[{"day":"07","corr_author":"1","date_updated":"2025-12-29T12:30:04Z","oa_version":"Preprint","arxiv":1,"oa":1,"language":[{"iso":"eng"}],"ec_funded":1,"OA_type":"green","month":"01","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2412.15069","open_access":"1"}],"doi":"10.1137/1.9781611978322.22","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Dynamically maintaining the minimum cut in a graph G under edge insertions and deletion is a fundamental problem in dynamic graph algorithms for which no conditional lower bound on the time per operation exists. In an n-node graph the best known (1 + o (1))-approximate algorithm takes  update time [14]. If the minimum cut is guaranteed to be (log n )o (1), a deterministic exact algorithm with n o (1) update time exists [8].\r\nWe present the first fully dynamic algorithm for (1 + o (1))-approximate minimum cut with n o(1) update time. Our main technical contribution is to show that it suffices to consider small-volume cuts in suitably contracted graphs."}],"publication_status":"published","date_published":"2025-01-07T00:00:00Z","status":"public","publisher":"Society for Industrial and Applied Mathematics","type":"conference","quality_controlled":"1","citation":{"ama":"El-Hayek A, Henzinger M, Li J. Fully dynamic approximate minimum cut in subpolynomial time per operation. In: <i>Proceedings of the 2025 Annual ACM-SIAM Symposium on Discrete Algorithms</i>. Society for Industrial and Applied Mathematics; 2025:750-784. doi:<a href=\"https://doi.org/10.1137/1.9781611978322.22\">10.1137/1.9781611978322.22</a>","ista":"El-Hayek A, Henzinger M, Li J. 2025. Fully dynamic approximate minimum cut in subpolynomial time per operation. Proceedings of the 2025 Annual ACM-SIAM Symposium on Discrete Algorithms. SODA: Symposium on Discrete Algorithms, 750–784.","ieee":"A. El-Hayek, M. Henzinger, and J. Li, “Fully dynamic approximate minimum cut in subpolynomial time per operation,” in <i>Proceedings of the 2025 Annual ACM-SIAM Symposium on Discrete Algorithms</i>, New Orleans, LA, United States, 2025, pp. 750–784.","mla":"El-Hayek, Antoine, et al. “Fully Dynamic Approximate Minimum Cut in Subpolynomial Time per Operation.” <i>Proceedings of the 2025 Annual ACM-SIAM Symposium on Discrete Algorithms</i>, Society for Industrial and Applied Mathematics, 2025, pp. 750–84, doi:<a href=\"https://doi.org/10.1137/1.9781611978322.22\">10.1137/1.9781611978322.22</a>.","chicago":"El-Hayek, Antoine, Monika Henzinger, and Jason Li. “Fully Dynamic Approximate Minimum Cut in Subpolynomial Time per Operation.” In <i>Proceedings of the 2025 Annual ACM-SIAM Symposium on Discrete Algorithms</i>, 750–84. Society for Industrial and Applied Mathematics, 2025. <a href=\"https://doi.org/10.1137/1.9781611978322.22\">https://doi.org/10.1137/1.9781611978322.22</a>.","short":"A. El-Hayek, M. Henzinger, J. Li, in:, Proceedings of the 2025 Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2025, pp. 750–784.","apa":"El-Hayek, A., Henzinger, M., &#38; Li, J. (2025). Fully dynamic approximate minimum cut in subpolynomial time per operation. In <i>Proceedings of the 2025 Annual ACM-SIAM Symposium on Discrete Algorithms</i> (pp. 750–784). New Orleans, LA, United States: Society for Industrial and Applied Mathematics. <a href=\"https://doi.org/10.1137/1.9781611978322.22\">https://doi.org/10.1137/1.9781611978322.22</a>"},"author":[{"first_name":"Antoine","orcid":"0000-0003-4268-7368","last_name":"El-Hayek","id":"888a098e-fcac-11ee-aff7-d347be57b725","full_name":"El-Hayek, Antoine"},{"first_name":"Monika H","orcid":"0000-0002-5008-6530","last_name":"Henzinger","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","full_name":"Henzinger, Monika H"},{"full_name":"Li, Jason","last_name":"Li","first_name":"Jason"}],"_id":"19982","date_created":"2025-07-10T13:08:57Z","acknowledgement":"This project has received funding from the European Research Council (ERC) under the European Union’sHorizon 2020 research and innovation programme (MoDynStruct, No. 101019564) and the Austrian Science Fund(FWF) grant DOI 10.55776/Z422, grant DOI 10.55776/I5982, and grant DOI 10.55776/P33775 with additional funding from the netidee SCIENCE Stiftung, 2020–2024.","article_processing_charge":"No","publication_identifier":{"eisbn":["9781611978322"]},"conference":{"location":"New Orleans, LA, United States","end_date":"2025-01-15","start_date":"2025-01-12","name":"SODA: Symposium on Discrete Algorithms"},"department":[{"_id":"MoHe"}],"OA_place":"repository","page":"750-784","title":"Fully dynamic approximate minimum cut in subpolynomial time per operation","external_id":{"arxiv":["2412.15069"]},"year":"2025","publication":"Proceedings of