[{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ama":"Schur FK. Research data of the publication “ArpC5 isoforms regulate Arp2/3 complex-dependent protrusion through differential Ena/VASP positioning.” 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14562\">10.15479/AT:ISTA:14562</a>","ieee":"F. K. Schur, “Research data of the publication ‘ArpC5 isoforms regulate Arp2/3 complex-dependent protrusion through differential Ena/VASP positioning.’” Institute of Science and Technology Austria, 2023.","ista":"Schur FK. 2023. Research data of the publication ‘ArpC5 isoforms regulate Arp2/3 complex-dependent protrusion through differential Ena/VASP positioning’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:14562\">10.15479/AT:ISTA:14562</a>.","mla":"Schur, Florian KM. <i>Research Data of the Publication “ArpC5 Isoforms Regulate Arp2/3 Complex-Dependent Protrusion through Differential Ena/VASP Positioning.”</i> Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14562\">10.15479/AT:ISTA:14562</a>.","apa":"Schur, F. K. (2023). Research data of the publication “ArpC5 isoforms regulate Arp2/3 complex-dependent protrusion through differential Ena/VASP positioning.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:14562\">https://doi.org/10.15479/AT:ISTA:14562</a>","chicago":"Schur, Florian KM. “Research Data of the Publication ‘ArpC5 Isoforms Regulate Arp2/3 Complex-Dependent Protrusion through Differential Ena/VASP Positioning.’” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:14562\">https://doi.org/10.15479/AT:ISTA:14562</a>.","short":"F.K. Schur, (2023)."},"file":[{"checksum":"e9bab797b44614f144a5b02d9636f8c3","relation":"main_file","content_type":"application/zip","file_size":1581687449,"file_id":"14570","creator":"fschur","access_level":"open_access","date_updated":"2023-11-20T10:27:17Z","success":1,"file_name":"Figure2.zip","date_created":"2023-11-20T10:27:17Z"},{"date_created":"2023-11-20T10:29:18Z","file_name":"SupplementaryFigure3.zip","success":1,"date_updated":"2023-11-20T10:29:18Z","access_level":"open_access","creator":"fschur","file_id":"14571","file_size":116088565,"content_type":"application/zip","relation":"main_file","checksum":"4efd388cccd03c549fc90f6e46d37006"},{"file_id":"14572","file_size":5154614201,"checksum":"bdeb232dc94d0c22a3f7e0d18189ce89","relation":"main_file","content_type":"application/zip","file_name":"Figure5.zip","date_created":"2023-11-20T10:44:39Z","access_level":"open_access","creator":"fschur","date_updated":"2023-11-20T10:44:39Z","success":1},{"access_level":"open_access","creator":"fschur","success":1,"date_updated":"2023-11-20T10:46:00Z","date_created":"2023-11-20T10:46:00Z","file_name":"SupplementaryFigure7.zip","checksum":"83aee17d621a05d865f68f39c8892d27","content_type":"application/zip","relation":"main_file","file_size":1277893286,"file_id":"14573"},{"content_type":"application/zip","relation":"main_file","checksum":"fb9beb6fe15c8dac6679dd02044d2ea6","file_id":"14574","file_size":228485124,"date_updated":"2023-11-20T10:46:08Z","success":1,"access_level":"open_access","creator":"fschur","date_created":"2023-11-20T10:46:08Z","file_name":"SupplementaryFigure9.zip"},{"file_size":1226788198,"file_id":"14575","checksum":"4f3644e5feabe4824486d56885bb79fe","content_type":"application/zip","relation":"main_file","date_created":"2023-11-20T10:46:32Z","file_name":"SupplementaryFigure10.zip","creator":"fschur","access_level":"open_access","success":1,"date_updated":"2023-11-20T10:46:32Z"},{"date_created":"2023-11-20T10:46:17Z","file_name":"SupplementaryFigure11.zip","success":1,"date_updated":"2023-11-20T10:46:17Z","access_level":"open_access","creator":"fschur","file_id":"14576","file_size":277577131,"content_type":"application/zip","relation":"main_file","checksum":"96167f722ed0ca78e30681cd1573b9d7"},{"success":1,"date_updated":"2023-11-20T10:46:29Z","access_level":"open_access","creator":"fschur","file_name":"SupplementaryFigure15.zip","date_created":"2023-11-20T10:46:29Z","relation":"main_file","content_type":"application/zip","checksum":"d1e03c9805c18cfbc2e9fdf38a9f556f","file_id":"14577","file_size":591483468},{"success":1,"date_updated":"2023-11-20T10:47:00Z","access_level":"open_access","creator":"fschur","file_name":"SupplementaryFigure17.zip","date_created":"2023-11-20T10:47:00Z","relation":"main_file","content_type":"application/zip","checksum":"4d437c04fdb3c1e699618063c4bd21c3","file_size":1709528579,"file_id":"14578"},{"file_size":1920765280,"file_id":"14581","content_type":"application/zip","relation":"main_file","checksum":"967b5378a4f16c43f490eae328afe50e","date_created":"2023-11-20T11:26:36Z","file_name":"SupplementaryFigure4.zip","date_updated":"2023-11-20T11:26:36Z","success":1,"access_level":"open_access","creator":"fschur"},{"date_created":"2023-11-20T11:38:12Z","file_name":"Figure1_partA.zip","access_level":"open_access","creator":"fschur","success":1,"date_updated":"2023-11-20T11:38:12Z","file_size":3013566196,"file_id":"14583","checksum":"11899986cf0b471d258fe168ee33a3ea","content_type":"application/zip","relation":"main_file"},{"file_name":"Figure1_partB.zip","date_created":"2023-11-20T11:43:23Z","creator":"fschur","access_level":"open_access","date_updated":"2023-11-20T11:43:23Z","success":1,"file_size":3250260203,"file_id":"14584","checksum":"c452afe1ab506d58d32e601d5b3878bb","relation":"main_file","content_type":"application/zip"},{"success":1,"date_updated":"2023-11-20T11:49:58Z","access_level":"open_access","creator":"fschur","file_name":"ReadMe.rtf","date_created":"2023-11-20T11:49:58Z","relation":"main_file","content_type":"text/rtf","checksum":"223c98eceecbe65dd268f4f363a620d8","file_id":"14585","file_size":1460}],"type":"research_data","acknowledgement":"We would like to thank K. von Peinen and B. Denker (Helmholtz Centre for Infection Research, Braunschweig, Germany) for experimental and technical assistance, respectively.\r\nFunding: This research was supported by the Scientific Service Units (SSUs) of ISTA through resources provided by Scientific Computing (SciComp), the Life Science Facility (LSF), the Imaging and Optics facility (IOF), and the Electron Microscopy Facility (EMF). We acknowledge support from ISTA and from the Austrian Science Fund (FWF) (P33367) to F.K.M.S., from the Research Training Group GRK2223 and the Helmholtz Society to K.R,. and from the Deutsche Forschungsgemeinschaft (DFG) to J.F. and K.R.","date_published":"2023-11-21T00:00:00Z","tmp":{"short":"CC BY-SA (4.0)","name":"Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","image":"/images/cc_by_sa.png"},"date_updated":"2025-04-23T08:46:21Z","title":"Research data of the publication \"ArpC5 isoforms regulate Arp2/3 complex-dependent protrusion through differential Ena/VASP positioning\"","project":[{"_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A","name":"Structure and isoform diversity of the Arp2/3 complex","grant_number":"P33367"}],"abstract":[{"text":"Regulation of the Arp2/3 complex is required for productive nucleation of branched actin networks. An emerging aspect of regulation is the incorporation of subunit isoforms into the Arp2/3 complex. Specifically, both ArpC5 subunit isoforms, ArpC5 and ArpC5L, have been reported to fine-tune nucleation activity and branch junction stability. We have combined reverse genetics and cellular structural biology to describe how ArpC5 and ArpC5L differentially affect cell migration. Both define the structural stability of ArpC1 in branch junctions and, in turn, by determining protrusion characteristics, affect protein dynamics and actin network ultrastructure. ArpC5 isoforms also affect the positioning of members of the Ena/Vasodilator-stimulated phosphoprotein (VASP) family of actin filament elongators, which mediate ArpC5 isoform–specific effects on the actin assembly level. Our results suggest that ArpC5 and Ena/VASP proteins are part of a signaling pathway enhancing cell migration.