"first_name":"Mehran Beiraghi","full_name":"Toosi, Mehran Beiraghi","last_name":"Toosi"},{"full_name":"Knopp, Cordula","first_name":"Cordula","last_name":"Knopp"},{"first_name":"Ingo","full_name":"Kurth, Ingo","last_name":"Kurth"},{"last_name":"Challman","first_name":"Thomas D.","full_name":"Challman, Thomas D."},{"last_name":"Smith","full_name":"Smith, Rebecca","first_name":"Rebecca"},{"first_name":"Asmahan","full_name":"Abdalla, Asmahan","last_name":"Abdalla"},{"full_name":"Haaf, Thomas","first_name":"Thomas","last_name":"Haaf"},{"first_name":"Mohnish","full_name":"Suri, Mohnish","last_name":"Suri"},{"last_name":"Joshi","full_name":"Joshi, Manali","first_name":"Manali"},{"full_name":"Chung, Wendy K.","first_name":"Wendy K.","last_name":"Chung"},{"full_name":"Moreno-De-Luca, Andres","first_name":"Andres","last_name":"Moreno-De-Luca"},{"first_name":"Henry","full_name":"Houlden, Henry","last_name":"Houlden"},{"last_name":"Maroofian","first_name":"Reza","full_name":"Maroofian, Reza"},{"full_name":"Varshney, Gaurav K.","first_name":"Gaurav K.","last_name":"Varshney"}],"has_accepted_license":"1","intvolume":"        15","type":"journal_article","publication_identifier":{"issn":["1756-994X"]},"month":"11","year":"2023","date_published":"2023-11-23T00:00:00Z","article_number":"102","file":[{"date_updated":"2023-12-04T08:15:43Z","file_size":14791081,"relation":"main_file","creator":"dernst","file_name":"2023_GenomeMed_Lin.pdf","success":1,"checksum":"279efd212005549aba817a487d56d363","access_level":"open_access","file_id":"14640","date_created":"2023-12-04T08:15:43Z","content_type":"application/pdf"}],"publisher":"Springer Nature","publication":"Genome Medicine","day":"23","extern":"1","article_processing_charge":"Yes","citation":{"ista":"Lin S-J, Vona B, Lau T, Huang K, Zaki MS, Aldeen HS, Karimiani EG, Rocca C, Noureldeen MM, Saad AK, Petree C, Bartolomaeus T, Abou Jamra R, Zifarelli G, Gotkhindikar A, Wentzensen IM, Liao M, Cork EE, Varshney P, Hashemi N, Mohammadi MH, Rad A, Neira J, Toosi MB, Knopp C, Kurth I, Challman TD, Smith R, Abdalla A, Haaf T, Suri M, Joshi M, Chung WK, Moreno-De-Luca A, Houlden H, Maroofian R, Varshney GK. 2023. Evaluating the association of biallelic OGDHL variants with significant phenotypic heterogeneity. Genome Medicine. 15, 102.","mla":"Lin, Sheng-Jia, et al. “Evaluating the Association of Biallelic OGDHL Variants with Significant Phenotypic Heterogeneity.” <i>Genome Medicine</i>, vol. 15, 102, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1186/s13073-023-01258-4\">10.1186/s13073-023-01258-4</a>.","ieee":"S.-J. Lin <i>et al.</i>, “Evaluating the association of biallelic OGDHL variants with significant phenotypic heterogeneity,” <i>Genome Medicine</i>, vol. 15. Springer Nature, 2023.","chicago":"Lin, Sheng-Jia, Barbara Vona, Tracy Lau, Kevin Huang, Maha S. Zaki, Huda Shujaa Aldeen, Ehsan Ghayoor Karimiani, et al. “Evaluating the Association of Biallelic OGDHL Variants with Significant Phenotypic Heterogeneity.” <i>Genome Medicine</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1186/s13073-023-01258-4\">https://doi.org/10.1186/s13073-023-01258-4</a>.","ama":"Lin S-J, Vona B, Lau T, et al. Evaluating the association of biallelic OGDHL variants with significant phenotypic heterogeneity. <i>Genome Medicine</i>. 2023;15. doi:<a href=\"https://doi.org/10.1186/s13073-023-01258-4\">10.1186/s13073-023-01258-4</a>","short":"S.-J. Lin, B. Vona, T. Lau, K. Huang, M.S. Zaki, H.S. Aldeen, E.G. Karimiani, C. Rocca, M.M. Noureldeen, A.K. Saad, C. Petree, T. Bartolomaeus, R. Abou Jamra, G. Zifarelli, A. Gotkhindikar, I.M. Wentzensen, M. Liao, E.E. Cork, P. Varshney, N. Hashemi, M.H. Mohammadi, A. Rad, J. Neira, M.B. Toosi, C. Knopp, I. Kurth, T.D. Challman, R. Smith, A. Abdalla, T. Haaf, M. Suri, M. Joshi, W.K. Chung, A. Moreno-De-Luca, H. Houlden, R. Maroofian, G.K. Varshney, Genome Medicine 15 (2023).","apa":"Lin, S.-J., Vona, B., Lau, T., Huang, K., Zaki, M. S., Aldeen, H. S., … Varshney, G. K. (2023). Evaluating the association of biallelic OGDHL variants with significant phenotypic heterogeneity. <i>Genome Medicine</i>. Springer Nature. <a href=\"https://doi.org/10.1186/s13073-023-01258-4\">https://doi.org/10.1186/s13073-023-01258-4</a>"},"_id":"14639","date_created":"2023-12-04T08:10:55Z","article_type":"original","doi":"10.1186/s13073-023-01258-4","date_updated":"2023-12-04T08:17:22Z","abstract":[{"text":"Background: Biallelic variants in OGDHL, encoding part of the α-ketoglutarate dehydrogenase complex, have been associated with highly heterogeneous neurological and neurodevelopmental disorders. However, the validity of this association remains to be confirmed. A second OGDHL patient cohort was recruited to carefully assess the gene-disease relationship.\r\nMethods: Using an unbiased genotype-first approach, we screened large, multiethnic aggregated sequencing datasets worldwide for biallelic OGDHL variants. We used CRISPR/Cas9 to generate zebrafish knockouts of ogdhl, ogdh paralogs, and dhtkd1 to investigate functional relationships and impact during development. Functional complementation with patient variant transcripts was conducted to systematically assess protein functionality as a readout for pathogenicity.\r\nResults: A cohort of 14 individuals from 12 unrelated families exhibited highly variable clinical phenotypes, with the majority of them presenting at least one additional variant, potentially accounting for a blended phenotype and complicating phenotypic understanding. We also uncovered extreme clinical heterogeneity and high allele frequencies, occasionally incompatible with a fully penetrant recessive disorder. Human cDNA of previously described and new variants were tested in an ogdhl zebrafish knockout model, adding functional evidence for variant reclassification. We disclosed evidence of hypomorphic alleles as well as a loss-of-function variant without deleterious effects in zebrafish variant testing also showing discordant familial segregation, challenging the relationship of OGDHL as a conventional Mendelian gene. Going further, we uncovered evidence for a complex compensatory relationship among OGDH, OGDHL, and DHTKD1 isoenzymes that are associated with neurodevelopmental disorders and exhibit complex transcriptional compensation patterns with partial functional redundancy.\r\nConclusions: Based on the results of genetic, clinical, and functional studies, we formed three hypotheses in which to frame observations: biallelic OGDHL variants lead to a highly variable monogenic disorder, variants in OGDHL are following a complex pattern of inheritance, or they may not be causative at all. Our study further highlights the continuing challenges of assessing the validity of reported disease-gene associations and effects of variants identified in these genes. This is particularly more complicated in making genetic diagnoses based on identification of variants in genes presenting a highly heterogenous phenotype such as “OGDHL-related disorders”.","lang":"eng"}]},{"publication_status":"draft","file_date_updated":"2023-12-05T10:37:02Z","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","corr_author":"1","title":"Mechanism of mammalian transcriptional repression by noncoding RNA","oa_version":"Submitted Version","author":[{"first_name":"Katarina","full_name":"Tluckova, Katarina","last_name":"Tluckova","id":"4AC7D980-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Testa Salmazo","id":"41F1F098-F248-11E8-B48F-1D18A9856A87","first_name":"Anita P","full_name":"Testa Salmazo, Anita P"},{"first_name":"Carrie A","full_name":"Bernecky, Carrie A","orcid":"0000-0003-0893-7036","last_name":"Bernecky","id":"2CB9DFE2-F248-11E8-B48F-1D18A9856A87"}],"has_accepted_license":"1","ddc":["572"],"status":"public","tmp":{"image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)"},"oa":1,"publisher":"Institute of Science and Technology Austria","file":[{"file_name":"2023_Tluckova_etal_REx.pdf","file_size":4892920,"date_updated":"2023-12-05T10:37:02Z","creator":"dernst","relation":"main_file","date_created":"2023-12-05T10:37:02Z","file_id":"14646","content_type":"application/pdf","success":1,"access_level":"open_access","checksum":"c45608cb97ee36d7b50ba518db8e07b0"}],"date_published":"2023-12-05T00:00:00Z","project":[{"name":"Regulation of mammalian transcription by noncoding RNA","_id":"c08a6700-5a5b-11eb-8a69-82a722b2bc30","grant_number":"P34185"}],"day":"05","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"EM-Fac"},{"_id":"PreCl"}],"type":"preprint","year":"2023","month":"12","related_material":{"record":[{"id":"18778","relation":"later_version","status":"public"}]},"date_updated":"2025-11-20T10:28:37Z","abstract":[{"text":"Transcription by RNA polymerase II (Pol II) can be repressed by noncoding RNA, including the human RNA Alu. However, the mechanism by which endogenous RNAs repress transcription remains unclear. Here we present cryo-electron microscopy structures of Pol II bound to Alu RNA, which reveal that Alu RNA mimics how DNA and RNA bind to Pol II during transcription elongation. Further, we show how domains of the general transcription factor TFIIF affect complex dynamics and control repressive activity. Together, we reveal how a non-coding RNA can regulate mammalian gene expression.","lang":"eng"}],"_id":"14644","citation":{"apa":"Tluckova, K., Testa Salmazo, A. P., &#38; Bernecky, C. (n.d.). Mechanism of mammalian transcriptional repression by noncoding RNA. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:14644\">https://doi.org/10.15479/AT:ISTA:14644</a>","ama":"Tluckova K, Testa Salmazo AP, Bernecky C. Mechanism of mammalian transcriptional repression by noncoding RNA. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14644\">10.15479/AT:ISTA:14644</a>","short":"K. Tluckova, A.P. Testa Salmazo, C. Bernecky, (n.d.).","chicago":"Tluckova, Katarina, Anita P Testa Salmazo, and Carrie Bernecky. “Mechanism of Mammalian Transcriptional Repression by Noncoding RNA.” Institute of Science and Technology Austria, n.d. <a href=\"https://doi.org/10.15479/AT:ISTA:14644\">https://doi.org/10.15479/AT:ISTA:14644</a>.","ieee":"K. Tluckova, A. P. Testa Salmazo, and C. Bernecky, “Mechanism of mammalian transcriptional repression by noncoding RNA.” Institute of Science and Technology Austria.","ista":"Tluckova K, Testa Salmazo AP, Bernecky C. Mechanism of mammalian transcriptional repression by noncoding RNA. <a href=\"https://doi.org/10.15479/AT:ISTA:14644\">10.15479/AT:ISTA:14644</a>.","mla":"Tluckova, Katarina, et al. <i>Mechanism of Mammalian Transcriptional Repression by Noncoding RNA</i>. Institute of Science and Technology Austria, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14644\">10.15479/AT:ISTA:14644</a>."},"article_processing_charge":"No","doi":"10.15479/AT:ISTA:14644","date_created":"2023-12-04T14:51:00Z","acknowledgement":"We thank B. Kaczmarek and other members of the Bernecky lab for helpful discussions. We thank V.-V. Hodirnau for SerialEM data collection and support with EPU data collection. We thank D. Slade for the wild type TFIIF expression\r\nplasmid. We thank N. Thompson and R. Burgess for the 8WG16 hybridoma cell line. We thank C. Plaschka and M. Loose for critical reading of the manuscript. This work was supported by Austrian Science Fund (FWF) grant P34185. This research was further supported by the Scientific Service Units (SSU) of IST Austria through resources provided by the Lab Support Facility (LSF), Electron Microscopy Facility (EMF), Scientific Computing (SciComp), and the Preclinical Facility (PCF)."},{"abstract":[{"lang":"eng","text":"We study the out-of-equilibrium quantum dynamics of dipolar polarons, i.e., impurities immersed in a dipolar Bose-Einstein condensate, after a quench of the impurity-boson interaction. We show that the dipolar nature of the condensate and of the impurity results in anisotropic relaxation dynamics, in particular, anisotropic dressing of the polaron. More relevantly for cold-atom setups, quench dynamics is strongly affected by the interplay between dipolar anisotropy and trap geometry. Our findings pave the way for simulating impurities in anisotropic media utilizing experiments with dipolar mixtures."}],"scopus_import":"1","date_updated":"2025-09-09T13:34:34Z","doi":"10.21468/scipostphys.15.6.232","article_type":"original","acknowledgement":"We thank Lauriane Chomaz for useful discussions and comments on the manuscript. We also\r\nthank Ragheed Al Hyder for comments on the manuscript.\r\nG.B. acknowledges support from the Austrian Science Fund (FWF),\r\nunder Project No. M2641-N27. This work is supported by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy EXC2181/1-\r\n390900948 (the Heidelberg STRUCTURES Excellence Cluster). A. G. V. acknowledges support from the European Union’s Horizon 2020 research and innovation programme under the\r\nMarie Skłodowska-Curie Grant Agreement No. 754411. L.A.P.A acknowledges by the PNRR\r\nMUR project PE0000023 - NQSTI and the Deutsche Forschungsgemeinschaft (DFG, German\r\nResearch Foundation) under Germany’s Excellence Strategy - EXC - 2123 Quantum Frontiers390837967 and FOR2247.","date_created":"2023-12-10T13:03:07Z","external_id":{"arxiv":["2305.17969"],"isi":["001121864100003"]},"ec_funded":1,"_id":"14650","citation":{"mla":"Volosniev, Artem, et al. “Non-Equilibrium Dynamics of Dipolar Polarons.” <i>SciPost Physics</i>, vol. 15, no. 6, 232, SciPost Foundation, 2023, doi:<a href=\"https://doi.org/10.21468/scipostphys.15.6.232\">10.21468/scipostphys.15.6.232</a>.","ista":"Volosniev A, Bighin G, Santos L, Peña Ardila LA. 2023. Non-equilibrium dynamics of dipolar polarons. SciPost Physics. 15(6), 232.","chicago":"Volosniev, Artem, Giacomo Bighin, Luis Santos, and Luisllu A. Peña Ardila. “Non-Equilibrium Dynamics of Dipolar Polarons.” <i>SciPost Physics</i>. SciPost Foundation, 2023. <a href=\"https://doi.org/10.21468/scipostphys.15.6.232\">https://doi.org/10.21468/scipostphys.15.6.232</a>.","ama":"Volosniev A, Bighin G, Santos L, Peña Ardila LA. Non-equilibrium dynamics of dipolar polarons. <i>SciPost Physics</i>. 2023;15(6). doi:<a href=\"https://doi.org/10.21468/scipostphys.15.6.232\">10.21468/scipostphys.15.6.232</a>","short":"A. Volosniev, G. Bighin, L. Santos, L.A. Peña Ardila, SciPost Physics 15 (2023).","ieee":"A. Volosniev, G. Bighin, L. Santos, and L. A. Peña Ardila, “Non-equilibrium dynamics of dipolar polarons,” <i>SciPost Physics</i>, vol. 15, no. 6. SciPost Foundation, 2023.","apa":"Volosniev, A., Bighin, G., Santos, L., &#38; Peña Ardila, L. A. (2023). Non-equilibrium dynamics of dipolar polarons. <i>SciPost Physics</i>. SciPost Foundation. <a href=\"https://doi.org/10.21468/scipostphys.15.6.232\">https://doi.org/10.21468/scipostphys.15.6.232</a>"},"article_processing_charge":"No","day":"07","publication":"SciPost Physics","publisher":"SciPost Foundation","file":[{"creator":"dernst","relation":"main_file","file_size":3543541,"date_updated":"2023-12-11T07:42:04Z","file_name":"2023_SciPostPhysics_Volosniev.pdf","checksum":"e664372a1fe9d628a9bb1d135ebab7d8","access_level":"open_access","success":1,"content_type":"application/pdf","file_id":"14669","date_created":"2023-12-11T07:42:04Z"}],"date_published":"2023-12-07T00:00:00Z","project":[{"call_identifier":"FWF","_id":"26986C82-B435-11E9-9278-68D0E5697425","name":"A path-integral approach to composite impurities","grant_number":"M02641"},{"grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"article_number":"232","year":"2023","department":[{"_id":"MiLe"}],"month":"12","publication_identifier":{"issn":["2542-4653"]},"type":"journal_article","issue":"6","intvolume":"        15","has_accepted_license":"1","author":[{"first_name":"Artem","full_name":"Volosniev, Artem","orcid":"0000-0003-0393-5525","last_name":"Volosniev","id":"37D278BC-F248-11E8-B48F-1D18A9856A87"},{"id":"4CA96FD4-F248-11E8-B48F-1D18A9856A87","last_name":"Bighin","orcid":"0000-0001-8823-9777","full_name":"Bighin, Giacomo","first_name":"Giacomo"},{"last_name":"Santos","first_name":"Luis","full_name":"Santos, Luis"},{"first_name":"Luisllu A.","full_name":"Peña Ardila, Luisllu A.","last_name":"Peña Ardila"}],"oa":1,"status":"public","ddc":["530"],"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"isi":1,"publication_status":"published","file_date_updated":"2023-12-11T07:42:04Z","quality_controlled":"1","volume":15,"oa_version":"Published Version","language":[{"iso":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","keyword":["General Physics and Astronomy"],"arxiv":1,"title":"Non-equilibrium dynamics of dipolar polarons","corr_author":"1"},{"date_updated":"2026-04-07T13:28:30Z","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"11411"}]},"abstract":[{"text":"For self-incompatibility (SI) to be stable in a population, theory predicts that sufficient inbreeding depression (ID) is required: the fitness of offspring from self-mated individuals must be low enough to prevent the spread of self-compatibility (SC). Reviews of natural plant populations have supported this theory, with SI species generally showing high levels of ID. However, there is thought to be an under-sampling of self-incompatible taxa in the current literature. In this thesis, I study inbreeding depression in the SI plant species Antirrhinum majus using both greenhouse crosses and a large collected field dataset. Additionally, the gametophytic S-locus of A. majus is highly heterozygous and polymorphic, thus making assembly and discovery of S-alleles very difficult. Here, 206 new alleles of the male component SLFs are presented, along with a phylogeny showing the high conservation with alleles from another Antirrhinum species. Lastly, selected sites within the protein structure of SLFs are investigated, with one site in particular highlighted as potentially being involved in the SI recognition mechanism.","lang":"eng"}],"article_processing_charge":"No","_id":"14651","degree_awarded":"PhD","citation":{"mla":"Arathoon, Louise S. <i>Investigating Inbreeding Depression and the Self-Incompatibility Locus of Antirrhinum Majus</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:14651\">10.15479/at:ista:14651</a>.","ista":"Arathoon LS. 2023. Investigating inbreeding depression and the self-incompatibility locus of Antirrhinum majus. Institute of Science and Technology Austria.","chicago":"Arathoon, Louise S. “Investigating Inbreeding Depression and the Self-Incompatibility Locus of Antirrhinum Majus.