the 2025 Annual ACM-SIAM Symposium on Discrete Algorithms","project":[{"_id":"bd9ca328-d553-11ed-ba76-dc4f890cfe62","name":"The design and evaluation of modern fully dynamic data structures","call_identifier":"H2020","grant_number":"101019564"},{"name":"Efficient algorithms","_id":"34def286-11ca-11ed-8bc3-da5948e1613c","grant_number":"Z00422"},{"grant_number":"I05982","name":"Static and Dynamic Hierarchical Graph Decompositions","_id":"bda196b2-d553-11ed-ba76-8e8ee6c21103"},{"_id":"bd9e3a2e-d553-11ed-ba76-8aa684ce17fe","name":"Fast Algorithms for a Reactive Network Layer","grant_number":"P33775"}]},{"isi":1,"type":"journal_article","intvolume":"        19","PlanS_conform":"1","publisher":"American Chemical Society","file_date_updated":"2025-12-30T09:07:31Z","_id":"19998","author":[{"first_name":"Xiaohui","last_name":"Ju","full_name":"Ju, Xiaohui"},{"last_name":"Chen","first_name":"Chuanrui","full_name":"Chen, Chuanrui"},{"full_name":"Oral, Cagatay M.","last_name":"Oral","first_name":"Cagatay M."},{"last_name":"Sevim","first_name":"Semih","full_name":"Sevim, Semih"},{"full_name":"Golestanian, Ramin","first_name":"Ramin","last_name":"Golestanian"},{"full_name":"Sun, Mengmeng","last_name":"Sun","first_name":"Mengmeng"},{"last_name":"Bouzari","first_name":"Negin","full_name":"Bouzari, Negin"},{"full_name":"Lin, Xiankun","last_name":"Lin","first_name":"Xiankun"},{"full_name":"Urso, 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Technology roadmap of micro/nanorobots. ACS Nano. 19(27), 24174–24334.","ieee":"X. Ju <i>et al.</i>, “Technology roadmap of micro/nanorobots,” <i>ACS Nano</i>, vol. 19, no. 27. American Chemical Society, pp. 24174–24334, 2025.","ama":"Ju X, Chen C, Oral CM, et al. Technology roadmap of micro/nanorobots. <i>ACS Nano</i>. 2025;19(27):24174-24334. doi:<a href=\"https://doi.org/10.1021/acsnano.5c03911\">10.1021/acsnano.5c03911</a>","apa":"Ju, X., Chen, C., Oral, C. M., Sevim, S., Golestanian, R., Sun, M., … Pumera, M. (2025). Technology roadmap of micro/nanorobots. <i>ACS Nano</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsnano.5c03911\">https://doi.org/10.1021/acsnano.5c03911</a>","short":"X. Ju, C. Chen, C.M. Oral, S. Sevim, R. Golestanian, M. Sun, N. Bouzari, X. Lin, M. Urso, J.S. Nam, Y. Cho, X. Peng, F.C. Landers, S. Yang, A. Adibi, N. Taz, R. Wittkowski, D. Ahmed, W. Wang, V. Magdanz, M. Medina-Sánchez, M. Guix, N. Bari, B. Behkam, R. Kapral, Y. Huang, J. Tang, B. Wang, K. Morozov, A. Leshansky, S.A. Abbasi, H. Choi, S. Ghosh, B. Borges Fernandes, G. Battaglia, P. Fischer, A. Ghosh, B. Jurado Sánchez, A. Escarpa, Q. Martinet, J.A. Palacci, E. Lauga, J. Moran, M.A. Ramos-Docampo, B. Städler, R.S. Herrera Restrepo, G. Yossifon, J.D. Nicholas, J. Ignés-Mullol, J. Puigmartí-Luis, Y. Liu, L.D. Zarzar, C.W. Shields, L. Li, S. Li, X. Ma, D.H. Gracias, O. Velev, S. Sánchez, M.J. Esplandiu, J. Simmchen, A. Lobosco, S. Misra, Z. Wu, J. Li, A. Kuhn, A. Nourhani, T. Maric, Z. Xiong, A. Aghakhani, Y. Mei, Y. Tu, F. Peng, E. Diller, M.S. Sakar, A. Sen, J. Law, Y. Sun, A. Pena-Francesch, K. Villa, H. Li, D.E. Fan, K. Liang, T.J. Huang, X.-Z. Chen, S. Tang, X. Zhang, J. Cui, H. Wang, W. Gao, V. Kumar Bandari, O.G. Schmidt, X. Wu, J. Guan, M. Sitti, B.J. Nelson, S. Pané, L. Zhang, H. Shahsavan, Q. He, I.-D. Kim, J. Wang, M. Pumera, ACS Nano 19 (2025) 24174–24334.","chicago":"Ju, Xiaohui, Chuanrui Chen, Cagatay M. Oral, Semih Sevim, Ramin Golestanian, Mengmeng Sun, Negin Bouzari, et al. “Technology Roadmap of Micro/Nanorobots.” <i>ACS Nano</i>. American Chemical Society, 2025. <a href=\"https://doi.org/10.1021/acsnano.5c03911\">https://doi.org/10.1021/acsnano.5c03911</a>."},"department":[{"_id":"JePa"}],"article_processing_charge":"Yes (in subscription journal)","acknowledgement":"The content is solely the responsibility of the authors and does not necessarily represent the official views of the funding agencies. Martin Pumera acknowledges the financial support of Grant Agency of the Czech Republic (EXPRO: 25-15484X). Xiaohui Ju, Xia Peng and Cagatay M. Oral acknowledge ERDF/ESF project TECHSCALE (No. CZ.02.01.01/00/22_008/0004587) for financial support. Xiaohui Ju acknowledges the financial support from Czech Grant Agency GACR standard grant No. 25-15996S. Salvador Pane, Fabian Landers and Semih Sevim acknowledge funding from the European Union's Horizon 2020 Proactive Open program under FETPROACT-EIC-05-2019 ANGIE (No. 952152) and the European Union’s Horizon Europe Research and Innovation Programme under the EVA project (GA no. 101047081).Li Zhang acknowledges funding support from the Hong Kong Research Grants Council (RGC) with grant numbers R4015-2, RFS2122-4S03, and STG1/E-401/23-N. Hamed