\r\n","lang":"eng"}],"corr_author":"1","year":"2023","contributor":[{"id":"404F5528-F248-11E8-B48F-1D18A9856A87","first_name":"Florian","last_name":"Fäßler","contributor_type":"researcher","orcid":"0000-0001-7149-769X"},{"first_name":"Manjunath","id":"305ab18b-dc7d-11ea-9b2f-b58195228ea2","contributor_type":"researcher","last_name":"Javoor"},{"first_name":"Julia","id":"3B12E2E6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3616-8580","contributor_type":"researcher","last_name":"Datler"},{"first_name":"Hermann","contributor_type":"researcher","last_name":"Döring"},{"id":"b9d234ba-9e33-11ed-95b6-cd561df280e6","first_name":"Florian","last_name":"Hofer","contributor_type":"researcher"},{"id":"38C393BE-F248-11E8-B48F-1D18A9856A87","first_name":"Georgi A","last_name":"Dimchev","orcid":"0000-0001-8370-6161","contributor_type":"researcher"},{"contributor_type":"researcher","last_name":"Hodirnau","first_name":"Victor-Valentin","id":"3661B498-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Jan","last_name":"Faix","contributor_type":"researcher"},{"last_name":"Rottner","contributor_type":"researcher","first_name":"Klemens"},{"last_name":"Schur","orcid":"0000-0003-4790-8078","contributor_type":"researcher","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","first_name":"Florian KM"}],"license":"https://creativecommons.org/licenses/by-sa/4.0/","day":"21","publisher":"Institute of Science and Technology Austria","department":[{"_id":"FlSc"}],"has_accepted_license":"1","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"ScienComp"},{"_id":"EM-Fac"}],"article_processing_charge":"No","doi":"10.15479/AT:ISTA:14562","related_material":{"record":[{"status":"public","id":"12334","relation":"used_in_publication"}]},"date_created":"2023-11-20T09:22:33Z","author":[{"id":"48AD8942-F248-11E8-B48F-1D18A9856A87","first_name":"Florian KM","last_name":"Schur","full_name":"Schur, Florian KM","orcid":"0000-0003-4790-8078"}],"month":"11","oa":1,"oa_version":"Published Version","status":"public","ddc":["570"],"file_date_updated":"2023-11-20T11:49:58Z","_id":"14562"},{"day":"01","issue":"11","article_type":"original","publisher":"American Geophysical Union","department":[{"_id":"CaMu"}],"article_processing_charge":"Yes","has_accepted_license":"1","year":"2023","language":[{"iso":"eng"}],"keyword":["General Earth and Planetary Sciences","Environmental Chemistry","Global and Planetary Change"],"license":"https://creativecommons.org/licenses/by-nc/4.0/","month":"11","oa":1,"article_number":"e2022MS003391","file_date_updated":"2023-11-20T11:29:16Z","_id":"14564","ddc":["550"],"oa_version":"Published Version","status":"public","intvolume":"        15","doi":"10.1029/2022ms003391","scopus_import":"1","volume":15,"date_created":"2023-11-20T09:18:21Z","author":[{"full_name":"Khouider, B.","last_name":"Khouider","first_name":"B."},{"orcid":"0000-0001-8602-3083","full_name":"GOSWAMI, BIDYUT B","last_name":"GOSWAMI","first_name":"BIDYUT B","id":"3a4ac09c-6d61-11ec-bf66-884cde66b64b"},{"first_name":"R.","last_name":"Phani","full_name":"Phani, R."},{"first_name":"A. J.","full_name":"Majda, A. J.","last_name":"Majda"}],"file":[{"file_size":6435697,"file_id":"14582","checksum":"e30329dd985559de0ddc7021ca7382b4","content_type":"application/pdf","relation":"main_file","date_created":"2023-11-20T11:29:16Z","file_name":"2023_JAMES_Khoulder.pdf","access_level":"open_access","creator":"dernst","success":1,"date_updated":"2023-11-20T11:29:16Z"}],"type":"journal_article","acknowledgement":"The research of B.K. is supported in part by a Discovery Grant from the Natural Sciences and Engineering Research Council of Canada (RGPIN-04246-2020). This research was conducted during the visits of P.M. Krishna to the Center for Prototype Climate Models at NYU Abu Dhabi and University of Victoria from November 2018 to June 2019 and July 2019 and October 2019, respectively. The authors are very grateful to the three anonymous reviewers who provided very thoughtful and constructive comments during the review process that helped greatly improve and shape the final version of the manuscript.","citation":{"short":"B. Khouider, B.B. GOSWAMI, R. Phani, A.J. Majda, Journal of Advances in Modeling Earth Systems 15 (2023).","apa":"Khouider, B., GOSWAMI, B. B., Phani, R., &#38; Majda, A. J. (2023). A shallow‐deep unified stochastic mass flux cumulus parameterization in the single column community climate model. <i>Journal of Advances in Modeling Earth Systems</i>. American Geophysical Union. <a href=\"https://doi.org/10.1029/2022ms003391\">https://doi.org/10.1029/2022ms003391</a>","chicago":"Khouider, B., BIDYUT B GOSWAMI, R. Phani, and A. J. Majda. “A Shallow‐deep Unified Stochastic Mass Flux Cumulus Parameterization in the Single Column Community Climate Model.” <i>Journal of Advances in Modeling Earth Systems</i>. American Geophysical Union, 2023. <a href=\"https://doi.org/10.1029/2022ms003391\">https://doi.org/10.1029/2022ms003391</a>.","ista":"Khouider B, GOSWAMI BB, Phani R, Majda AJ. 2023. A shallow‐deep unified stochastic mass flux cumulus parameterization in the single column community climate model. Journal of Advances in Modeling Earth Systems. 15(11), e2022MS003391.","mla":"Khouider, B., et al. “A Shallow‐deep Unified Stochastic Mass Flux Cumulus Parameterization in the Single Column Community Climate Model.” <i>Journal of Advances in Modeling Earth Systems</i>, vol. 15, no. 11, e2022MS003391, American Geophysical Union, 2023, doi:<a href=\"https://doi.org/10.1029/2022ms003391\">10.1029/2022ms003391</a>.","ama":"Khouider B, GOSWAMI BB, Phani R, Majda AJ. A shallow‐deep unified stochastic mass flux cumulus parameterization in the single column community climate model. <i>Journal of Advances in Modeling Earth Systems</i>. 2023;15(11). doi:<a href=\"https://doi.org/10.1029/2022ms003391\">10.1029/2022ms003391</a>","ieee":"B. Khouider, B. B. GOSWAMI, R. Phani, and A. J. Majda, “A shallow‐deep unified stochastic mass flux cumulus parameterization in the single column community climate model,” <i>Journal of Advances in Modeling Earth Systems</i>, vol. 15, no. 11. American Geophysical Union, 2023."},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication":"Journal of Advances in Modeling Earth Systems","publication_identifier":{"eissn":["1942-2466"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png"},"external_id":{"isi":["001106311000001"]},"date_published":"2023-11-01T00:00:00Z","isi":1,"title":"A shallow‐deep unified stochastic mass flux cumulus parameterization in the single column community climate model","publication_status":"published","date_updated":"2025-09-09T13:29:45Z","abstract":[{"text":"Cumulus parameterization (CP) in state‐of‐the‐art global climate models is based on the quasi‐equilibrium assumption (QEA), which views convection as the action of an ensemble of cumulus clouds, in a state of equilibrium with respect to a slowly varying atmospheric state. This view is not compatible with the organization and dynamical interactions across multiple scales of cloud systems in the tropics and progress in this research area was slow over decades despite the widely recognized major shortcomings. Novel ideas on how to represent key physical processes of moist convection‐large‐scale interaction to overcome the QEA have surged recently. The stochastic multicloud model (SMCM) CP in particular mimics the dynamical interactions of multiple cloud types that characterize organized tropical convection. Here, the SMCM is used to modify the Zhang‐McFarlane (ZM) CP by changing the way in which the bulk mass flux and bulk entrainment and detrainment rates are calculated. This is done by introducing a stochastic ensemble of plumes characterized by randomly varying detrainment level distributions based on the cloud area fraction of the SMCM. The SMCM is here extended to include shallow cumulus clouds resulting in a unified shallow‐deep CP. The new stochastic multicloud plume CP is validated against the control ZM scheme in the context of the single column Community Climate Model of the National Center for Atmospheric Research using data from both tropical ocean and midlatitude land convection. Some key features of the SMCM CP such as it capability to represent the tri‐modal nature of organized convection are emphasized.","lang":"eng"}],"quality_controlled":"1"},{"publisher":"Zenodo","day":"11","article_processing_charge":"No","type":"research_data_reference","department":[{"_id":"NiBa"}],"citation":{"apa":"Wetzel, W. (2023). HerbVar-Network/HV-Large-Patterns-MS-public: v1.0.0. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.8133117\">https://doi.org/10.5281/ZENODO.8133117</a>","chicago":"Wetzel, William. “HerbVar-Network/HV-Large-Patterns-MS-Public: V1.0.0.” Zenodo, 2023. <a href=\"https://doi.org/10.5281/ZENODO.8133117\">https://doi.org/10.5281/ZENODO.8133117</a>.","short":"W. Wetzel, (2023).","ama":"Wetzel W. HerbVar-Network/HV-Large-Patterns-MS-public: v1.0.0. 