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:14651\">https://doi.org/10.15479/at:ista:14651</a>.","short":"L.S. Arathoon, Investigating Inbreeding Depression and the Self-Incompatibility Locus of Antirrhinum Majus, Institute of Science and Technology Austria, 2023.","ama":"Arathoon LS. Investigating inbreeding depression and the self-incompatibility locus of Antirrhinum majus. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:14651\">10.15479/at:ista:14651</a>","ieee":"L. S. Arathoon, “Investigating inbreeding depression and the self-incompatibility locus of Antirrhinum majus,” Institute of Science and Technology Austria, 2023.","apa":"Arathoon, L. S. (2023). <i>Investigating inbreeding depression and the self-incompatibility locus of Antirrhinum majus</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14651\">https://doi.org/10.15479/at:ista:14651</a>"},"date_created":"2023-12-11T19:30:37Z","ec_funded":1,"doi":"10.15479/at:ista:14651","project":[{"grant_number":"665385","name":"International IST Doctoral Program","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"date_published":"2023-12-12T00:00:00Z","file":[{"file_id":"14684","date_created":"2023-12-13T15:37:55Z","content_type":"application/pdf","success":1,"checksum":"520bdb61e95e66070e02824947d2c5fa","access_level":"open_access","file_name":"Phd_Thesis_LA.pdf","file_size":34101468,"date_updated":"2023-12-13T15:37:55Z","creator":"larathoo","relation":"main_file"},{"file_name":"Phd_Thesis_LA.zip","creator":"larathoo","relation":"source_file","date_updated":"2023-12-14T08:58:18Z","file_size":31052872,"content_type":"application/zip","file_id":"14685","date_created":"2023-12-13T15:42:23Z","checksum":"d8e59afd0817c98fba2564a264508e5c","access_level":"closed"},{"file_name":"Supplementary_Materials.zip","creator":"larathoo","relation":"supplementary_material","file_size":10713896,"date_updated":"2023-12-14T08:58:18Z","content_type":"application/zip","date_created":"2023-12-11T19:24:59Z","file_id":"14681","access_level":"closed","checksum":"9a778c949932286f4519e1f1fca2820d"}],"alternative_title":["ISTA Thesis"],"publisher":"Institute of Science and Technology Austria","day":"12","acknowledged_ssus":[{"_id":"ScienComp"}],"publication_identifier":{"issn":["2663-337X"]},"type":"dissertation","year":"2023","month":"12","department":[{"_id":"GradSch"},{"_id":"NiBa"}],"author":[{"orcid":"0000-0003-1771-714X","last_name":"Arathoon","id":"2CFCFF98-F248-11E8-B48F-1D18A9856A87","first_name":"Louise S","full_name":"Arathoon, Louise S"}],"has_accepted_license":"1","OA_place":"publisher","supervisor":[{"first_name":"Nicholas H","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"status":"public","ddc":["570"],"oa":1,"publication_status":"published","file_date_updated":"2023-12-14T08:58:18Z","title":"Investigating inbreeding depression and the self-incompatibility locus of Antirrhinum majus","corr_author":"1","page":"96","language":[{"iso":"eng"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","oa_version":"Published Version"},{"issue":"12","intvolume":"        15","has_accepted_license":"1","author":[{"orcid":"0000-0001-9281-3479","last_name":"Hwong","id":"1217aa61-4dd1-11ec-9ac3-f2ba3f17ee22","first_name":"Yi-Ling","full_name":"Hwong, Yi-Ling"},{"full_name":"Colin, M.","first_name":"M.","last_name":"Colin"},{"first_name":"Philipp","full_name":"Aglas, Philipp","last_name":"Aglas","id":"02eace56-97fc-11ee-b81a-f0939ca85a77"},{"first_name":"Caroline J","full_name":"Muller, Caroline J","last_name":"Muller","orcid":"0000-0001-5836-5350","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b"},{"first_name":"S. C.","full_name":"Sherwood, S. C.","last_name":"Sherwood"}],"oa":1,"ddc":["550"],"status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"isi":1,"publication_status":"published","file_date_updated":"2023-12-11T08:08:44Z","quality_controlled":"1","volume":15,"oa_version":"Published Version","language":[{"iso":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","title":"Assessing memory in convection schemes using idealized tests","corr_author":"1","abstract":[{"lang":"eng","text":"Two assumptions commonly applied in convection schemes—the diagnostic and quasi-equilibrium assumptions—imply that convective activity (e.g., convective precipitation) is controlled only by the large-scale (macrostate) environment at the time. In contrast, numerical experiments indicate a “memory” or dependence of convection also on its own previous activity whereby subgrid-scale (microstate) structures boost but are also boosted by convection. In this study we investigated this memory by comparing single-column model behavior in two idealized tests previously executed by a cloud-resolving model (CRM). Conventional convection schemes that employ the diagnostic assumption fail to reproduce the CRM behavior. The memory-capable org and Laboratoire de Météorologie Dynamique Zoom cold pool schemes partially capture the behavior, but fail to fully exhibit the strong reinforcing feedbacks implied by the CRM. Analysis of this failure suggests that it is because the CRM supports a linear (or superlinear) dependence of the subgrid structure growth rate on the precipitation rate, while the org scheme assumes a sublinear dependence. Among varying versions of the org scheme, the growth rate of the org variable representing subgrid structure is strongly associated with memory strength. These results demonstrate the importance of parameterizing convective memory, and the ability of idealized tests to reveal shortcomings of convection schemes and constrain model structural assumptions."}],"scopus_import":"1","related_material":{"record":[{"status":"public","relation":"research_data","id":"14991"}]},"date_updated":"2025-09-09T13:35:40Z","doi":"10.1029/2023MS003726","article_type":"original","acknowledgement":"YLH is supported by funding from the European Union's Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101034413. CJM gratefully acknowledges funding from the European Research Council under the European Union's Horizon 2020 research and innovation program (Project CLUSTER, Grant Agreement No. 805041). YLH and SCS were supported by the Australian Research Council (FL150100035). The authors thank Brian Mapes, David Fuchs and Siwon Song for stimulating and helpful discussions. MC warmly thanks the LMD team in Paris for their assistance with the LMDZ model. We thank the two anonymous reviewers for their constructive comments that greatly improved this manuscript.","external_id":{"isi":["001110801100001"]},"ec_funded":1,"date_created":"2023-12-10T23:00:57Z","_id":"14654","citation":{"apa":"Hwong, Y.-L., Colin, M., Aglas, P., Muller, C. J., &#38; Sherwood, S. C. (2023). Assessing memory in convection schemes using idealized tests. <i>Journal of Advances in Modeling Earth Systems</i>. Wiley. <a href=\"https://doi.org/10.1029/2023MS003726\">https://doi.org/10.1029/2023MS003726</a>","ista":"Hwong Y-L, Colin M, Aglas P, Muller CJ, Sherwood SC. 2023. Assessing memory in convection schemes using idealized tests. Journal of Advances in Modeling Earth Systems. 15(12), e2023MS003726.","mla":"Hwong, Yi-Ling, et al. “Assessing Memory in Convection Schemes Using Idealized Tests.” <i>Journal of Advances in Modeling Earth Systems</i>, vol. 15, no. 12, e2023MS003726, Wiley, 2023, doi:<a href=\"https://doi.org/10.1029/2023MS003726\">10.1029/2023MS003726</a>.","ieee":"Y.-L. Hwong, M. Colin, P. Aglas, C. J. Muller, and S. C. Sherwood, “Assessing memory in convection schemes using idealized tests,” <i>Journal of Advances in Modeling Earth Systems</i>, vol. 15, no. 12. Wiley, 2023.","short":"Y.-L. Hwong, M. Colin, P. Aglas, C.J. Muller, S.C. Sherwood, Journal of Advances in Modeling Earth Systems 15 (2023).","chicago":"Hwong, Yi-Ling, M. Colin, Philipp Aglas, Caroline J Muller, and S. C. Sherwood. “Assessing Memory in Convection Schemes Using Idealized Tests.” <i>Journal of Advances in Modeling Earth Systems</i>. Wiley, 2023. <a href=\"https://doi.org/10.1029/2023MS003726\">https://doi.org/10.1029/2023MS003726</a>.","ama":"Hwong Y-L, Colin M, Aglas P, Muller CJ, Sherwood SC. Assessing memory in convection schemes using idealized tests. <i>Journal of Advances in Modeling Earth Systems</i>. 