Shahsavan acknowledges Natural Sciences and Engineering Research Council of Canada (NSERC). Cagatay M. Oral and Hamed Shahsavan were in part funded by the WIN-CEITEC BUT Joint Seed Funding Program. Qiang He and Xiankun Lin acknowledge the National Natural Science Foundation of China (22193033, U22A20346) and Heilongjiang Provincial Key R&D Program (2022ZX02C23) for providing financial support. Il-Doo Kim acknowledges the National Research Foundation of Korea (NRF) grant funded by the Korea government (MSIT) (No. RS-2024-00435493). Ramin Golestanian acknowledges support from the Max Planck School Matter to Life and the MaxSynBio Consortium which are jointly funded by the Federal Ministry of Education and Research (BMBF) of Germany and the Max Planck Society. Bradley J. Nelson and Semih Sevim acknowledge funding from the Swiss National Science Foundation under SNSF-Sinergia project no. 198643. Raphael Wittkowski is funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) − 535275785. Daniel Ahmed acknowledges the support provided by the European Research Council, as part of the European Union’s Horizon 2020 research and innovation program (grant agreement 853309, SONOBOTS) and Swiss National Science Foundation (SNSF) under the SNSF Project funding MINT 2022 grant agreement No. 213058. Daniel Ahmed also extends thanks to Zhiyuan Zhang, Mahmoud Medany, and Prajwal Agrawal for helpful discussions. Wei Wang acknowledges the National Natural Science Foundation of China (T2322006) and the Shenzhen Science and Technology Program (RCYX20210609103122038). Mariana Medina-Sánchez acknowledges the financial support received from the European Union’s Horizon 2020 research and innovation program (ERC Starting Grant Nr. 853609), the HORIZON-MSCA-2022-COFUND-101126600-SmartBRAIN3, and the Grant PID2023-148899OA-I00 funded by MICIU/AEI/ 10.13039/501100011033. Maria Guix acknowledges the financial support from the Spanish Ministry of Science (grants RYC2020-945030119-I and PID2023-151682NA-I00 funded by MCIN/ AEI /10.13039/501100011033/ and FEDER) and Unidades de Excelencia María de Maeztu 2021 CEX2021-001202-M. Bahareh Behkam and Naimat Kalim Bari acknowledge support from the National Science Foundation (CBET-2318093). Naimat Kalim Bari also gratefully acknowledges financial support from the Virginia Tech Presidential Postdoctoral Fellowship. Raymond Kapral acknowledges the Natural Sciences and Engineering Research Council of Canada. Giuseppe Battaglia, Subhadip Ghosh and Bárbara Borges Fernandes thank the European Research Council ChessTaG grant 769798 (G.B.); Ministry of Science and Innovation of Spain, Proyectos I+D+I PID2020-119914RBI00 and Proyectos I+D+I PID2023-149206OB-I00 and the Agencia de Gestión de Ayudas Universitarias y de Investigación (AGAUR) for the grant SGR 01538 and for SG fellowship (2022 BP 00214). Alexander Leshansky and Konstantin Morozov acknowledge the support of the Israel Science Foundation (ISF) via grant no. 2899/21. Alberto Escarpa and Beatriz Jurado Sánchez acknowledge support from The Spanish Ministry of Science, Innovation and Universities [Grant PID2023-152298NB-I00 funded by MCIN/AEI/10.13039/501100011033 and FEDER, UE (A.E, B. J. S), grant TED2021-132720B-I00, funded by MCIN/AEI/10.13039/501100011033 and the European Union “NextGenerationEU”/PRTR (A.E, B. J. S); grant CNS2023-144653 funded by MCIN/AEI/10.13039/ 501100011033 and the European Union “NextGenerationEU”/PRTR] and Junta de Comunidades de Castilla la Mancha (grant number SBPLY/23/180225/000058). Jeremie Palacci acknowledges support from the European Union through ERC grant (VULCAN, 101086998). Josep Puigmartí-Luis acknowledges the Agencia Estatal de Investigación (AEI) for the María de Maeztu, project no. CEX2021-001202-M, the Ministerio de Ciencia, Innovación y Universidades (Grant No. PID2020-116612RB-C33 funded by MCIN/AEI/10.13039/501100011033) and the Generalitat de Catalunya (2021 SGR 00270). James D. Nicholas, Jordi Ignés-Mullol, and Josep Puigmartí-Luis acknowledge support from the European Union’s Horizon Europe Research and Innovation Programme under the EVA project (GA no: 101047081). Josep Puigmartí-Luis and Jordi Ignés-Mullol acknowledge support from the European Union’s Horizon 2020 Proactive Open program under FETPROACT-EIC-05-2019 ANGIE (No. 952152). Jordi Ignés-Mullol also acknowledges the Ministerio de Ciencia, Innovación y Universidades (Grant No. PID2022-137713NB-C21 funded by MICIU/AEI/10.13039/501100011033). Lauren Zarzar and Yutong Liu acknowledge support from the US Army Research Office (Grant W911NF-18-1-0414). Longqiu Li acknowledges the National Natural Science Foundation of China (52125505, U23A20637) for