2023. doi:<a href=\"https://doi.org/10.5281/ZENODO.8133117\">10.5281/ZENODO.8133117</a>","ieee":"W. Wetzel, “HerbVar-Network/HV-Large-Patterns-MS-public: v1.0.0.” Zenodo, 2023.","mla":"Wetzel, William. <i>HerbVar-Network/HV-Large-Patterns-MS-Public: V1.0.0</i>. Zenodo, 2023, doi:<a href=\"https://doi.org/10.5281/ZENODO.8133117\">10.5281/ZENODO.8133117</a>.","ista":"Wetzel W. 2023. HerbVar-Network/HV-Large-Patterns-MS-public: v1.0.0, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.8133117\">10.5281/ZENODO.8133117</a>."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2023","oa":1,"month":"07","ddc":["570"],"_id":"14579","oa_version":"Published Version","status":"public","title":"HerbVar-Network/HV-Large-Patterns-MS-public: v1.0.0","doi":"10.5281/ZENODO.8133117","date_updated":"2025-09-09T13:23:55Z","date_published":"2023-07-11T00:00:00Z","author":[{"last_name":"Wetzel","full_name":"Wetzel, William","first_name":"William"}],"abstract":[{"text":"This is associated with our paper \"Plant size, latitude, and phylogeny explain within-population variability in herbivory\" published in Science.\r\n","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.8133118"}],"related_material":{"record":[{"status":"public","id":"14552","relation":"used_in_publication"}]},"date_created":"2023-11-20T11:07:45Z"},{"file":[{"file_id":"14620","file_size":6276059,"checksum":"f668ee0d07096eef81159d05bc27aabc","relation":"main_file","content_type":"application/pdf","file_name":"2023_JourChemicalPhysics_Reinhardt.pdf","date_created":"2023-11-28T08:39:06Z","access_level":"open_access","creator":"dernst","date_updated":"2023-11-28T08:39:06Z","success":1}],"type":"journal_article","acknowledgement":"A.R. and B.C. acknowledge resources provided by the Cambridge Tier-2 system operated by the University of Cambridge Research Computing Service funded by EPSRC Tier-2 capital Grant No. EP/P020259/1. P.Y.C. acknowledges support from the Ernest Oppenheimer Fund and the Winton Programme for the Physics of Sustainability.","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","citation":{"mla":"Reinhardt, Aleks, et al. “A Streamlined Molecular-Dynamics Workflow for Computing Solubilities of Molecular and Ionic Crystals.” <i>Journal of Chemical Physics</i>, vol. 159, no. 18, 184110, AIP Publishing, 2023, doi:<a href=\"https://doi.org/10.1063/5.0173341\">10.1063/5.0173341</a>.","ista":"Reinhardt A, Chew PY, Cheng B. 2023. A streamlined molecular-dynamics workflow for computing solubilities of molecular and ionic crystals. Journal of Chemical Physics. 159(18), 184110.","ieee":"A. Reinhardt, P. Y. Chew, and B. Cheng, “A streamlined molecular-dynamics workflow for computing solubilities of molecular and ionic crystals,” <i>Journal of Chemical Physics</i>, vol. 159, no. 18. AIP Publishing, 2023.","ama":"Reinhardt A, Chew PY, Cheng B. A streamlined molecular-dynamics workflow for computing solubilities of molecular and ionic crystals. <i>Journal of Chemical Physics</i>. 2023;159(18). doi:<a href=\"https://doi.org/10.1063/5.0173341\">10.1063/5.0173341</a>","short":"A. Reinhardt, P.Y. Chew, B. Cheng, Journal of Chemical Physics 159 (2023).","apa":"Reinhardt, A., Chew, P. Y., &#38; Cheng, B. (2023). A streamlined molecular-dynamics workflow for computing solubilities of molecular and ionic crystals. <i>Journal of Chemical Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0173341\">https://doi.org/10.1063/5.0173341</a>","chicago":"Reinhardt, Aleks, Pin Yu Chew, and Bingqing Cheng. “A Streamlined Molecular-Dynamics Workflow for Computing Solubilities of Molecular and Ionic Crystals.” <i>Journal of Chemical Physics</i>. AIP Publishing, 2023. <a href=\"https://doi.org/10.1063/5.0173341\">https://doi.org/10.1063/5.0173341</a>."},"pmid":1,"publication":"Journal of Chemical Physics","publication_identifier":{"eissn":["1089-7690"],"issn":["0021-9606"]},"corr_author":"1","arxiv":1,"date_updated":"2025-09-09T13:32:46Z","title":"A streamlined molecular-dynamics workflow for computing solubilities of molecular and ionic crystals","publication_status":"published","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["37962445"],"isi":["001137066700001"],"arxiv":["2308.10886"]},"date_published":"2023-11-14T00:00:00Z","isi":1,"quality_controlled":"1","abstract":[{"lang":"eng","text":"Computing the solubility of crystals in a solvent using atomistic simulations is notoriously challenging due to the complexities and convergence issues associated with free-energy methods, as well as the slow equilibration in direct-coexistence simulations. This paper introduces a molecular-dynamics workflow that simplifies and robustly computes the solubility of molecular or ionic crystals. This method is considerably more straightforward than the state-of-the-art, as we have streamlined and optimised each step of the process. Specifically, we calculate the chemical potential of the crystal using the gas-phase molecule as a reference state, and employ the S0 method to determine the concentration dependence of the chemical potential of the solute. We use this workflow to predict the solubilities of sodium chloride in water, urea polymorphs in water, and paracetamol polymorphs in both water and ethanol. Our findings indicate that the predicted solubility is sensitive to the chosen potential energy surface. Furthermore, we note that the harmonic approximation often fails for both molecular crystals and gas molecules at or above room temperature, and that the assumption of an ideal solution becomes less valid for highly soluble substances."}],"article_type":"original","publisher":"AIP Publishing","issue":"18","day":"14","has_accepted_license":"1","article_processing_charge":"Yes (in subscription journal)","department":[{"_id":"BiCh"}],"language":[{"iso":"eng"}],"year":"2023","license":"https://creativecommons.org/licenses/by/4.0/","oa":1,"month":"11","status":"public","oa_version":"Published Version","ddc":["530","540"],"_id":"14603","file_date_updated":"2023-11-28T08:39:06Z","article_number":"184110","scopus_import":"1","doi":"10.1063/5.0173341","intvolume":"       159","author":[{"full_name":"Reinhardt, Aleks","last_name":"Reinhardt","first_name":"Aleks"},{"full_name":"Chew, Pin Yu","last_name":"Chew","first_name":"Pin Yu"},{"id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","first_name":"Bingqing","full_name":"Cheng, Bingqing","last_name":"Cheng","orcid":"0000-0002-3584-9632"}],"date_created":"2023-11-26T23:00:54Z","related_material":{"record":[{"id":"14619","relation":"research_data","status":"public"}]},"volume":159},{"file_date_updated":"2023-11-28T08:12:15Z","_id":"14604","ddc":["570"],"oa_version":"Published Version","status":"public","month":"11","oa":1,"volume":77,"date_created":"2023-11-26T23:00:54Z","related_material":{"record":[{"relation":"research_data","id":"14616","status":"public"},{"id":"14617","relation":"research_data","status":"public"}],"link":[{"url":"https://git.ista.ac.at/bvicoso/veryoldx","relation":"software"}]},"author":[{"last_name":"Toups","full_name":"Toups, Melissa A","orcid":"0000-0002-9752-7380","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","first_name":"Melissa A"},{"first_name":"Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4579-8306","full_name":"Vicoso, Beatriz","last_name":"Vicoso"}],"intvolume":"        77","doi":"10.1093/evolut/qpad169","scopus_import":"1","department":[{"_id":"BeVi"}],"article_processing_charge":"Yes (in subscription journal)","has_accepted_license":"1","issue":"11","day":"02","article_type":"original","publisher":"Oxford University Press","page":"2504-2511","year":"2023","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["1558-5646"]},"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 the dipteran X chromosome has allowed for a burst of sex-chromosome turnover that is absent from other speciose insect orders.","lang":"eng"}],"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["001170341900014"],"pmid":["37738212"]},"isi":1,"date_published":"2023-11-02T00:00:00Z","publication_status":"published","title":"The X chromosome of insects likely predates the origin of class Insecta","date_updated":"2025-09-09T13:32:06Z","acknowledgement":"All computational analyses were performed on the server at Institute of Science and Technology Austria. We thank Marwan Elkrewi and Vincent Bett for analytical advice, and Tanja Schwander and Vincent Merel for useful discussions. We also thank Matthew Hahn for comments on an earlier version of the manuscript.","type":"journal_article","file":[{"relation":"main_file","content_type":"application/pdf","checksum":"b66dc10edae92d38918d534e64dda77c","file_id":"14618","file_size":1399102,"date_updated":"2023-11-28T08:12:15Z","success":1,"creator":"dernst","access_level":"open_access","file_name":"2023_Evolution_Toups.pdf","date_created":"2023-11-28T08:12:15Z"}],"publication":"Evolution","pmid":1,"citation":{"short":"M.A. Toups, B. Vicoso, Evolution 77 (2023) 2504–2511.","chicago":"Toups, Melissa A, and Beatriz Vicoso. “The X Chromosome of Insects Likely Predates the Origin of Class Insecta.” <i>Evolution</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/evolut/qpad169\">https://doi.org/10.1093/evolut/qpad169</a>.","apa":"Toups, M. A., &#38; Vicoso, B. (2023). The X chromosome of insects likely predates the origin of class Insecta. <i>Evolution</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/evolut/qpad169\">https://doi.org/10.1093/evolut/qpad169</a>","ista":"Toups MA, Vicoso B. 2023. The X chromosome of insects likely predates the origin of class Insecta. Evolution. 