2023;15(12). doi:<a href=\"https://doi.org/10.1029/2023MS003726\">10.1029/2023MS003726</a>"},"article_processing_charge":"Yes","day":"01","publication":"Journal of Advances in Modeling Earth Systems","publisher":"Wiley","file":[{"success":1,"access_level":"open_access","checksum":"4d060b293da3d203de8769e398edf711","date_created":"2023-12-11T08:08:44Z","file_id":"14670","content_type":"application/pdf","date_updated":"2023-12-11T08:08:44Z","file_size":2783677,"relation":"main_file","creator":"dernst","file_name":"2023_JAMES_Hwong.pdf"}],"project":[{"grant_number":"805041","_id":"629205d8-2b32-11ec-9570-e1356ff73576","call_identifier":"H2020","name":"Organization of CLoUdS, and implications of Tropical  cyclones and for the Energetics of the tropics, in current and waRming climate"}],"date_published":"2023-12-01T00:00:00Z","article_number":"e2023MS003726","year":"2023","month":"12","department":[{"_id":"CaMu"}],"publication_identifier":{"eissn":["1942-2466"]},"type":"journal_article"},{"quality_controlled":"1","publication_status":"published","title":"Transverse fluctuations control the assembly of semiflexible filaments","corr_author":"1","arxiv":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","language":[{"iso":"eng"}],"oa_version":"Preprint","volume":131,"author":[{"full_name":"Sorichetti, Valerio","first_name":"Valerio","id":"ef8a92cb-c7b6-11ec-8bea-e1fd5847bc5b","orcid":"0000-0002-9645-6576","last_name":"Sorichetti"},{"first_name":"Martin","full_name":"Lenz, Martin","last_name":"Lenz"}],"intvolume":"       131","issue":"22","isi":1,"status":"public","oa":1,"pmid":1,"date_published":"2023-12-01T00:00:00Z","article_number":"228401","publisher":"American Physical Society","publication":"Physical Review Letters","day":"01","type":"journal_article","publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"month":"12","department":[{"_id":"AnSa"}],"year":"2023","date_updated":"2025-09-09T13:35:06Z","scopus_import":"1","abstract":[{"lang":"eng","text":"The kinetics of the assembly of semiflexible filaments through end-to-end annealing is key to the structure of the cytoskeleton, but is not understood. We analyze this problem through scaling theory and simulations, and uncover a regime where filaments’ ends find each other through bending fluctuations without the need for the whole filament to diffuse. This results in a very substantial speedup of assembly in physiological regimes, and could help with understanding the dynamics of actin and intermediate filaments in biological processes such as wound healing and cell division."}],"article_processing_charge":"No","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2303.03088","open_access":"1"}],"citation":{"ieee":"V. Sorichetti and M. Lenz, “Transverse fluctuations control the assembly of semiflexible filaments,” <i>Physical Review Letters</i>, vol. 131, no. 22. American Physical Society, 2023.","ama":"Sorichetti V, Lenz M. Transverse fluctuations control the assembly of semiflexible filaments. <i>Physical Review Letters</i>. 2023;131(22). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.131.228401\">10.1103/PhysRevLett.131.228401</a>","short":"V. Sorichetti, M. Lenz, Physical Review Letters 131 (2023).","chicago":"Sorichetti, Valerio, and Martin Lenz. “Transverse Fluctuations Control the Assembly of Semiflexible Filaments.” <i>Physical Review Letters</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevLett.131.228401\">https://doi.org/10.1103/PhysRevLett.131.228401</a>.","ista":"Sorichetti V, Lenz M. 2023. Transverse fluctuations control the assembly of semiflexible filaments. Physical Review Letters. 131(22), 228401.","mla":"Sorichetti, Valerio, and Martin Lenz. “Transverse Fluctuations Control the Assembly of Semiflexible Filaments.” <i>Physical Review Letters</i>, vol. 131, no. 22, 228401, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.131.228401\">10.1103/PhysRevLett.131.228401</a>.","apa":"Sorichetti, V., &#38; Lenz, M. (2023). Transverse fluctuations control the assembly of semiflexible filaments. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.131.228401\">https://doi.org/10.1103/PhysRevLett.131.228401</a>"},"_id":"14655","acknowledgement":"The authors thank C´ecile Leduc and Duc-Quang Tran for invaluable help with understanding the experimental behavior of intermediate filaments, and Raphael Voituriez, Nicolas Levernier, and Alexander Grosberg for fruitful discussion on the theoretical model. V. S. also thanks Davide Michieletto, Maria Panoukidou, and Lorenzo Rovigatti for very helpful suggestions on the simulation model. M. L. was supported by Marie Curie Integration Grant No. PCIG12-GA-2012-334053, “Investissements d’Avenir” LabEx PALM (ANR-10-LABX- 0039-PALM), ANR Grants No. ANR-15-CE13-0004-03, No. ANR-21-CE11-0004-02 and No. ANR-22-CE30-0024, as well as ERC Starting Grant No. 677532. M.L.’s group belongs to the CNRS consortium AQV. Part of this work was performed using HPC resources from GENCI–IDRIS (Grants No. 2020-A0090712066 and No. 2021-A0110712066).","date_created":"2023-12-10T23:00:57Z","external_id":{"pmid":["38101392"],"arxiv":["2303.03088"],"isi":["001163810200008"]},"article_type":"original","doi":"10.1103/PhysRevLett.131.228401"},{"article_processing_charge":"Yes (in subscription journal)","citation":{"apa":"Tkadlec, J., Kaveh, K., Chatterjee, K., &#38; Nowak, M. A. (2023). Evolutionary dynamics of mutants that modify population structure. <i>Journal of the Royal Society, Interface</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rsif.2023.0355\">https://doi.org/10.1098/rsif.2023.0355</a>","ista":"Tkadlec J, Kaveh K, Chatterjee K, Nowak MA. 2023. Evolutionary dynamics of mutants that modify population structure. Journal of the Royal Society, Interface. 20(208), 20230355.","mla":"Tkadlec, Josef, et al. “Evolutionary Dynamics of Mutants That Modify Population Structure.” <i>Journal of the Royal Society, Interface</i>, vol. 20, no. 208, 20230355, The Royal Society, 2023, doi:<a href=\"https://doi.org/10.1098/rsif.2023.0355\">10.1098/rsif.2023.0355</a>.","short":"J. Tkadlec, K. Kaveh, K. Chatterjee, M.A. Nowak, Journal of the Royal Society, Interface 20 (2023).","chicago":"Tkadlec, Josef, Kamran Kaveh, Krishnendu Chatterjee, and Martin A. Nowak. “Evolutionary Dynamics of Mutants That Modify Population Structure.” <i>Journal of the Royal Society, Interface</i>. The Royal Society, 2023. <a href=\"https://doi.org/10.1098/rsif.2023.0355\">https://doi.org/10.1098/rsif.2023.0355</a>.","ama":"Tkadlec J, Kaveh K, Chatterjee K, Nowak MA. Evolutionary dynamics of mutants that modify population structure. <i>Journal of the Royal Society, Interface</i>. 2023;20(208). doi:<a href=\"https://doi.org/10.1098/rsif.2023.0355\">10.1098/rsif.2023.0355</a>","ieee":"J. Tkadlec, K. Kaveh, K. Chatterjee, and M. A. Nowak, “Evolutionary dynamics of mutants that modify population structure,” <i>Journal of the Royal Society, Interface</i>, vol. 20, no. 208. The Royal Society, 2023."},"_id":"14657","external_id":{"isi":["001124419300002"],"pmid":["38016637"]},"acknowledgement":"K.C. acknowledges support from the ERC CoG 863818(ForM-SMArt). J.T. is supported by Center for Foundations ofModern Computer Science (Charles Univ. project UNCE/SCI/004).","ec_funded":1,"date_created":"2023-12-10T23:00:58Z","article_type":"original","doi":"10.1098/rsif.2023.0355","date_updated":"2025-09-09T13:37:01Z","scopus_import":"1","abstract":[{"lang":"eng","text":"Natural selection is usually studied between mutants that differ in reproductive rate, but are subject to the same population structure. Here we explore how natural selection acts on mutants that have the same reproductive rate, but different population structures. In our framework, population structure is given by a graph that specifies where offspring can disperse. The invading mutant disperses offspring on a different graph than the resident wild-type. We find that more densely connected dispersal graphs tend to increase the invader’s fixation probability, but the exact relationship between structure and fixation probability is subtle. We present three main results. First, we prove that if both invader and resident are on complete dispersal graphs, then removing a single edge in the invader’s dispersal graph reduces its fixation probability. Second, we show that for certain island models higher invader’s connectivity increases its fixation probability, but the magnitude of the effect depends on the exact layout of the connections. Third, we show that for lattices the effect of different connectivity is comparable to that of different fitness: for large population size, the invader’s fixation probability is either constant or exponentially small, depending on whether it is more or less connected than the resident."}],"type":"journal_article","publication_identifier":{"eissn":["1742-5662"]},"department":[{"_id":"KrCh"}],"month":"11","year":"2023","date_published":"2023-11-29T00:00:00Z","article_number":"20230355","project":[{"name":"Formal Methods for Stochastic Models: Algorithms and Applications","call_identifier":"H2020","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E","grant_number":"863818"}],"file":[{"content_type":"application/pdf","date_created":"2023-12-11T11:10:32Z","file_id":"14673","access_level":"open_access","checksum":"2eefab13127c7786dbd33303c482a004","success":1,"file_name":"2023_RoyalInterface_Tkadlec.pdf","relation":"main_file","creator":"dernst","file_size":1720243,"date_updated":"2023-12-11T11:10:32Z"}],"publisher":"The Royal Society","publication":"Journal of the Royal Society, Interface","day":"29","isi":1,"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ddc":["000","570"],"status":"public","oa":1,"pmid":1,"author":[{"full_name":"Tkadlec, Josef","first_name":"Josef","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","last_name":"Tkadlec","orcid":"0000-0002-1097-9684"},{"last_name":"Kaveh","first_name":"Kamran","full_name":"Kaveh, Kamran"},{"full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","last_name":"Chatterjee"},{"last_name":"Nowak","first_name":"Martin A.","full_name":"Nowak, Martin A."