providing financial support. Wyatt Shields acknowledges support from the National Science Foundation (NSF) through a CAREER grant (CBET 2143419). Xing Ma acknowledges the support from Shenzhen Science and Technology Program (RCJC20231211090000001). David H. Gracias acknowledges support from the NIH-NIBIB (R01EB017742). The content is solely the responsibility of the authors and does not necessarily represent the official views of the NIH. Samuel Sánchez acknowledges funding from the European Research Council (ERC) under the European Union’s Horizon 2020 and Horizon Europe research and innovation programmes (grants agreement No 866348, i-NanoSwarms), the CERCA program by the Generalitat de Catalunya, the project 2021 SGR 01606, and the \"Centro de Excelencia Severo Ochoa\" (Grant CEX2023-001282-S). Maria Jose Esplandiu acknowledges the Ministerio de Ciencia e Innovación of Spain (MICIN) through PID 2021-124568NB-I00 and TED2021-129898B-C21 project. Sarthak Misra and Antonio Lobosco acknowledge funding from European Research Council (ERC) under the European Union’s Horizon 2020 Research and Innovation Programme (Grant Nr. 866494, project-MAESTRO). Jinxing Li acknowledges support from the National Science Foundation under Award Nos. CMMI 2323917, ECCS-2216131, ECCS 2339495, ECCS-2334134, NIH NIBIB Trailblazer R21 Award, and Henry Ford Hospital + MSU Cancer Research Pilot Award. Ze Xiong acknowledges the financial support from the International S&T Cooperation Program of Shanghai (24490710900) and the start-up grant from ShanghaiTech University (2023F0209-000-02). Yongfeng Mei acknowledges the National Natural Science Foundation of China (62375054), Science and Technology Commission of Shanghai Municipality (24520750200, 24CL2900200), and Shanghai Talent Programs. Ayusman Sen thanks the National Science Foundation, the Air Force Office of Scientific Research, and the Sloan Foundation for their financial support. Abdon Pena-Francesch acknowledges support from the Air Force Office of Scientific Research under award number FA9550-24-1-0185. Katherine Villa acknowledges funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (GA no. 101076680; PhotoSwim) and the support from the Spanish Ministry of Science (MCIN/AEI/10.13039/501100011033) and the European Union (Next generation EU/PRTR) through the Ramón y Cajal grant, RYC2021-031075-I. Kang Liang acknowledges support from the Australian Research Council (DP250101401 and FT220100479) and the National Breast Cancer Foundation, Australia (IIRS-22–104). Jizhai Cui acknowledges the National Key Technologies R&D Program of China (2022YFA1207000) and Shanghai Rising-Star Program (24QA2700700). Xiang-Zhong Chen acknowledges the National Natural Science Foundation of China (52473254) and the National Key Research and Development Program of China (2023YFB35070003)","date_created":"2025-07-10T14:53:27Z","publication_identifier":{"issn":["1936-0851"],"eissn":["1936-086X"]},"volume":19,"article_type":"review","title":"Technology roadmap of micro/nanorobots","external_id":{"pmid":["40577644"],"isi":["001519731400001"]},"project":[{"name":"VULCAN: matter, powered from within","_id":"bdac72da-d553-11ed-ba76-eae56e802b74","grant_number":"101086998"}],"publication":"ACS Nano","year":"2025","OA_place":"publisher","page":"24174-24334","license":"https://creativecommons.org/licenses/by/4.0/","file":[{"checksum":"5f6034144bf9f649ff74fed01b04aa22","date_created":"2025-12-30T09:07:31Z","file_id":"20901","success":1,"file_name":"2025_ACSNano_Ju.pdf","file_size":11892237,"creator":"dernst","access_level":"open_access","date_updated":"2025-12-30T09:07:31Z","content_type":"application/pdf","relation":"main_file"}],"day":"27","oa":1,"language":[{"iso":"eng"}],"date_updated":"2025-12-30T09:07:44Z","oa_version":"Published Version","issue":"27","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pmid":1,"doi":"10.1021/acsnano.5c03911","month":"06","OA_type":"hybrid","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_published":"2025-06-27T00:00:00Z","status":"public","ddc":["540"],"publication_status":"published","abstract":[{"lang":"eng","text":"nspired by Richard Feynman’s 1959 lecture and the 1966 film Fantastic Voyage, the field of micro/nanorobots has evolved from science fiction to reality, with significant advancements in biomedical and environmental applications. Despite the rapid progress, the deployment of functional micro/nanorobots remains limited. This review of the technology roadmap identifies key challenges hindering their widespread use, focusing on propulsion mechanisms, fundamental theoretical aspects, collective behavior, material design, and embodied intelligence. We