77(11), 2504–2511.","mla":"Toups, Melissa A., and Beatriz Vicoso. “The X Chromosome of Insects Likely Predates the Origin of Class Insecta.” <i>Evolution</i>, vol. 77, no. 11, Oxford University Press, 2023, pp. 2504–11, doi:<a href=\"https://doi.org/10.1093/evolut/qpad169\">10.1093/evolut/qpad169</a>.","ama":"Toups MA, Vicoso B. The X chromosome of insects likely predates the origin of class Insecta. <i>Evolution</i>. 2023;77(11):2504-2511. doi:<a href=\"https://doi.org/10.1093/evolut/qpad169\">10.1093/evolut/qpad169</a>","ieee":"M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the origin of class Insecta,” <i>Evolution</i>, vol. 77, no. 11. Oxford University Press, pp. 2504–2511, 2023."},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345"},{"intvolume":"       108","scopus_import":"1","doi":"10.1103/PhysRevB.108.174302","date_created":"2023-11-26T23:00:54Z","volume":108,"author":[{"first_name":"Niuchang","full_name":"Ouyang, Niuchang","last_name":"Ouyang"},{"full_name":"Zeng, Zezhu","last_name":"Zeng","first_name":"Zezhu","id":"54a2c730-803f-11ed-ab7e-95b29d2680e7"},{"full_name":"Wang, Chen","last_name":"Wang","first_name":"Chen"},{"last_name":"Wang","full_name":"Wang, Qi","first_name":"Qi"},{"full_name":"Chen, Yue","last_name":"Chen","first_name":"Yue"}],"month":"11","article_number":"174302","oa_version":"None","status":"public","_id":"14605","language":[{"iso":"eng"}],"year":"2023","issue":"17","day":"01","article_type":"original","publisher":"American Physical Society","department":[{"_id":"BiCh"}],"article_processing_charge":"No","date_published":"2023-11-01T00:00:00Z","external_id":{"isi":["001101152500001"]},"isi":1,"date_updated":"2025-09-09T13:31:19Z","publication_status":"published","title":"Role of high-order lattice anharmonicity in the phonon thermal transport of silver halide AgX (X=Cl,Br, I)","project":[{"call_identifier":"H2020","name":"IST-BRIDGE: International postdoctoral program","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413"}],"abstract":[{"text":"The phonon transport mechanisms and ultralow lattice thermal conductivities (κL) in silver halide AgX (X=Cl,Br,I) compounds are not yet well understood. Herein, we study the lattice dynamics and thermal property of AgX under the framework of perturbation theory and the two-channel Wigner thermal transport model based on accurate machine learning potentials. We find that an accurate extraction of the third-order atomic force constants from largely displaced configurations is significant for the calculation of the κL of AgX, and the coherence thermal transport is also non-negligible. In AgI, however, the calculated κL still considerably overestimates the experimental values even including four-phonon scatterings. Molecular dynamics (MD) simulations using machine learning potential suggest an important role of the higher-than-fourth-order lattice anharmonicity in the low-frequency phonon linewidths of AgI at room temperature, which can be related to the simultaneous restrictions of the three- and four-phonon phase spaces. The κL of AgI calculated using MD phonon lifetimes including full-order lattice anharmonicity shows a better agreement with experiments.","lang":"eng"}],"quality_controlled":"1","publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]},"corr_author":"1","ec_funded":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","citation":{"mla":"Ouyang, Niuchang, et al. “Role of High-Order Lattice Anharmonicity in the Phonon Thermal Transport of Silver Halide AgX (X=Cl,Br, I).” <i>Physical Review B</i>, vol. 108, no. 17, 174302, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevB.108.174302\">10.1103/PhysRevB.108.174302</a>.","ista":"Ouyang N, Zeng Z, Wang C, Wang Q, Chen Y. 2023. Role of high-order lattice anharmonicity in the phonon thermal transport of silver halide AgX (X=Cl,Br, I). Physical Review B. 108(17), 174302.","ama":"Ouyang N, Zeng Z, Wang C, Wang Q, Chen Y. Role of high-order lattice anharmonicity in the phonon thermal transport of silver halide AgX (X=Cl,Br, I). <i>Physical Review B</i>. 2023;108(17). doi:<a href=\"https://doi.org/10.1103/PhysRevB.108.174302\">10.1103/PhysRevB.108.174302</a>","ieee":"N. Ouyang, Z. Zeng, C. Wang, Q. Wang, and Y. Chen, “Role of high-order lattice anharmonicity in the phonon thermal transport of silver halide AgX (X=Cl,Br, I),” <i>Physical Review B</i>, vol. 108, no. 17. American Physical Society, 2023.","short":"N. Ouyang, Z. Zeng, C. Wang, Q. Wang, Y. Chen, Physical Review B 108 (2023).","chicago":"Ouyang, Niuchang, Zezhu Zeng, Chen Wang, Qi Wang, and Yue Chen. “Role of High-Order Lattice Anharmonicity in the Phonon Thermal Transport of Silver Halide AgX (X=Cl,Br, I).” <i>Physical Review B</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevB.108.174302\">https://doi.org/10.1103/PhysRevB.108.174302</a>.","apa":"Ouyang, N., Zeng, Z., Wang, C., Wang, Q., &#38; Chen, Y. (2023). Role of high-order lattice anharmonicity in the phonon thermal transport of silver halide AgX (X=Cl,Br, I). <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.108.174302\">https://doi.org/10.1103/PhysRevB.108.174302</a>"},"publication":"Physical Review B","acknowledgement":"This work is supported by the Research Grants Council of Hong Kong (Grants No. 17318122 and No. 17306721). The authors are grateful for the research computing facilities offered by ITS, HKU. Z.Z. acknowledges the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 101034413.","type":"journal_article"},{"oa":1,"month":"08","file_date_updated":"2023-11-28T09:14:34Z","_id":"14609","ddc":["000"],"status":"public","oa_version":"Published Version","scopus_import":"1","intvolume":"         8","author":[{"last_name":"Das","full_name":"Das, Sourav","first_name":"Sourav"},{"full_name":"Xiang, Zhuolun","last_name":"Xiang","first_name":"Zhuolun"},{"last_name":"Kokoris Kogias","full_name":"Kokoris Kogias, Eleftherios","id":"f5983044-d7ef-11ea-ac6d-fd1430a26d30","first_name":"Eleftherios"},{"first_name":"Ling","full_name":"Ren, Ling","last_name":"Ren"}],"main_file_link":[{"open_access":"1","url":"https://eprint.iacr.org/2022/1389"}],"volume":8,"date_created":"2023-11-26T23:00:55Z","publisher":"Usenix","day":"15","article_processing_charge":"No","has_accepted_license":"1","department":[{"_id":"ElKo"}],"year":"2023","language":[{"iso":"eng"}],"page":"5359-5376","corr_author":"1","publication_identifier":{"isbn":["9781713879497"]},"publication_status":"published","title":"Practical asynchronous high-threshold distributed key generation and distributed polynomial sampling","project":[{"name":"Security and Privacy by Design for Complex Systems","_id":"34a4ce89-11ca-11ed-8bc3-8cc37fb6e11f","grant_number":"F8512"}],"date_updated":"2025-04-15T08:16:55Z","date_published":"2023-08-15T00:00:00Z","quality_controlled":"1","abstract":[{"text":"Distributed Key Generation (DKG) is a technique to bootstrap threshold cryptosystems without a trusted party. DKG is an essential building block to many decentralized protocols such as randomness beacons, threshold signatures, Byzantine consensus, and multiparty computation. While significant progress has been made recently, existing asynchronous DKG constructions are inefficient when the reconstruction threshold is larger than one-third of the total nodes. In this paper, we present a simple and concretely efficient asynchronous DKG (ADKG) protocol among n = 3t + 1 nodes that can tolerate up to t malicious nodes and support any reconstruction threshold ℓ ≥ t. Our protocol has an expected O(κn3) communication cost, where κ is the security parameter, and only assumes the hardness of the Discrete Logarithm. The\r\ncore ingredient of our ADKG protocol is an asynchronous protocol to secret share a random polynomial of degree ℓ ≥ t, which