}],"has_accepted_license":"1","issue":"208","intvolume":"        20","title":"Evolutionary dynamics of mutants that modify population structure","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","language":[{"iso":"eng"}],"oa_version":"Published Version","volume":20,"quality_controlled":"1","file_date_updated":"2023-12-11T11:10:32Z","publication_status":"published"},{"day":"12","publication":"Physical Review Research","publisher":"American Physical Society","file":[{"date_updated":"2023-12-11T10:49:07Z","file_size":2362158,"creator":"dernst","relation":"main_file","file_name":"2023_PhysReviewResearch_Becker.pdf","success":1,"checksum":"ee31c0d0de5d1b65591990ae6705a601","access_level":"open_access","file_id":"14672","date_created":"2023-12-11T10:49:07Z","content_type":"application/pdf"}],"project":[{"grant_number":"101034413","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","call_identifier":"H2020","name":"IST-BRIDGE: International postdoctoral program"}],"article_number":"043039","date_published":"2023-10-12T00:00:00Z","year":"2023","month":"10","department":[{"_id":"MiLe"}],"publication_identifier":{"issn":["2643-1564"]},"type":"journal_article","abstract":[{"lang":"eng","text":"We investigate spin-charge separation of a spin-\r\n1\r\n2\r\n Fermi system confined in a triple well where multiple bands are occupied. We assume that our finite fermionic system is close to fully spin polarized while being doped by a hole and an impurity fermion with opposite spin. Our setup involves ferromagnetic couplings among the particles in different bands, leading to the development of strong spin-transport correlations in an intermediate interaction regime. Interactions are then strong enough to lift the degeneracy among singlet and triplet spin configurations in the well of the spin impurity but not strong enough to prohibit hole-induced magnetic excitations to the singlet state. Despite the strong spin-hole correlations, the system exhibits spin-charge deconfinement allowing for long-range entanglement of the spatial and spin degrees of freedom."}],"scopus_import":"1","date_updated":"2025-04-14T07:54:54Z","doi":"10.1103/PhysRevResearch.5.043039","article_type":"original","ec_funded":1,"external_id":{"arxiv":["2305.09529"]},"date_created":"2023-12-10T23:00:58Z","acknowledgement":"This work has been funded by the Cluster of Excellence “Advanced Imaging of Matter” of the Deutsche Forschungsgemeinschaft (DFG)-EXC 2056-Project ID No. 390715994. G.M.K. gratefully acknowledges funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101034413.","_id":"14658","citation":{"apa":"Becker, J. M., Koutentakis, G., &#38; Schmelcher, P. (2023). Spin-charge correlations in finite one-dimensional multiband Fermi systems. <i>Physical Review Research</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevResearch.5.043039\">https://doi.org/10.1103/PhysRevResearch.5.043039</a>","mla":"Becker, J. M., et al. “Spin-Charge Correlations in Finite One-Dimensional Multiband Fermi Systems.” <i>Physical Review Research</i>, vol. 5, no. 4, 043039, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevResearch.5.043039\">10.1103/PhysRevResearch.5.043039</a>.","ista":"Becker JM, Koutentakis G, Schmelcher P. 2023. Spin-charge correlations in finite one-dimensional multiband Fermi systems. Physical Review Research. 5(4), 043039.","chicago":"Becker, J. M., Georgios Koutentakis, and P. Schmelcher. “Spin-Charge Correlations in Finite One-Dimensional Multiband Fermi Systems.” <i>Physical Review Research</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevResearch.5.043039\">https://doi.org/10.1103/PhysRevResearch.5.043039</a>.","short":"J.M. Becker, G. Koutentakis, P. Schmelcher, Physical Review Research 5 (2023).","ieee":"J. M. Becker, G. Koutentakis, and P. Schmelcher, “Spin-charge correlations in finite one-dimensional multiband Fermi systems,” <i>Physical Review Research</i>, vol. 5, no. 4. American Physical Society, 2023.","ama":"Becker JM, Koutentakis G, Schmelcher P. Spin-charge correlations in finite one-dimensional multiband Fermi systems. <i>Physical Review Research</i>. 2023;5(4). doi:<a href=\"https://doi.org/10.1103/PhysRevResearch.5.043039\">10.1103/PhysRevResearch.5.043039</a>"},"article_processing_charge":"Yes","publication_status":"published","file_date_updated":"2023-12-11T10:49:07Z","quality_controlled":"1","volume":5,"oa_version":"Published Version","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","arxiv":1,"title":"Spin-charge correlations in finite one-dimensional multiband Fermi systems","corr_author":"1","intvolume":"         5","issue":"4","has_accepted_license":"1","author":[{"last_name":"Becker","full_name":"Becker, J. M.","first_name":"J. M."},{"last_name":"Koutentakis","id":"d7b23d3a-9e21-11ec-b482-f76739596b95","first_name":"Georgios","full_name":"Koutentakis, Georgios"},{"first_name":"P.","full_name":"Schmelcher, P.","last_name":"Schmelcher"}],"oa":1,"ddc":["530"],"status":"public","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"}},{"abstract":[{"lang":"eng","text":"Understanding the response of Himalayan glaciers to global warming is vital because of their role as a water source for the Asian subcontinent. However, great uncertainties still exist on the climate drivers of past and present glacier changes across scales. Here, we analyse continuous hourly climate station data from a glacierized elevation (Pyramid station, Mount Everest) since 1994 together with other ground observations and climate reanalysis. We show that a decrease in maximum air temperature and precipitation occurred during the last three decades at Pyramid in response to global warming. Reanalysis data suggest a broader occurrence of this effect in the glacierized areas of the Himalaya. We hypothesize that the counterintuitive cooling is caused by enhanced sensible heat exchange and the associated increase in glacier katabatic wind, which draws cool air downward from higher elevations. The stronger katabatic winds have also lowered the elevation of local wind convergence, thereby diminishing precipitation in glacial areas and negatively affecting glacier mass balance. This local cooling may have partially preserved glaciers from melting and could help protect the periglacial environment."}],"date_updated":"2025-09-09T13:36:16Z","scopus_import":"1","related_material":{"link":[{"relation":"press_release","description":"News on ISTA website","url":"https://ista.ac.at/en/news/wind-of-climate-change/"}]},"external_id":{"isi":["001112839700003"]},"date_created":"2023-12-10T23:00:58Z","acknowledgement":"This work was carried out within the framework of the EV-K2-CNR and Nepal Academy of Science and Technology. K.Y. was supported by the Second Tibetan Plateau Scientific Expedition and Research Program (grant no. 2019QZKK0206). N.C. was supported by the project NODES, which has received funding from the MUR–M4C2 1.5 of PNRR funded by the European Union - NextGeneration EU (Grant agreement no. ECS00000036). T.E.S. has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant no. 101026058. F.P. has received funding from the European Research Council under the European Union’s Horizon 2020 research and innovation programme grant no. 772751, RAVEN, ‘Rapid mass losses of debris-covered glaciers in High Mountain Asia’ and has been supported by the SNSF grant ‘High-elevation precipitation in High Mountain Asia’ (grant no. 183633). A.A. was supported by the European Union’s Horizon 2020 research and innovation program under grant agreement no. 101004156 (CONFESS project) and by the European Union’s Horizon Europe research and innovation program under grant agreement no. 101081193 (OptimESM project). We thank H. Wehrli for valuable comments and suggestions and J. Giannitrapani for the graphic support. We thank A. Da Polenza and K. Bista of EV-K2-CNR for believing that studying the high elevations is relevant for the whole globe.","article_type":"original","doi":"10.1038/s41561-023-01331-y","article_processing_charge":"Yes (in subscription journal)","citation":{"apa":"Salerno, F., Guyennon, N., Yang, K., Shaw, T., Lin, C., Colombo, N., … Pellicciotti, F. (2023). Local cooling and drying induced by Himalayan glaciers under global warming. <i>Nature Geoscience</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41561-023-01331-y\">https://doi.org/10.1038/s41561-023-01331-y</a>","ista":"Salerno F, Guyennon N, Yang K, Shaw T, Lin C, Colombo N, Romano E, Gruber S, Bolch T, Alessandri A, Cristofanelli P, Putero D, Diolaiuti G, Tartari G, Verza G, Thakuri S, Balsamo G, Miles ES, Pellicciotti F. 2023. Local cooling and drying induced by Himalayan glaciers under global warming. Nature Geoscience. 16, 1120–1127.","mla":"Salerno, Franco, et al. “Local Cooling and Drying Induced by Himalayan Glaciers under Global Warming.” <i>Nature Geoscience</i>, vol. 16, Springer Nature, 2023, pp. 1120–27, doi:<a href=\"https://doi.org/10.1038/s41561-023-01331-y\">10.1038/s41561-023-01331-y</a>.","ieee":"F. Salerno <i>et al.