explore the current state of micro/nanorobot technology, with an emphasis on applications in biomedicine, environmental remediation, analytical sensing, and other industrial technological aspects. Additionally, we analyze issues related to scaling up production, commercialization, and regulatory frameworks that are crucial for transitioning from research to practical applications. We also emphasize the need for interdisciplinary collaboration to address both technical and nontechnical challenges, such as sustainability, ethics, and business considerations. Finally, we propose a roadmap for future research to accelerate the development of micro/nanorobots, positioning them as essential tools for addressing grand challenges and enhancing the quality of life."}]},{"pmid":1,"doi":"10.1038/s41467-025-60668-7","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"OA_type":"gold","month":"07","status":"public","date_published":"2025-07-01T00:00:00Z","publication_status":"published","abstract":[{"lang":"eng","text":"While the most widely used CRISPR-Cas enzyme is the Cas9 endonuclease from Streptococcus pyogenes (Cas9), it exhibits single-turnover enzyme kinetics which leads to long residence times on product DNA. This blocks access to DNA repair machinery and acts as a major bottleneck during CRISPR-Cas9 gene editing. Cas9 can eventually be removed from the product by extrinsic factors, such as translocating polymerases, but the mechanisms contributing to Cas9 dissociation following cleavage remain poorly understood. Here, we employ truncated guide RNAs as a strategy to weaken PAM-distal nucleic acid interactions and promote faster enzyme turnover. Using kinetics-guided cryo-EM, we examine the conformational landscape of a multi-turnover Cas9, including the first detailed snapshots of Cas9 dissociating from product DNA. We discovered that while the PAM-distal product dissociates from Cas9 following cleavage, tight binding of the PAM-proximal product directly inhibits re-binding of new targets. Our work provides direct evidence as to why Cas9 acts as a single-turnover enzyme and will guide future Cas9 engineering efforts."}],"ddc":["570"],"file":[{"date_updated":"2025-07-14T08:28:25Z","creator":"dernst","access_level":"open_access","content_type":"application/pdf","relation":"main_file","date_created":"2025-07-14T08:28:25Z","file_id":"20018","checksum":"fa9a1eaa7e2e60467768cbaed307aceb","success":1,"file_size":6875712,"file_name":"2025_NatureComm_Kiernan.pdf"}],"day":"01","oa":1,"language":[{"iso":"eng"}],"oa_version":"Published Version","date_updated":"2025-07-14T08:30:06Z","department":[{"_id":"LeSa"}],"publication_identifier":{"eissn":["2041-1723"]},"acknowledgement":"We thank Dr. Kenneth Johnson for assistance with kinetic analysis and helpful discussion as well as Dr. Jack Bravo and members of the Taylor lab for insightful comments on the manuscript. Data were collected at the Sauer Structural Biology Laboratory at the University of Texas at Austin. This work was supported by a National Institutes of Health grant R35GM138348 (to D.W.T.). The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health. Computational resources for this work were supported by the Welch Foundation grant F-1938 (to D.W.T.).","date_created":"2025-07-13T22:01:21Z","article_processing_charge":"Yes","year":"2025","publication":"Nature Communications","external_id":{"pmid":["40593576"]},"title":"Visualization of a multi-turnover Cas9 after product release","article_type":"original","volume":16,"OA_place":"publisher","type":"journal_article","DOAJ_listed":"1","PlanS_conform":"1","publisher":"Springer Nature","intvolume":"        16","author":[{"full_name":"Kiernan, Kaitlyn","last_name":"Kiernan","id":"91e8ab53-b70a-11ef-adcb-f779f833b451","first_name":"Kaitlyn"},{"full_name":"Taylor, David W.","last_name":"Taylor","first_name":"David W."}],"file_date_updated":"2025-07-14T08:28:25Z","_id":"20002","citation":{"apa":"Kiernan, K., &#38; Taylor, D. W. (2025). Visualization of a multi-turnover Cas9 after product release. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-025-60668-7\">https://doi.org/10.1038/s41467-025-60668-7</a>","short":"K. Kiernan, D.W. Taylor, Nature Communications 16 (2025).","chicago":"Kiernan, Kaitlyn, and David W. Taylor. “Visualization of a Multi-Turnover Cas9 after Product Release.” <i>Nature Communications</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41467-025-60668-7\">https://doi.org/10.1038/s41467-025-60668-7</a>.","ieee":"K. Kiernan and D. W. Taylor, “Visualization of a multi-turnover Cas9 after product release,” <i>Nature Communications</i>, vol. 16. Springer Nature, 2025.","mla":"Kiernan, Kaitlyn, and David W. Taylor. “Visualization of a Multi-Turnover Cas9 after Product Release.” <i>Nature Communications</i>, vol. 16, 5681, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1038/s41467-025-60668-7\">10.1038/s41467-025-60668-7</a>.","ista":"Kiernan K, Taylor DW. 2025. Visualization of a multi-turnover Cas9 after product release. Nature Communications. 