has other applications, such as asynchronous proactive secret sharing and asynchronous multiparty computation. We implement our high-threshold ADKG protocol and evaluate it using a network of up to 128 geographically distributed nodes. Our evaluation shows that our high-threshold ADKG protocol reduces the running time by 90% and bandwidth usage by 80% over the state-of-the-art.","lang":"eng"}],"file":[{"file_name":"2023_USENIX_Das.pdf","date_created":"2023-11-28T09:14:34Z","access_level":"open_access","creator":"dernst","success":1,"date_updated":"2023-11-28T09:14:34Z","file_id":"14621","file_size":704331,"checksum":"1a730765930138e23c6efd2575872641","relation":"main_file","content_type":"application/pdf"}],"type":"conference","acknowledgement":"The authors would like to thank Amit Agarwal, Andrew Miller, and Tom Yurek for the helpful discussions related to the paper. This work is funded in part by a VMware early career faculty grant, a Chainlink Labs Ph.D. fellowship, the National Science Foundation, and the Austrian Science Fund (FWF) F8512-N.","conference":{"name":"USENIX Security Symposium","start_date":"2023-08-09","location":"Anaheim, CA, United States","end_date":"2023-08-11"},"citation":{"short":"S. Das, Z. Xiang, E. Kokoris Kogias, L. Ren, in:, 32nd USENIX Security Symposium, Usenix, 2023, pp. 5359–5376.","apa":"Das, S., Xiang, Z., Kokoris Kogias, E., &#38; Ren, L. (2023). Practical asynchronous high-threshold distributed key generation and distributed polynomial sampling. In <i>32nd USENIX Security Symposium</i> (Vol. 8, pp. 5359–5376). Anaheim, CA, United States: Usenix.","chicago":"Das, Sourav, Zhuolun Xiang, Eleftherios Kokoris Kogias, and Ling Ren. “Practical Asynchronous High-Threshold Distributed Key Generation and Distributed Polynomial Sampling.” In <i>32nd USENIX Security Symposium</i>, 8:5359–76. Usenix, 2023.","ista":"Das S, Xiang Z, Kokoris Kogias E, Ren L. 2023. Practical asynchronous high-threshold distributed key generation and distributed polynomial sampling. 32nd USENIX Security Symposium. USENIX Security Symposium vol. 8, 5359–5376.","mla":"Das, Sourav, et al. “Practical Asynchronous High-Threshold Distributed Key Generation and Distributed Polynomial Sampling.” <i>32nd USENIX Security Symposium</i>, vol. 8, Usenix, 2023, pp. 5359–76.","ieee":"S. Das, Z. Xiang, E. Kokoris Kogias, and L. Ren, “Practical asynchronous high-threshold distributed key generation and distributed polynomial sampling,” in <i>32nd USENIX Security Symposium</i>, Anaheim, CA, United States, 2023, vol. 8, pp. 5359–5376.","ama":"Das S, Xiang Z, Kokoris Kogias E, Ren L. Practical asynchronous high-threshold distributed key generation and distributed polynomial sampling. In: <i>32nd USENIX Security Symposium</i>. Vol 8. Usenix; 2023:5359-5376."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"32nd USENIX Security Symposium"},{"page":"1062-1069","year":"2023","language":[{"iso":"eng"}],"department":[{"_id":"AnSa"}],"article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","day":"30","article_type":"original","publisher":"Springer Nature","volume":623,"date_created":"2023-11-27T07:56:37Z","related_material":{"record":[{"status":"public","id":"14472","relation":"research_data"}],"link":[{"url":"https://doi.org/10.1038/s41586-023-06882-z","relation":"erratum"}]},"author":[{"first_name":"Claudio","last_name":"Bussi","full_name":"Bussi, Claudio"},{"first_name":"Agustín","last_name":"Mangiarotti","full_name":"Mangiarotti, Agustín"},{"last_name":"Vanhille-Campos","full_name":"Vanhille-Campos, Christian Eduardo","first_name":"Christian Eduardo","id":"3adeca52-9313-11ed-b1ac-c170b2505714"},{"last_name":"Aylan","full_name":"Aylan, Beren","first_name":"Beren"},{"first_name":"Enrica","full_name":"Pellegrino, Enrica","last_name":"Pellegrino"},{"first_name":"Natalia","full_name":"Athanasiadi, Natalia","last_name":"Athanasiadi"},{"last_name":"Fearns","full_name":"Fearns, Antony","first_name":"Antony"},{"first_name":"Angela","last_name":"Rodgers","full_name":"Rodgers, Angela"},{"full_name":"Franzmann, Titus M.","last_name":"Franzmann","first_name":"Titus M."},{"first_name":"Anđela","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","orcid":"0000-0002-7854-2139","full_name":"Šarić, Anđela","last_name":"Šarić"},{"first_name":"Rumiana","last_name":"Dimova","full_name":"Dimova, Rumiana"},{"last_name":"Gutierrez","full_name":"Gutierrez, Maximiliano G.","first_name":"Maximiliano G."}],"intvolume":"       623","doi":"10.1038/s41586-023-06726-w","scopus_import":"1","ddc":["570"],"_id":"14610","file_date_updated":"2024-07-16T07:41:39Z","status":"public","oa_version":"Published Version","month":"11","oa":1,"publication":"Nature","pmid":1,"citation":{"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>.","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>","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.","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>","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.","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>."},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","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.","type":"journal_article","file":[{"file_name":"2023_Nature_Bussi.pdf","date_created":"2024-07-16T07:41:39Z","creator":"dernst","access_level":"open_access","success":1,"date_updated":"2024-07-16T07:41:39Z","file_size":17047711,"file_id":"17248","checksum":"b939a19e4c228fbf3beca298ac2ac014","relation":"main_file","content_type":"application/pdf"}],"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."}],"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"date_published":"2023-11-30T00:00:00Z","external_id":{"isi":["001105882300018"],"pmid":["37968398"]},"isi":1,"publication_status":"published","title":"Stress granules plug and stabilize damaged endolysosomal membranes","date_updated":"2025-09-09T13:30:34Z","publication_identifier":{"eissn":["1476-4687"],"issn":["0028-0836"]}},{"_id":"14614","ddc":["576"],"file_date_updated":"2023-11-30T14:16:59Z","oa_version":"Published Version","status":"public","corr_author":"1","oa":1,"month":"12","author":[{"id":"02225f57-50d2-11eb-9ed8-8c92b9a34237","first_name":"Clementine","last_name":"Lasne","full_name":"Lasne, Clementine","orcid":"0000-0002-1197-8616"},{"orcid":"0000-0002-5328-7231","last_name":"Elkrewi","full_name":"Elkrewi, Marwan N","first_name":"Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425"}],"abstract":[{"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.","lang":"eng"}],"related_material":{"record":[{"status":"public","id":"14613","relation":"used_in_publication"}]},"date_created":"2023-11-27T16:39:19Z","title":"The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome","doi":"10.15479/AT:ISTA:14614","date_updated":"2025-09-09T13:33:22Z","date_published":"2023-12-01T00:00:00Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"article_processing_charge":"No","has_accepted_license":"1","type":"research_data","department":[{"_id":"BeVi"}],"file":[{"content_type":"application/zip","relation":"main_file","checksum":"cd0f13322b5156819ecaebd2bc8e7d12","file_size":404968272,"file_id":"14625","success":1,"date_updated":"2023-11-28T13:15:26Z","access_level":"open_access","creator":"clasne","date_created":"2023-11-28T13:15:26Z","file_name":"panorpaX.zip"},{"relation":"main_file","content_type":"text/plain","checksum":"9ff600416577687a737cb3c96dfcb26c","file_size":2625,"file_id":"14634","date_updated":"2023-11-30T14:16:59Z","success":1,"access_level":"open_access","creator":"clasne","file_name":"panorpa_readme.txt","date_created":"2023-11-30T14:16:59Z"}],"publisher":"Institute of Science and Technology Austria","day":"01","keyword":["Panorpa","scorpionfly","genome","transcriptome"],"citation":{"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>.","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>","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.","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>."