</i>, “Local cooling and drying induced by Himalayan glaciers under global warming,” <i>Nature Geoscience</i>, vol. 16. Springer Nature, pp. 1120–1127, 2023.","ama":"Salerno F, Guyennon N, Yang K, et al. Local cooling and drying induced by Himalayan glaciers under global warming. <i>Nature Geoscience</i>. 2023;16:1120-1127. doi:<a href=\"https://doi.org/10.1038/s41561-023-01331-y\">10.1038/s41561-023-01331-y</a>","chicago":"Salerno, Franco, Nicolas Guyennon, Kun Yang, Thomas Shaw, Changgui Lin, Nicola Colombo, Emanuele Romano, et al. “Local Cooling and Drying Induced by Himalayan Glaciers under Global Warming.” <i>Nature Geoscience</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41561-023-01331-y\">https://doi.org/10.1038/s41561-023-01331-y</a>.","short":"F. Salerno, N. Guyennon, K. Yang, T. Shaw, C. Lin, N. Colombo, E. Romano, S. Gruber, T. Bolch, A. Alessandri, P. Cristofanelli, D. Putero, G. Diolaiuti, G. Tartari, G. Verza, S. Thakuri, G. Balsamo, E.S. Miles, F. Pellicciotti, Nature Geoscience 16 (2023) 1120–1127."},"_id":"14659","day":"04","date_published":"2023-12-04T00:00:00Z","file":[{"content_type":"application/pdf","date_created":"2023-12-11T10:11:19Z","file_id":"14671","access_level":"open_access","checksum":"d5ae0d17069eebc6f454c8608cf83e21","success":1,"file_name":"2023_NatureGeoscience_Salerno.pdf","relation":"main_file","creator":"dernst","file_size":6072603,"date_updated":"2023-12-11T10:11:19Z"}],"publisher":"Springer Nature","publication":"Nature Geoscience","department":[{"_id":"FrPe"}],"month":"12","year":"2023","type":"journal_article","OA_type":"hybrid","publication_identifier":{"issn":["1752-0894"],"eissn":["1752-0908"]},"has_accepted_license":"1","intvolume":"        16","author":[{"full_name":"Salerno, Franco","first_name":"Franco","last_name":"Salerno"},{"last_name":"Guyennon","first_name":"Nicolas","full_name":"Guyennon, Nicolas"},{"last_name":"Yang","full_name":"Yang, Kun","first_name":"Kun"},{"full_name":"Shaw, Thomas","first_name":"Thomas","id":"3caa3f91-1f03-11ee-96ce-e0e553054d6e","last_name":"Shaw","orcid":"0000-0001-7640-6152"},{"full_name":"Lin, Changgui","first_name":"Changgui","last_name":"Lin"},{"full_name":"Colombo, Nicola","first_name":"Nicola","last_name":"Colombo"},{"last_name":"Romano","full_name":"Romano, Emanuele","first_name":"Emanuele"},{"first_name":"Stephan","full_name":"Gruber, Stephan","last_name":"Gruber"},{"last_name":"Bolch","first_name":"Tobias","full_name":"Bolch, Tobias"},{"last_name":"Alessandri","first_name":"Andrea","full_name":"Alessandri, Andrea"},{"last_name":"Cristofanelli","first_name":"Paolo","full_name":"Cristofanelli, Paolo"},{"first_name":"Davide","full_name":"Putero, Davide","last_name":"Putero"},{"full_name":"Diolaiuti, Guglielmina","first_name":"Guglielmina","last_name":"Diolaiuti"},{"last_name":"Tartari","first_name":"Gianni","full_name":"Tartari, Gianni"},{"first_name":"Gianpietro","full_name":"Verza, Gianpietro","last_name":"Verza"},{"last_name":"Thakuri","first_name":"Sudeep","full_name":"Thakuri, Sudeep"},{"last_name":"Balsamo","first_name":"Gianpaolo","full_name":"Balsamo, Gianpaolo"},{"full_name":"Miles, Evan S.","first_name":"Evan S.","last_name":"Miles"},{"first_name":"Francesca","full_name":"Pellicciotti, Francesca","orcid":"0000-0002-5554-8087","last_name":"Pellicciotti","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70"}],"APC_amount":"4800 EUR","oa":1,"isi":1,"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"OA_place":"publisher","ddc":["550"],"status":"public","file_date_updated":"2023-12-11T10:11:19Z","publication_status":"published","quality_controlled":"1","oa_version":"Published Version","volume":16,"title":"Local cooling and drying induced by Himalayan glaciers under global warming","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","language":[{"iso":"eng"}],"page":"1120-1127"},{"day":"01","publisher":"Heldermann Verlag","publication":"Journal of Convex Analysis","date_published":"2023-01-01T00:00:00Z","month":"01","department":[{"_id":"JuFi"}],"year":"2023","type":"journal_article","publication_identifier":{"eissn":["2363-6394"],"issn":["0944-6532"]},"abstract":[{"lang":"eng","text":"This paper is concerned with equilibrium configurations of one-dimensional particle systems with non-convex nearest-neighbour and next-to-nearest-neighbour interactions and its passage to the continuum. The goal is to derive compactness results for a Γ-development of the energy with the novelty that external forces are allowed. In particular, the forces may depend on Lagrangian or Eulerian coordinates and thus may model dead as well as live loads. Our result is based on a new technique for deriving compactness results which are required for calculating the first-order Γ-limit in the presence of external forces: instead of comparing a configuration of n atoms to a global minimizer of the Γ-limit, we compare the configuration to a minimizer in some subclass of functions which in some sense are \"close to\" the configuration. The paper is complemented with the study of the minimizers of the Γ-limit."}],"scopus_import":"1","date_updated":"2024-10-09T21:07:35Z","external_id":{"isi":["001115503400013"],"arxiv":["1811.09857"]},"date_created":"2023-12-10T23:00:59Z","article_type":"original","citation":{"ama":"Carioni M, Fischer JL, Schlömerkemper A. External forces in the continuum limit of discrete systems with non-convex interaction potentials: Compactness for a Γ-development. <i>Journal of Convex Analysis</i>. 2023;30(1):217-247.","ieee":"M. Carioni, J. L. Fischer, and A. Schlömerkemper, “External forces in the continuum limit of discrete systems with non-convex interaction potentials: Compactness for a Γ-development,” <i>Journal of Convex Analysis</i>, vol. 30, no. 1. Heldermann Verlag, pp. 217–247, 2023.","short":"M. Carioni, J.L. Fischer, A. Schlömerkemper, Journal of Convex Analysis 30 (2023) 217–247.","chicago":"Carioni, Marcello, Julian L Fischer, and Anja Schlömerkemper. “External Forces in the Continuum Limit of Discrete Systems with Non-Convex Interaction Potentials: Compactness for a Γ-Development.” <i>Journal of Convex Analysis</i>. Heldermann Verlag, 2023.","ista":"Carioni M, Fischer JL, Schlömerkemper A. 2023. External forces in the continuum limit of discrete systems with non-convex interaction potentials: Compactness for a Γ-development. Journal of Convex Analysis. 30(1), 217–247.","mla":"Carioni, Marcello, et al. “External Forces in the Continuum Limit of Discrete Systems with Non-Convex Interaction Potentials: Compactness for a Γ-Development.” <i>Journal of Convex Analysis</i>, vol. 30, no. 1, Heldermann Verlag, 2023, pp. 217–47.","apa":"Carioni, M., Fischer, J. L., &#38; Schlömerkemper, A. (2023). External forces in the continuum limit of discrete systems with non-convex interaction potentials: Compactness for a Γ-development. <i>Journal of Convex Analysis</i>. Heldermann Verlag."},"main_file_link":[{"url":"https://arxiv.org/abs/1811.09857","open_access":"1"}],"_id":"14661","article_processing_charge":"No","publication_status":"published","quality_controlled":"1","volume":30,"oa_version":"Preprint","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","page":"217-247","language":[{"iso":"eng"}],"title":"External forces in the continuum limit of discrete systems with non-convex interaction potentials: Compactness for a Γ-development","corr_author":"1","arxiv":1,"issue":"1","intvolume":"        30","author":[{"full_name":"Carioni, Marcello","first_name":"Marcello","last_name":"Carioni"},{"first_name":"Julian L","full_name":"Fischer, Julian L","last_name":"Fischer","orcid":"0000-0002-0479-558X","id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Schlömerkemper, Anja","first_name":"Anja","last_name":"Schlömerkemper"}],"oa":1,"status":"public","isi":1},{"day":"25","publisher":"EMS Press","file":[{"file_name":"2023_JST_Seiringer.pdf","creator":"dernst","relation":"main_file","date_updated":"2023-12-11T12:03:12Z","file_size":201513,"content_type":"application/pdf","file_id":"14677","date_created":"2023-12-11T12:03:12Z","checksum":"9ce96ca87d56ea9a70d2eb9a32839f8d","access_level":"open_access","success":1}],"publication":"Journal of Spectral Theory","date_published":"2023-11-25T00:00:00Z","month":"11","department":[{"_id":"RoSe"}],"year":"2023","OA_type":"diamond","type":"journal_article","publication_identifier":{"issn":["1664-039X"],"eissn":["1664-0403"]},"abstract":[{"lang":"eng","text":"We consider a class of polaron models, including the Fröhlich model, at zero total momentum, and show that at sufficiently weak coupling there are no excited eigenvalues below the essential spectrum."}],"scopus_import":"1","date_updated":"2025-09-09T13:40:33Z","doi":"10.4171/JST/469","external_id":{"isi":["001127467700008"],"arxiv":["2210.17123"]},"date_created":"2023-12-10T23:00:59Z","article_type":"original","citation":{"apa":"Seiringer, R. (2023). Absence of excited eigenvalues for Fröhlich type polaron models at weak coupling. <i>Journal of Spectral Theory</i>. EMS Press. <a href=\"https://doi.org/10.4171/JST/469\">https://doi.org/10.4171/JST/469</a>","chicago":"Seiringer, Robert. “Absence of Excited Eigenvalues for Fröhlich Type Polaron Models at Weak Coupling.” <i>Journal of Spectral Theory</i>. EMS Press, 2023. <a href=\"https://doi.org/10.4171/JST/469\">https://doi.org/10.4171/JST/469</a>.","ama":"Seiringer R. Absence of excited eigenvalues for Fröhlich type polaron models at weak coupling. <i>Journal of Spectral Theory</i>. 