16, 5681.","ama":"Kiernan K, Taylor DW. Visualization of a multi-turnover Cas9 after product release. <i>Nature Communications</i>. 2025;16. doi:<a href=\"https://doi.org/10.1038/s41467-025-60668-7\">10.1038/s41467-025-60668-7</a>"},"has_accepted_license":"1","quality_controlled":"1","article_number":"5681","scopus_import":"1"},{"arxiv":1,"oa_version":"Published Version","date_updated":"2025-09-30T14:00:26Z","issue":"1","language":[{"iso":"eng"}],"oa":1,"day":"01","file":[{"relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"dernst","date_updated":"2025-07-14T07:02:38Z","file_size":9769204,"file_name":"2025_SciPostPhys_AlHyder.pdf","success":1,"checksum":"a2ce71aab685b7ea29e7abcf81e2fcc1","file_id":"20014","date_created":"2025-07-14T07:02:38Z"}],"corr_author":"1","ddc":["530"],"abstract":[{"lang":"eng","text":"The problem of mobile impurities in quantum baths is of fundamental importance in many-body physics. There has recently been significant progress regarding our understanding of this due to cold atom experiments, but so far it has mainly been concerned with cases where the bath has no or only weak interactions, or the impurity interacts weakly with the bath. Here, we address this gap by developing a new theoretical framework for exploring a mobile impurity interacting strongly with a highly correlated bath of bosons in the quantum critical regime of a Mott insulator (MI) to superfluid (SF) quantum phase transition. Our framework is based on a powerful quantum Gutzwiller (QGW) description of the bosonic bath combined with diagrammatic field theory for the impurity-bath interactions. By resumming a selected class of diagrams to infinite order, a rich picture emerges where the impurity is dressed by the fundamental modes of the bath, which change character from gapped particle-hole excitations in the MI to Higgs and gapless Goldstone modes in the SF. This gives rise to the existence of several quasiparticle (polaron) branches with properties reflecting the strongly correlated environment. In particular, one polaron branch exhibits a sharp cusp in its energy, while a new ground-state polaron emerges at the O(2) quantum phase transition point for integer filling, which reflects the nonanalytic behavior at the transition and the appearance of the Goldstone mode in the SF phase. Smooth versions of these features are inherited in the polaron spectrum away from integer filling due to the influence of Mott physics on the bosonic bath. We furthermore compare our diagrammatic results with quantum Monte Carlo calculations, obtaining excellent agreement. This accuracy is quite remarkable for such a highly non-trivial case of strong interactions between the impurity and bosons in a maximally correlated quantum critical regime, and it establishes the utility of our framework. Finally, our results show how impurities can be used as quantum sensors and highlight fundamental differences between experiments performed at a fixed particle number or a fixed chemical potential."}],"publication_status":"published","status":"public","date_published":"2025-07-01T00:00:00Z","OA_type":"diamond","month":"07","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","doi":"10.21468/SciPostPhys.19.1.002","citation":{"ama":"Al Hyder R, Colussi VE, Čufar M, Brand J, Recati A, Bruun GM. Lattice Bose polarons at strong coupling and quantum criticality. <i>Scipost Physics</i>. 2025;19(1). doi:<a href=\"https://doi.org/10.21468/SciPostPhys.19.1.002\">10.21468/SciPostPhys.19.1.002</a>","ista":"Al Hyder R, Colussi VE, Čufar M, Brand J, Recati A, Bruun GM. 2025. Lattice Bose polarons at strong coupling and quantum criticality. Scipost Physics. 19(1), 002.","ieee":"R. Al Hyder, V. E. Colussi, M. Čufar, J. Brand, A. Recati, and G. M. Bruun, “Lattice Bose polarons at strong coupling and quantum criticality,” <i>Scipost Physics</i>, vol. 19, no. 1. SciPost Foundation, 2025.","mla":"Al Hyder, Ragheed, et al. “Lattice Bose Polarons at Strong Coupling and Quantum Criticality.” <i>Scipost Physics</i>, vol. 19, no. 1, 002, SciPost Foundation, 2025, doi:<a href=\"https://doi.org/10.21468/SciPostPhys.19.1.002\">10.21468/SciPostPhys.19.1.002</a>.","chicago":"Al Hyder, Ragheed, Victor E. Colussi, Matija Čufar, Joachim Brand, Alessio Recati, and Georg M. Bruun. “Lattice Bose Polarons at Strong Coupling and Quantum Criticality.” <i>Scipost Physics</i>. SciPost Foundation, 2025. <a href=\"https://doi.org/10.21468/SciPostPhys.19.1.002\">https://doi.org/10.21468/SciPostPhys.19.1.002</a>.","apa":"Al Hyder, R., Colussi, V. E., Čufar, M., Brand, J., Recati, A., &#38; Bruun, G. M. (2025). Lattice Bose polarons at strong coupling and quantum criticality. <i>Scipost Physics</i>. SciPost Foundation. <a href=\"https://doi.org/10.21468/SciPostPhys.19.1.002\">https://doi.org/10.21468/SciPostPhys.19.1.002</a>","short":"R. Al Hyder, V.E. Colussi, M. Čufar, J. Brand, A. Recati, G.M. Bruun, Scipost Physics 19 (2025)."