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","contributor":[{"orcid":"0000-0002-5328-7231","contributor_type":"researcher","last_name":"Elkrewi","first_name":"Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425"}],"year":"2023"},{"type":"research_data_reference","has_accepted_license":"1","article_processing_charge":"No","department":[{"_id":"BeVi"}],"publisher":"Dryad","day":"15","license":"https://creativecommons.org/publicdomain/zero/1.0/","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"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>.","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>.","ieee":"M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the origin of Class Insecta.” Dryad, 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/10.5061/DRYAD.HX3FFBGKT\">10.5061/DRYAD.HX3FFBGKT</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.” Dryad, 2023. <a href=\"https://doi.org/10.5061/DRYAD.HX3FFBGKT\">https://doi.org/10.5061/DRYAD.HX3FFBGKT</a>.","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>"},"year":"2023","status":"public","oa_version":"Published Version","ddc":["570"],"_id":"14616","oa":1,"month":"09","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."}],"main_file_link":[{"url":"https://doi.org/10.5061/dryad.hx3ffbgkt","open_access":"1"}],"author":[{"id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","first_name":"Melissa A","full_name":"Toups, Melissa A","last_name":"Toups","orcid":"0000-0002-9752-7380"},{"last_name":"Vicoso","full_name":"Vicoso, Beatriz","orcid":"0000-0002-4579-8306","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz"}],"related_material":{"record":[{"status":"public","id":"14604","relation":"used_in_publication"}]},"date_created":"2023-11-28T08:01:53Z","date_updated":"2025-09-09T13:32:05Z","doi":"10.5061/DRYAD.HX3FFBGKT","title":"The X chromosome of insects likely predates the origin of Class Insecta","tmp":{"name":"Creative Commons Public Domain Dedication (CC0 1.0)","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","short":"CC0 (1.0)","image":"/images/cc_0.png"},"date_published":"2023-09-15T00:00:00Z"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"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>","short":"M.A. Toups, B. Vicoso, (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>","ieee":"M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the origin of Class Insecta.” Zenodo, 2023.","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>.","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>."},"year":"2023","publisher":"Zenodo","day":"15","type":"research_data_reference","has_accepted_license":"1","other_data_license":"MIT License","article_processing_charge":"No","department":[{"_id":"BeVi"}],"date_updated":"2025-09-09T13:32:05Z","doi":"10.5281/ZENODO.8138705","title":"The X chromosome of insects likely predates the origin of Class Insecta","date_published":"2023-09-15T00:00:00Z","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"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.8138705"}],"author":[{"orcid":"0000-0002-9752-7380","last_name":"Toups","full_name":"Toups, Melissa A","first_name":"Melissa A","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Vicoso","full_name":"Vicoso, Beatriz","orcid":"0000-0002-4579-8306","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz"}],"related_material":{"record":[{"id":"14604","relation":"used_in_publication","status":"public"}]},"date_created":"2023-11-28T08:04:03Z","oa":1,"month":"09","oa_version":"Published Version","status":"public","_id":"14617","ddc":["570"]},{"department":[{"_id":"BiCh"}],"article_processing_charge":"No","type":"research_data_reference","has_accepted_license":"1","day":"02","publisher":"Zenodo","year":"2023","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>.","short":"B. Cheng, (2023).","ieee":"B. Cheng, “BingqingCheng/solubility: V1.0.” Zenodo, 2023.","ama":"Cheng B. BingqingCheng/solubility: V1.0. 2023. doi:<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>.","ista":"Cheng B. 2023. BingqingCheng/solubility: V1.0, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.8398094\">10.5281/ZENODO.8398094</a>."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["530"],"_id":"14619","status":"public","oa_version":"Published Version","month":"10","corr_author":"1","oa":1,"date_created":"2023-11-28T08:32:18Z","related_material":{"record":[{"status":"public","relation":"used_in_publication","id":"14603"}]},"author":[{"full_name":"Cheng, Bingqing","last_name":"Cheng","orcid":"0000-0002-3584-9632","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","first_name":"Bingqing"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.8398094"}],"abstract":[{"lang":"eng","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)."}],"date_published":"2023-10-02T00:00:00Z","doi":"10.5281/ZENODO.8398094","title":"BingqingCheng/solubility: V1.0","date_updated":"2025-09-09T13:32:46Z"},{"publication_identifier":{"eissn":["1557-7368"],"issn":["0730-0301"]},"isi":1,"external_id":{"isi":["001086833300007"]},"date_published":"2023-10-01T00:00:00Z","title":"Procedural metamaterials: A unified procedural graph for metamaterial design","publication_status":"published","project":[{"grant_number":"101045083","_id":"34bc2376-11ca-11ed-8bc3-9a3b3961a088","name":"Computational Discovery of Numerical Algorithms for Animation and Simulation of Natural Phenomena"}],"date_updated":"2025-09-09T13:33:58Z","abstract":[{"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.","lang":"eng"}],"quality_controlled":"1","file":[{"date_created":"2023-11-29T15:16:01Z","file_name":"tog-22-0089-File004.zip","date_updated":"2023-11-29T15:16:01Z","success":1,"creator":"yichen","access_level":"open_access","file_size":95467870,"file_id":"14630","content_type":"application/zip","relation":"main_file","checksum":"0192f597d7a2ceaf89baddfd6190d4c8"},{"content_type":"application/zip","relation":"main_file","checksum":"7fb024963be81933494f38de191e4710","file_id":"14631","file_size":103731880,"success":1,"date_updated":"2023-11-29T15:16:01Z","access_level":"open_access","creator":"yichen","date_created":"2023-11-29T15:16:01Z","file_name":"tog-22-0089-File005.zip"},{"file_id":"14638","file_size":57067476,"checksum":"b7d6829ce396e21cac9fae0ec7130a6b","relation":"main_file","content_type":"application/pdf","file_name":"2023_ACMToG_Makatura.pdf","date_created":"2023-12-04T08:04:14Z","creator":"dernst","access_level":"open_access","success":1,"date_updated":"2023-12-04T08:04:14Z"}],"type":"journal_article","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.","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.","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.","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>.","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>.","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>","short":"L. Makatura, B. Wang, Y.-L. Chen, B. Deng, C. Wojtan, B. Bickel, W. Matusik, ACM Transactions on Graphics 42 (2023)."},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication":"ACM Transactions on Graphics","month":"10","oa":1,"article_number":"168","_id":"14628","ddc":["531","006"],"file_date_updated":"2023-12-04T08:04:14Z","status":"public","oa_version":"Published Version","intvolume":"        42","doi":"10.1145/3605389","scopus_import":"1","volume":42,"date_created":"2023-11-29T15:02:03Z","author":[{"first_name":"Liane","last_name":"Makatura","full_name":"Makatura, Liane"},{"first_name":"Bohan","last_name":"Wang","full_name":"Wang, Bohan"},{"first_name":"Yi-Lu","id":"0b467602-dbcd-11ea-9d1d-ed480aa46b70","last_name":"Chen","full_name":"Chen, Yi-Lu"},{"first_name":"Bolei","last_name":"Deng","full_name":"Deng, Bolei"},{"id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","first_name":"Christopher J","full_name":"Wojtan, Christopher J","last_name":"Wojtan","orcid":"0000-0001-6646-5546"},{"last_name":"Bickel","full_name":"Bickel, Bernd","orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","first_name":"Bernd"},{"first_name":"Wojciech","full_name":"Matusik, Wojciech","last_name":"Matusik"}],"issue":"5","day":"01","article_type":"original","publisher":"Association for Computing Machinery","department":[{"_id":"GradSch"},{"_id":"ChWo"},{"_id":"BeBi"}],"article_processing_charge":"Yes (in subscription journal)","has_accepted_license":"1","year":"2023","language":[{"iso":"eng"}],"keyword":["Computer Graphics and Computer-Aided Design"]},{"publication_identifier":{"issn":["2542-4653"]},"corr_author":"1","ec_funded":1,"arxiv":1,"date_published":"2023-12-07T00:00:00Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"isi":1,"external_id":{"isi":["001121864100003"],"arxiv":["2305.17969"]},"date_updated":"2025-09-09T13:34:34Z","project":[{"name":"A path-integral approach to composite impurities","_id":"26986C82-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"M02641"},{"_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","grant_number":"754411"}],"publication_status":"published","title":"Non-equilibrium dynamics of dipolar polarons","quality_controlled":"1","abstract":[{"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.","lang":"eng"}],"file":[{"file_size":3543541,"file_id":"14669","checksum":"e664372a1fe9d628a9bb1d135ebab7d8","content_type":"application/pdf","relation":"main_file","date_created":"2023-12-11T07:42:04Z","file_name":"2023_SciPostPhysics_Volosniev.pdf","access_level":"open_access","creator":"dernst","date_updated":"2023-12-11T07:42:04Z","success":1}],"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.","type":"journal_article","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","citation":{"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>.","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>","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.","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>","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."