2023;13(3):1045-1055. doi:<a href=\"https://doi.org/10.4171/JST/469\">10.4171/JST/469</a>","short":"R. Seiringer, Journal of Spectral Theory 13 (2023) 1045–1055.","ieee":"R. Seiringer, “Absence of excited eigenvalues for Fröhlich type polaron models at weak coupling,” <i>Journal of Spectral Theory</i>, vol. 13, no. 3. EMS Press, pp. 1045–1055, 2023.","mla":"Seiringer, Robert. “Absence of Excited Eigenvalues for Fröhlich Type Polaron Models at Weak Coupling.” <i>Journal of Spectral Theory</i>, vol. 13, no. 3, EMS Press, 2023, pp. 1045–55, doi:<a href=\"https://doi.org/10.4171/JST/469\">10.4171/JST/469</a>.","ista":"Seiringer R. 2023. Absence of excited eigenvalues for Fröhlich type polaron models at weak coupling. Journal of Spectral Theory. 13(3), 1045–1055."},"_id":"14662","article_processing_charge":"Yes","file_date_updated":"2023-12-11T12:03:12Z","publication_status":"published","quality_controlled":"1","DOAJ_listed":"1","volume":13,"oa_version":"Published Version","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","page":"1045-1055","language":[{"iso":"eng"}],"title":"Absence of excited eigenvalues for Fröhlich type polaron models at weak coupling","corr_author":"1","arxiv":1,"issue":"3","intvolume":"        13","has_accepted_license":"1","author":[{"id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","orcid":"0000-0002-6781-0521","full_name":"Seiringer, Robert","first_name":"Robert"}],"oa":1,"ddc":["510"],"status":"public","isi":1,"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"OA_place":"publisher"},{"date_published":"2023-11-06T00:00:00Z","publication":"ACS Catalysis","publisher":"American Chemical Society","file":[{"relation":"main_file","creator":"dernst","date_updated":"2023-12-11T11:55:09Z","file_size":14813812,"file_name":"2023_ACSCatalysis_.pdf","access_level":"open_access","checksum":"a97c771077af71ddfb2249e34530895c","success":1,"content_type":"application/pdf","date_created":"2023-12-11T11:55:09Z","file_id":"14676"}],"day":"06","publication_identifier":{"eissn":["2155-5435"]},"type":"journal_article","year":"2023","month":"11","department":[{"_id":"MaIb"}],"date_updated":"2025-09-09T13:39:57Z","scopus_import":"1","abstract":[{"text":"As a bottleneck in the direct synthesis of hydrogen peroxide, the development of an efficient palladium-based catalyst has garnered great attention. However, elusive active centers and reaction mechanism issues inhibit further optimization of its performance. In this work, advanced microkinetic modeling with the adsorbate–adsorbate interaction and nanoparticle size effect based on first-principles calculations is developed. A full mechanism uncovering the significance of adsorbate–adsorbate interaction is determined on Pd nanoparticles. We demonstrate unambiguously that Pd(100) with main coverage species of O2 and H is beneficial to H2O2 production, being consistent with experimental operando observation, while H2O forms on Pd(111) covered by O species and Pd(211) covered by O and OH species. Kinetic analyses further enable quantitative estimation of the influence of temperature, pressure, and particle size. Large-size Pd nanoparticles are found to achieve a high H2O2 reaction rate when the operating conditions are moderate temperature and higher oxygen partial pressure. We reveal that specific facets of the Pd nanoparticles are crucial factors for their selectivity and activity. Consistent with the experiment, the production of H2O2 is discovered to be more favorable on Pd nanoparticles containing Pd(100) facets. The ratio of H2/O2 induces substantial variations in the coverage of intermediates of O2 and H on Pd(100), resulting in a change in product selectivity.","lang":"eng"}],"article_processing_charge":"Yes (in subscription journal)","_id":"14663","citation":{"apa":"Zhao, J., Yao, Z., Bunting, R., Hu, P., &#38; Wang, J. (2023). Microkinetic modeling with size-dependent and adsorbate-adsorbate interactions for the direct synthesis of H₂O₂ over Pd nanoparticles. <i>ACS Catalysis</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acscatal.3c03893\">https://doi.org/10.1021/acscatal.3c03893</a>","ama":"Zhao J, Yao Z, Bunting R, Hu P, Wang J. Microkinetic modeling with size-dependent and adsorbate-adsorbate interactions for the direct synthesis of H₂O₂ over Pd nanoparticles. <i>ACS Catalysis</i>. 2023;13(22):15054-15073. doi:<a href=\"https://doi.org/10.1021/acscatal.3c03893\">10.1021/acscatal.3c03893</a>","chicago":"Zhao, Jinyan, Zihao Yao, Rhys Bunting, P. Hu, and Jianguo Wang. “Microkinetic Modeling with Size-Dependent and Adsorbate-Adsorbate Interactions for the Direct Synthesis of H₂O₂ over Pd Nanoparticles.” <i>ACS Catalysis</i>. American Chemical Society, 2023. <a href=\"https://doi.org/10.1021/acscatal.3c03893\">https://doi.org/10.1021/acscatal.3c03893</a>.","short":"J. Zhao, Z. Yao, R. Bunting, P. Hu, J. Wang, ACS Catalysis 13 (2023) 15054–15073.","ieee":"J. Zhao, Z. Yao, R. Bunting, P. Hu, and J. Wang, “Microkinetic modeling with size-dependent and adsorbate-adsorbate interactions for the direct synthesis of H₂O₂ over Pd nanoparticles,” <i>ACS Catalysis</i>, vol. 13, no. 22. American Chemical Society, pp. 15054–15073, 2023.","mla":"Zhao, Jinyan, et al. “Microkinetic Modeling with Size-Dependent and Adsorbate-Adsorbate Interactions for the Direct Synthesis of H₂O₂ over Pd Nanoparticles.” <i>ACS Catalysis</i>, vol. 13, no. 22, American Chemical Society, 2023, pp. 15054–73, doi:<a href=\"https://doi.org/10.1021/acscatal.3c03893\">10.1021/acscatal.3c03893</a>.","ista":"Zhao J, Yao Z, Bunting R, Hu P, Wang J. 2023. Microkinetic modeling with size-dependent and adsorbate-adsorbate interactions for the direct synthesis of H₂O₂ over Pd nanoparticles. ACS Catalysis. 13(22), 15054–15073."},"article_type":"original","acknowledgement":"The authors acknowledge the financial support from the National Natural Science Foundation of China (22008211, 92045303, U21A20298), the National Key Research and Development Project of China (2021YFA1500900, 2022YFE0113800), and Zhejiang Innovation Team (2017R5203).","date_created":"2023-12-10T23:00:59Z","external_id":{"isi":["001140495600001"]},"doi":"10.1021/acscatal.3c03893","quality_controlled":"1","publication_status":"published","file_date_updated":"2023-12-11T11:55:09Z","title":"Microkinetic modeling with size-dependent and adsorbate-adsorbate interactions for the direct synthesis of H₂O₂ over Pd nanoparticles","corr_author":"1","language":[{"iso":"eng"}],"page":"15054-15073","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa_version":"Published Version","volume":13,"author":[{"last_name":"Zhao","first_name":"Jinyan","full_name":"Zhao, Jinyan"},{"last_name":"Yao","full_name":"Yao, Zihao","first_name":"Zihao"},{"full_name":"Bunting, Rhys","first_name":"Rhys","id":"91deeae8-1207-11ec-b130-c194ad5b50c6","orcid":"0000-0001-6928-074X","last_name":"Bunting"},{"first_name":"P.","full_name":"Hu, P.","last_name":"Hu"},{"full_name":"Wang, Jianguo","first_name":"Jianguo","last_name":"Wang"}],"has_accepted_license":"1","issue":"22","intvolume":"        13","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"isi":1,"status":"public","ddc":["540"],"oa":1},{"article_processing_charge":"Yes (in subscription journal)","citation":{"ieee":"K. Hema <i>et al.</i>, “Guest encapsulation alters the thermodynamic landscape of a coordination host,” <i>Journal of the American Chemical Society</i>, vol. 145, no. 45. American Chemical Society, pp. 24755–24764, 2023.","ama":"Hema K, Grommet AB, Białek MJ, et al. Guest encapsulation alters the thermodynamic landscape of a coordination host. <i>Journal of the American Chemical Society</i>. 2023;145(45):24755-24764. doi:<a href=\"https://doi.org/10.1021/jacs.3c08666\">10.1021/jacs.3c08666</a>","short":"K. Hema, A.B. Grommet, M.J. Białek, J. Wang, L. Schneider, C. Drechsler, O. Yanshyna, Y. Diskin-Posner, G.H. Clever, R. Klajn, Journal of the American Chemical Society 145 (2023) 24755–24764.","chicago":"Hema, Kuntrapakam, Angela B. Grommet, Michał J. Białek, Jinhua Wang, Laura Schneider, Christoph Drechsler, Oksana Yanshyna, Yael Diskin-Posner, Guido H. Clever, and Rafal Klajn. “Guest Encapsulation Alters the Thermodynamic Landscape of a Coordination Host.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2023. <a href=\"https://doi.org/10.1021/jacs.3c08666\">https://doi.org/10.1021/jacs.3c08666</a>.","mla":"Hema, Kuntrapakam, et al. “Guest Encapsulation Alters the Thermodynamic Landscape of a Coordination Host.” <i>Journal of the American Chemical Society</i>, vol. 145, no. 45, American Chemical Society, 2023, pp. 24755–64, doi:<a href=\"https://doi.org/10.1021/jacs.3c08666\">10.1021/jacs.3c08666</a>.","ista":"Hema K, Grommet AB, Białek MJ, Wang J, Schneider L, Drechsler C, Yanshyna O, Diskin-Posner Y, Clever GH, Klajn R. 2023. Guest encapsulation alters the thermodynamic landscape of a coordination host. Journal of the American Chemical Society. 