},"article_number":"002","quality_controlled":"1","scopus_import":"1","has_accepted_license":"1","file_date_updated":"2025-07-14T07:02:38Z","_id":"20003","author":[{"first_name":"Ragheed","id":"d1c405be-ae15-11ed-8510-ccf53278162e","last_name":"Al Hyder","full_name":"Al Hyder, Ragheed"},{"last_name":"Colussi","first_name":"Victor E.","full_name":"Colussi, Victor E."},{"first_name":"Matija","last_name":"Čufar","full_name":"Čufar, Matija"},{"first_name":"Joachim","last_name":"Brand","full_name":"Brand, Joachim"},{"full_name":"Recati, Alessio","last_name":"Recati","first_name":"Alessio"},{"full_name":"Bruun, Georg M.","last_name":"Bruun","first_name":"Georg M."}],"PlanS_conform":"1","publisher":"SciPost Foundation","intvolume":"        19","isi":1,"type":"journal_article","DOAJ_listed":"1","OA_place":"publisher","publication":"Scipost Physics","year":"2025","volume":19,"article_type":"original","title":"Lattice Bose polarons at strong coupling and quantum criticality","external_id":{"arxiv":["2412.07597"],"isi":["001523515000002"]},"publication_identifier":{"eissn":["2542-4653"]},"article_processing_charge":"No","date_created":"2025-07-13T22:01:22Z","department":[{"_id":"MiLe"}]},{"status":"public","date_published":"2025-06-20T00:00:00Z","publication_status":"published","abstract":[{"lang":"eng","text":"A long-standing conjecture of Eckhoff, Linhart, and Welzl, which would generalize McMullen’s Upper Bound Theorem for polytopes and refine asymptotic bounds due to Clarkson, asserts that for k ⩽ ⌊(n-d-2)/2⌋, the complexity of the (⩽ k)-level in a simple arrangement of n hemispheres in S^d is maximized for arrangements that are polar duals of neighborly d-polytopes. We prove this conjecture in the case n = d+4. By Gale duality, this implies the following result about crossing numbers: In every spherical arc drawing of K_n in S² (given by a set V ⊂ S² of n unit vectors connected by spherical arcs), the number of crossings is at least 1/4 ⌊n/2⌋ ⌊(n-1)/2⌋ ⌊(n-2)/2⌋ ⌊(n-3)/2⌋. This lower bound is attained if every open linear halfspace contains at least ⌊(n-2)/2⌋ of the vectors in V.\r\nMoreover, we determine the space of all linear and affine relations that hold between the face numbers of levels in simple arrangements of n hemispheres in S^d. This completes a long line of research on such relations, answers a question posed by Andrzejak and Welzl in 2003, and generalizes the classical fact that the Dehn-Sommerville relations generate all linear relations between the face numbers of simple polytopes (which correspond to the 0-level).\r\nTo prove these results, we introduce the notion of the g-matrix, which encodes the face numbers of levels in an arrangement and generalizes the classical g-vector of a polytope."}],"ddc":["510"],"doi":"10.4230/LIPIcs.SoCG.2025.75","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"OA_type":"gold","month":"06","language":[{"iso":"eng"}],"oa":1,"arxiv":1,"alternative_title":["LIPIcs"],"oa_version":"Published Version","date_updated":"2025-07-14T07:19:19Z","file":[{"file_id":"20015","date_created":"2025-07-14T07:11:04Z","checksum":"a8f7feb1aa3b896e31195841a989d622","file_size":952807,"file_name":"2025_LIPIcs.SoCG_Streltsova.pdf","success":1,"date_updated":"2025-07-14T07:11:04Z","access_level":"open_access","creator":"dernst","relation":"main_file","content_type":"application/pdf"}],"corr_author":"1","day":"20","year":"2025","publication":" 41st International Symposium on Computational Geometry","title":"Levels in arrangements: Linear relations, the g-matrix, and applications to crossing numbers","external_id":{"arxiv":["2504.07752","2504.07770"]},"volume":332,"OA_place":"publisher","department":[{"_id":"UlWa"}],"conference":{"name":"SoCG: Symposium on Computational Geometry","location":"Kanazawa, Japan","start_date":"2025-06-23","end_date":"2025-06-27"},"publication_identifier":{"eissn":["1868-8969"],"isbn":["9783959773706"]},"date_created":"2025-07-13T22:01:22Z","article_processing_charge":"Yes","author":[{"id":"57a170da-dc96-11ea-b7c8-ab3565071bf7","last_name":"Streltsova","first_name":"Elizaveta","full_name":"Streltsova, Elizaveta"},{"full_name":"Wagner, Uli","first_name":"Uli","id":"36690CA2-F248-11E8-B48F-1D18A9856A87","last_name":"Wagner","orcid":"0000-0002-1494-0568"}],"_id":"20004","file_date_updated":"2025-07-14T07:11:04Z","citation":{"ieee":"E. Streltsova and U. Wagner, “Levels in arrangements: Linear relations, the g-matrix, and applications to crossing numbers,” in <i> 41st International Symposium on Computational Geometry</i>, Kanazawa, Japan, 2025, vol. 332.","ista":"Streltsova E, Wagner U. 2025. Levels in arrangements: Linear relations, the g-matrix, and applications to crossing numbers.  