},"publication":"SciPost Physics","month":"12","oa":1,"article_number":"232","status":"public","oa_version":"Published Version","_id":"14650","file_date_updated":"2023-12-11T07:42:04Z","ddc":["530"],"intvolume":"        15","scopus_import":"1","doi":"10.21468/scipostphys.15.6.232","date_created":"2023-12-10T13:03:07Z","volume":15,"author":[{"first_name":"Artem","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0393-5525","last_name":"Volosniev","full_name":"Volosniev, Artem"},{"first_name":"Giacomo","id":"4CA96FD4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8823-9777","full_name":"Bighin, Giacomo","last_name":"Bighin"},{"first_name":"Luis","last_name":"Santos","full_name":"Santos, Luis"},{"first_name":"Luisllu A.","full_name":"Peña Ardila, Luisllu A.","last_name":"Peña Ardila"}],"day":"07","issue":"6","article_type":"original","publisher":"SciPost Foundation","department":[{"_id":"MiLe"}],"has_accepted_license":"1","article_processing_charge":"No","language":[{"iso":"eng"}],"year":"2023","keyword":["General Physics and Astronomy"]},{"oa":1,"month":"12","oa_version":"Published Version","status":"public","_id":"14654","file_date_updated":"2023-12-11T08:08:44Z","ddc":["550"],"article_number":"e2023MS003726","scopus_import":"1","doi":"10.1029/2023MS003726","intvolume":"        15","author":[{"id":"1217aa61-4dd1-11ec-9ac3-f2ba3f17ee22","first_name":"Yi-Ling","full_name":"Hwong, Yi-Ling","last_name":"Hwong","orcid":"0000-0001-9281-3479"},{"last_name":"Colin","full_name":"Colin, M.","first_name":"M."},{"id":"02eace56-97fc-11ee-b81a-f0939ca85a77","first_name":"Philipp","last_name":"Aglas","full_name":"Aglas, Philipp"},{"id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","first_name":"Caroline J","last_name":"Muller","full_name":"Muller, Caroline J","orcid":"0000-0001-5836-5350"},{"first_name":"S. C.","full_name":"Sherwood, S. C.","last_name":"Sherwood"}],"related_material":{"record":[{"relation":"research_data","id":"14991","status":"public"}]},"date_created":"2023-12-10T23:00:57Z","volume":15,"article_type":"original","publisher":"Wiley","day":"01","issue":"12","has_accepted_license":"1","article_processing_charge":"Yes","department":[{"_id":"CaMu"}],"language":[{"iso":"eng"}],"year":"2023","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","publication_identifier":{"eissn":["1942-2466"]},"corr_author":"1","ec_funded":1,"date_updated":"2025-09-09T13:35:40Z","title":"Assessing memory in convection schemes using idealized tests","publication_status":"published","project":[{"call_identifier":"H2020","name":"Organization of CLoUdS, and implications of Tropical  cyclones and for the Energetics of the tropics, in current and waRming climate","_id":"629205d8-2b32-11ec-9570-e1356ff73576","grant_number":"805041"}],"tmp":{"image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","short":"CC BY-NC-ND (4.0)"},"external_id":{"isi":["001110801100001"]},"isi":1,"date_published":"2023-12-01T00:00:00Z","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."}],"quality_controlled":"1","file":[{"file_name":"2023_JAMES_Hwong.pdf","date_created":"2023-12-11T08:08:44Z","date_updated":"2023-12-11T08:08:44Z","success":1,"access_level":"open_access","creator":"dernst","file_size":2783677,"file_id":"14670","relation":"main_file","content_type":"application/pdf","checksum":"4d060b293da3d203de8769e398edf711"}],"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.","type":"journal_article","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","citation":{"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>","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.","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>.","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.","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>.","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>","short":"Y.-L. Hwong, M. Colin, P. Aglas, C.J. Muller, S.C. Sherwood, Journal of Advances in Modeling Earth Systems 15 (2023)."},"publication":"Journal of Advances in Modeling Earth Systems"},{"citation":{"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>","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>.","short":"V. Sorichetti, M. Lenz, Physical Review Letters 131 (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>","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.","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>.","ista":"Sorichetti V, Lenz M. 2023. Transverse fluctuations control the assembly of semiflexible filaments. Physical Review Letters. 131(22), 228401."},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","pmid":1,"publication":"Physical Review Letters","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).","type":"journal_article","title":"Transverse fluctuations control the assembly of semiflexible filaments","publication_status":"published","date_updated":"2025-09-09T13:35:06Z","isi":1,"date_published":"2023-12-01T00:00:00Z","external_id":{"isi":["001163810200008"],"pmid":["38101392"],"arxiv":["2303.03088"]},"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."}],"quality_controlled":"1","corr_author":"1","publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"arxiv":1,"year":"2023","language":[{"iso":"eng"}],"article_type":"original","publisher":"American Physical Society","issue":"22","day":"01","article_processing_charge":"No","department":[{"_id":"AnSa"}],"doi":"10.1103/PhysRevLett.131.228401","scopus_import":"1","intvolume":"       131","author":[{"id":"ef8a92cb-c7b6-11ec-8bea-e1fd5847bc5b","first_name":"Valerio","full_name":"Sorichetti, Valerio","last_name":"Sorichetti","orcid":"0000-0002-9645-6576"},{"full_name":"Lenz, Martin","last_name":"Lenz","first_name":"Martin"}],"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2303.03088","open_access":"1"}],"volume":131,"date_created":"2023-12-10T23:00:57Z","oa":1,"month":"12","_id":"14655","status":"public","oa_version":"Preprint","article_number":"228401"},{"month":"11","oa":1,"article_number":"20230355","oa_version":"Published Version","status":"public","file_date_updated":"2023-12-11T11:10:32Z","_id":"14657","ddc":["000","570"],"intvolume":"        20","scopus_import":"1","doi":"10.1098/rsif.2023.0355","date_created":"2023-12-10T23:00:58Z","volume":20,"author":[{"id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","first_name":"Josef","last_name":"Tkadlec","full_name":"Tkadlec, Josef","orcid":"0000-0002-1097-9684"},{"first_name":"Kamran","last_name":"Kaveh","full_name":"Kaveh, Kamran"},{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X"},{"last_name":"Nowak","full_name":"Nowak, Martin A.","first_name":"Martin A."}],"day":"29","issue":"208","publisher":"The Royal Society","article_type":"original","department":[{"_id":"KrCh"}],"has_accepted_license":"1","article_processing_charge":"Yes (in subscription journal)","language":[{"iso":"eng"}],"year":"2023","publication_identifier":{"eissn":["1742-5662"]},"ec_funded":1,"external_id":{"pmid":["38016637"],"isi":["001124419300002"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"isi":1,"date_published":"2023-11-29T00:00:00Z","date_updated":"2025-09-09T13:37:01Z","title":"Evolutionary dynamics of mutants that modify population structure","project":[{"name":"Formal Methods for Stochastic Models: Algorithms and Applications","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E","call_identifier":"H2020","grant_number":"863818"}],"publication_status":"published","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."