145(45), 24755–24764.","apa":"Hema, K., Grommet, A. B., Białek, M. J., Wang, J., Schneider, L., Drechsler, C., … Klajn, R. (2023). Guest encapsulation alters the thermodynamic landscape of a coordination host. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/jacs.3c08666\">https://doi.org/10.1021/jacs.3c08666</a>"},"_id":"14664","date_created":"2023-12-10T23:00:59Z","acknowledgement":"We acknowledge funding from the European Union’s Horizon 2020 Research and Innovation Program under the European Research Council (grant agreement 820008).We also thank the Deutsche Forschungsgemeinschaft (DFG) for support through priority program SPP1807(CL489/3-2) and RESOLV Cluster of Excellence EXC2033 (project number 390677874). A.B.G. acknowledges funding from the Zuckerman STEM Leadership Program. DFT calculations were carried out using resources provided by the Wrocław Center for Networking and Supercomputing, grant 329.","external_id":{"isi":["001123577300001"],"pmid":["37917939"]},"article_type":"original","doi":"10.1021/jacs.3c08666","date_updated":"2025-09-09T13:39:03Z","scopus_import":"1","abstract":[{"lang":"eng","text":"The architecture of self-assembled host molecules can profoundly affect the properties of the encapsulated guests. For example, a rigid cage with small windows can efficiently protect its contents from the environment; in contrast, tube-shaped, flexible hosts with large openings and an easily accessible cavity are ideally suited for catalysis. Here, we report a “Janus” nature of a Pd6L4 coordination host previously reported to exist exclusively as a tube isomer (T). We show that upon encapsulating various tetrahedrally shaped guests, T can reconfigure into a cage-shaped host (C) in quantitative yield. Extracting the guest affords empty C, which is metastable and spontaneously relaxes to T, and the T⇄C interconversion can be repeated for multiple cycles. Reversible toggling between two vastly different isomers paves the way toward controlling functional properties of coordination hosts “on demand”."}],"type":"journal_article","publication_identifier":{"eissn":["1520-5126"],"issn":["0002-7863"]},"department":[{"_id":"RaKl"}],"month":"11","year":"2023","date_published":"2023-11-02T00:00:00Z","publisher":"American Chemical Society","file":[{"creator":"dernst","relation":"main_file","file_size":4304472,"date_updated":"2023-12-11T11:44:54Z","file_name":"2023_JACS_Hema.pdf","checksum":"a1f37df6b83f88f51ba64468ce0c1589","access_level":"open_access","success":1,"content_type":"application/pdf","file_id":"14675","date_created":"2023-12-11T11:44:54Z"}],"publication":"Journal of the American Chemical Society","day":"02","isi":1,"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"status":"public","ddc":["540"],"oa":1,"pmid":1,"author":[{"full_name":"Hema, Kuntrapakam","first_name":"Kuntrapakam","last_name":"Hema"},{"last_name":"Grommet","first_name":"Angela B.","full_name":"Grommet, Angela B."},{"full_name":"Białek, Michał J.","first_name":"Michał J.","last_name":"Białek"},{"last_name":"Wang","first_name":"Jinhua","full_name":"Wang, Jinhua"},{"last_name":"Schneider","first_name":"Laura","full_name":"Schneider, Laura"},{"last_name":"Drechsler","full_name":"Drechsler, Christoph","first_name":"Christoph"},{"last_name":"Yanshyna","first_name":"Oksana","full_name":"Yanshyna, Oksana"},{"last_name":"Diskin-Posner","full_name":"Diskin-Posner, Yael","first_name":"Yael"},{"last_name":"Clever","first_name":"Guido H.","full_name":"Clever, Guido H."},{"full_name":"Klajn, Rafal","first_name":"Rafal","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","last_name":"Klajn"}],"has_accepted_license":"1","intvolume":"       145","issue":"45","title":"Guest encapsulation alters the thermodynamic landscape of a coordination host","corr_author":"1","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","page":"24755-24764","language":[{"iso":"eng"}],"oa_version":"Published Version","volume":145,"quality_controlled":"1","file_date_updated":"2023-12-11T11:44:54Z","publication_status":"published"},{"issue":"4","intvolume":"        59","author":[{"orcid":"0000-0001-5366-9603","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","first_name":"László","full_name":"Erdös, László"},{"full_name":"Ji, Hong Chang","first_name":"Hong Chang","id":"dd216c0a-c1f9-11eb-beaf-e9ea9d2de76d","last_name":"Ji"}],"oa":1,"isi":1,"status":"public","publication_status":"published","quality_controlled":"1","oa_version":"Preprint","volume":59,"arxiv":1,"title":"Functional CLT for non-Hermitian random matrices","corr_author":"1","language":[{"iso":"eng"}],"page":"2083-2105","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","abstract":[{"text":"For large dimensional non-Hermitian random matrices X with real or complex independent, identically distributed, centered entries, we consider the fluctuations of f (X) as a matrix where f is an analytic function around the spectrum of X. We prove that for a generic bounded square matrix A, the quantity Tr f (X)A exhibits Gaussian fluctuations as the matrix size grows to infinity, which consists of two independent modes corresponding to the tracial and traceless parts of A. We find a new formula for the variance of the traceless part that involves the Frobenius norm of A and the L2-norm of f on the boundary of the limiting spectrum. ","lang":"eng"},{"text":"On étudie les fluctuations de f (X), où X est une matrice aléatoire non-hermitienne de grande taille à coefficients i.i.d. (réels ou complexes), et f une fonction analytique sur un domaine qui contient le spectre de X. On prouve que, pour une matrice carrée générique et bornée A, les fluctuations de la quantité tr f (X)A sont asymptotiquement gaussiennes et comportent deux modes indépendants, correspondant aux composantes traciale et de trace nulle de A. Une nouvelle formule est établie pour la variance de la composante de trace nulle, qui fait intervenir la norme de Frobenius de A et la norme L2 de f sur la frontière du spectre limite.","lang":"fre"}],"date_updated":"2025-09-09T13:41:08Z","scopus_import":"1","article_type":"original","date_created":"2023-12-10T23:01:00Z","ec_funded":1,"external_id":{"arxiv":["2112.11382"],"isi":["001098456400010"]},"acknowledgement":"The first author was partially supported by ERC Advanced Grant “RMTBeyond” No. 101020331. The second author was supported by ERC Advanced Grant “RMTBeyond” No. 101020331.\r\nThe authors are grateful to the anonymous referees and associated editor for carefully reading this paper and providing helpful comments that improved the quality of the article. Also the authors would like to thank Peter Forrester for pointing out the reference [12] that was absent in the previous version of the manuscript.","doi":"10.1214/22-AIHP1304","article_processing_charge":"No","_id":"14667","citation":{"chicago":"Erdös, László, and Hong Chang Ji. “Functional CLT for Non-Hermitian Random Matrices.” <i>Annales de l’institut Henri Poincare (B) Probability and Statistics</i>. Institute of Mathematical Statistics, 2023. <a href=\"https://doi.org/10.1214/22-AIHP1304\">https://doi.org/10.1214/22-AIHP1304</a>.","short":"L. Erdös, H.C. Ji, Annales de l’institut Henri Poincare (B) Probability and Statistics 59 (2023) 2083–2105.","ieee":"L. Erdös and H. C. Ji, “Functional CLT for non-Hermitian random matrices,” <i>Annales de l’institut Henri Poincare (B) Probability and Statistics</i>, vol. 59, no. 4. Institute of Mathematical Statistics, pp. 2083–2105, 2023.","ama":"Erdös L, Ji HC. Functional CLT for non-Hermitian random matrices. <i>Annales de l’institut Henri Poincare (B) Probability and Statistics</i>. 2023;59(4):2083-2105. doi:<a href=\"https://doi.org/10.1214/22-AIHP1304\">10.1214/22-AIHP1304</a>","ista":"Erdös L, Ji HC. 2023. Functional CLT for non-Hermitian random matrices. Annales de l’institut Henri Poincare (B) Probability and Statistics. 59(4), 2083–2105.","mla":"Erdös, László, and Hong Chang Ji. “Functional CLT for Non-Hermitian Random Matrices.” <i>Annales de l’institut Henri Poincare (B) Probability and Statistics</i>, vol. 59, no. 4, Institute of Mathematical Statistics, 2023, pp. 2083–105, doi:<a href=\"https://doi.org/10.1214/22-AIHP1304\">10.1214/22-AIHP1304</a>.","apa":"Erdös, L., &#38; Ji, H. C. (2023). Functional CLT for non-Hermitian random matrices. <i>Annales de l’institut Henri Poincare (B) Probability and Statistics</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/22-AIHP1304\">https://doi.org/10.1214/22-AIHP1304</a>"},"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2112.11382","open_access":"1"}],"day":"01","date_published":"2023-11-01T00:00:00Z","project":[{"name":"Random matrices beyond Wigner-Dyson-Mehta","_id":"62796744-2b32-11ec-9570-940b20777f1d","call_identifier":"H2020","grant_number":"101020331"}],"publication":"Annales de l'institut Henri Poincare (B) Probability and Statistics","publisher":"Institute of Mathematical Statistics","year":"2023","department":[{"_id":"LaEr"}],"month":"11","publication_identifier":{"issn":["0246-0203"]},"type":"journal_article"}]