}],"quality_controlled":"1","file":[{"file_size":1720243,"file_id":"14673","checksum":"2eefab13127c7786dbd33303c482a004","content_type":"application/pdf","relation":"main_file","date_created":"2023-12-11T11:10:32Z","file_name":"2023_RoyalInterface_Tkadlec.pdf","access_level":"open_access","creator":"dernst","date_updated":"2023-12-11T11:10:32Z","success":1}],"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).","type":"journal_article","pmid":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","citation":{"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.","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>.","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.","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>.","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>","short":"J. Tkadlec, K. Kaveh, K. Chatterjee, M.A. Nowak, Journal of the Royal Society, Interface 20 (2023)."},"publication":"Journal of the Royal Society, Interface"},{"month":"10","oa":1,"article_number":"043039","file_date_updated":"2023-12-11T10:49:07Z","_id":"14658","ddc":["530"],"status":"public","oa_version":"Published Version","intvolume":"         5","doi":"10.1103/PhysRevResearch.5.043039","scopus_import":"1","volume":5,"date_created":"2023-12-10T23:00:58Z","author":[{"first_name":"J. M.","last_name":"Becker","full_name":"Becker, J. M."},{"full_name":"Koutentakis, Georgios","last_name":"Koutentakis","id":"d7b23d3a-9e21-11ec-b482-f76739596b95","first_name":"Georgios"},{"first_name":"P.","full_name":"Schmelcher, P.","last_name":"Schmelcher"}],"day":"12","issue":"4","article_type":"original","publisher":"American Physical Society","department":[{"_id":"MiLe"}],"article_processing_charge":"Yes","has_accepted_license":"1","year":"2023","language":[{"iso":"eng"}],"corr_author":"1","publication_identifier":{"issn":["2643-1564"]},"arxiv":1,"ec_funded":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"date_published":"2023-10-12T00:00:00Z","external_id":{"arxiv":["2305.09529"]},"title":"Spin-charge correlations in finite one-dimensional multiband Fermi systems","publication_status":"published","project":[{"name":"IST-BRIDGE: International postdoctoral program","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","call_identifier":"H2020","grant_number":"101034413"}],"date_updated":"2025-04-14T07:54:54Z","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."}],"quality_controlled":"1","file":[{"date_updated":"2023-12-11T10:49:07Z","success":1,"access_level":"open_access","creator":"dernst","date_created":"2023-12-11T10:49:07Z","file_name":"2023_PhysReviewResearch_Becker.pdf","content_type":"application/pdf","relation":"main_file","checksum":"ee31c0d0de5d1b65591990ae6705a601","file_id":"14672","file_size":2362158}],"type":"journal_article","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.","citation":{"ista":"Becker JM, Koutentakis G, Schmelcher P. 2023. Spin-charge correlations in finite one-dimensional multiband Fermi systems. Physical Review Research. 5(4), 043039.","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>.","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>","short":"J.M. Becker, G. Koutentakis, P. Schmelcher, Physical Review Research 5 (2023).","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>.","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>"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Physical Review Research"},{"quality_controlled":"1","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","publication_status":"published","title":"Local cooling and drying induced by Himalayan glaciers under global warming","APC_amount":"4800 EUR","external_id":{"isi":["001112839700003"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"date_published":"2023-12-04T00:00:00Z","isi":1,"publication_identifier":{"issn":["1752-0894"],"eissn":["1752-0908"]},"publication":"Nature Geoscience","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","citation":{"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>.","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.","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>","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.","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.","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>.","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>"},"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.","type":"journal_article","OA_place":"publisher","file":[{"file_name":"2023_NatureGeoscience_Salerno.pdf","date_created":"2023-12-11T10:11:19Z","creator":"dernst","access_level":"open_access","success":1,"date_updated":"2023-12-11T10:11:19Z","file_id":"14671","file_size":6072603,"checksum":"d5ae0d17069eebc6f454c8608cf83e21","relation":"main_file","content_type":"application/pdf"}],"author":[{"first_name":"Franco","full_name":"Salerno, Franco","last_name":"Salerno"},{"first_name":"Nicolas","last_name":"Guyennon","full_name":"Guyennon, Nicolas"},{"full_name":"Yang, Kun","last_name":"Yang","first_name":"Kun"},{"full_name":"Shaw, Thomas","last_name":"Shaw","orcid":"0000-0001-7640-6152","id":"3caa3f91-1f03-11ee-96ce-e0e553054d6e","first_name":"Thomas"},{"last_name":"Lin","full_name":"Lin, Changgui","first_name":"Changgui"},{"full_name":"Colombo, Nicola","last_name":"Colombo","first_name":"Nicola"},{"first_name":"Emanuele","full_name":"Romano, Emanuele","last_name":"Romano"},{"full_name":"Gruber, Stephan","last_name":"Gruber","first_name":"Stephan"},{"last_name":"Bolch","full_name":"Bolch, Tobias","first_name":"Tobias"},{"last_name":"Alessandri","full_name":"Alessandri, Andrea","first_name":"Andrea"},{"full_name":"Cristofanelli, Paolo","last_name":"Cristofanelli","first_name":"Paolo"},{"first_name":"Davide","last_name":"Putero","full_name":"Putero, Davide"},{"first_name":"Guglielmina","last_name":"Diolaiuti","full_name":"Diolaiuti, Guglielmina"},{"first_name":"Gianni","last_name":"Tartari","full_name":"Tartari, Gianni"},{"last_name":"Verza","full_name":"Verza, Gianpietro","first_name":"Gianpietro"},{"first_name":"Sudeep","last_name":"Thakuri","full_name":"Thakuri, Sudeep"},{"full_name":"Balsamo, Gianpaolo","last_name":"Balsamo","first_name":"Gianpaolo"},{"full_name":"Miles, Evan S.","last_name":"Miles","first_name":"Evan S."},{"last_name":"Pellicciotti","full_name":"Pellicciotti, Francesca","orcid":"0000-0002-5554-8087","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","first_name":"Francesca"}],"related_material":{"link":[{"url":"https://ista.ac.at/en/news/wind-of-climate-change/","relation":"press_release","description":"News on ISTA website"}]},"date_created":"2023-12-10T23:00:58Z","volume":16,"scopus_import":"1","doi":"10.1038/s41561-023-01331-y","intvolume":"        16","oa_version":"Published Version","status":"public","ddc":["550"],"_id":"14659","file_date_updated":"2023-12-11T10:11:19Z","oa":1,"month":"12","page":"1120-1127","OA_type":"hybrid","language":[{"iso":"eng"}],"year":"2023","has_accepted_license":"1","article_processing_charge":"Yes (in subscription journal)","department":[{"_id":"FrPe"}],"article_type":"original","publisher":"Springer Nature","day":"04"},{"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"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.","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.","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.","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.","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."},"publication":"Journal of Convex Analysis","publication_identifier":{"issn":["0944-6532"],"eissn":["2363-6394"]},"corr_author":"1","arxiv":1,"date_updated":"2024-10-09T21:07:35Z","publication_status":"published","title":"External forces in the continuum limit of discrete systems with non-convex interaction potentials: Compactness for a Γ-development","date_published":"2023-01-01T00:00:00Z","isi":1,"external_id":{"isi":["001115503400013"],"arxiv":["1811.09857"]},"quality_controlled":"1","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."}],"publisher":"Heldermann Verlag","article_type":"original","day":"01","issue":"1","article_processing_charge":"No","department":[{"_id":"JuFi"}],"language":[{"iso":"eng"}],"year":"2023","page":"217-247","oa":1,"month":"01","status":"public","oa_version":"Preprint","_id":"14661","scopus_import":"1","intvolume":"        30","main_file_link":[{"url":"https://arxiv.org/abs/1811.09857","open_access":"1"}],"author":[{"full_name":"Carioni, Marcello","last_name":"Carioni","first_name":"Marcello"},{"first_name":"Julian L","id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0479-558X","last_name":"Fischer","full_name":"Fischer, Julian L"},{"full_name":"Schlömerkemper, Anja","last_name":"Schlömerkemper","first_name":"Anja"}],"date_created":"2023-12-10T23:00:59Z","volume":30}]