41st International Symposium on Computational Geometry. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 332, 75.","mla":"Streltsova, Elizaveta, and Uli Wagner. “Levels in Arrangements: Linear Relations, the g-Matrix, and Applications to Crossing Numbers.” <i> 41st International Symposium on Computational Geometry</i>, vol. 332, 75, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.75\">10.4230/LIPIcs.SoCG.2025.75</a>.","ama":"Streltsova E, Wagner U. Levels in arrangements: Linear relations, the g-matrix, and applications to crossing numbers. In: <i> 41st International Symposium on Computational Geometry</i>. Vol 332. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2025. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.75\">10.4230/LIPIcs.SoCG.2025.75</a>","short":"E. Streltsova, U. Wagner, in:,  41st International Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025.","apa":"Streltsova, E., &#38; Wagner, U. (2025). Levels in arrangements: Linear relations, the g-matrix, and applications to crossing numbers. In <i> 41st International Symposium on Computational Geometry</i> (Vol. 332). Kanazawa, Japan: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.75\">https://doi.org/10.4230/LIPIcs.SoCG.2025.75</a>","chicago":"Streltsova, Elizaveta, and Uli Wagner. “Levels in Arrangements: Linear Relations, the g-Matrix, and Applications to Crossing Numbers.” In <i> 41st International Symposium on Computational Geometry</i>, Vol. 332. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.75\">https://doi.org/10.4230/LIPIcs.SoCG.2025.75</a>."},"has_accepted_license":"1","quality_controlled":"1","scopus_import":"1","article_number":"75","type":"conference","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","intvolume":"       332"},{"OA_place":"publisher","year":"2025","project":[{"name":"Mathematics, Computer Science","_id":"268116B8-B435-11E9-9278-68D0E5697425","grant_number":"Z00342","call_identifier":"FWF"},{"grant_number":"I02979-N35","call_identifier":"FWF","_id":"2561EBF4-B435-11E9-9278-68D0E5697425","name":"Persistence and stability of geometric complexes"}],"publication":"41st International Symposium on Computational Geometry","title":"On spheres with k points inside","external_id":{"arxiv":["2410.21204"]},"volume":332,"publication_identifier":{"isbn":["9783959773706"],"eissn":["1868-8969"]},"date_created":"2025-07-13T22:01:22Z","acknowledgement":"Herbert Edelsbrunner: partially supported by the Wittgenstein Prize, Austrian Science\r\nFund (FWF), grant no. Z 342-N31, and by the DFG Collaborative Research Center TRR 109,\r\nAustrian Science Fund (FWF), grant no. I 02979-N35.\r\nAlexey Garber: partially supported by the Simons Foundation.\r\nMorteza Saghafian: partially supported by the Wittgenstein Prize, Austrian Science Fund (FWF),\r\ngrant no. Z 342-N31, and by the DFG Collaborative Research Center TRR 109, Austrian Science\r\nFund (FWF), grant no. I 02979-N35","article_processing_charge":"Yes","department":[{"_id":"HeEd"}],"conference":{"location":"Kanazawa, Japan","end_date":"2025-06-27","start_date":"2025-06-23","name":"SoCG: Symposium on Computational Geometry"},"citation":{"ista":"Edelsbrunner H, Garber A, Saghafian M. 2025. On spheres with k points inside. 41st International Symposium on Computational Geometry. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 332, 43.","mla":"Edelsbrunner, Herbert, et al. “On Spheres with k Points Inside.” <i>41st International Symposium on Computational Geometry</i>, vol. 332, 43, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.43\">10.4230/LIPIcs.SoCG.2025.43</a>.","ieee":"H. Edelsbrunner, A. Garber, and M. Saghafian, “On spheres with k points inside,” in <i>41st International Symposium on Computational Geometry</i>, Kanazawa, Japan, 2025, vol. 332.","ama":"Edelsbrunner H, Garber A, Saghafian M. On spheres with k points inside. In: <i>41st International Symposium on Computational Geometry</i>. Vol 332. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2025. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.43\">10.4230/LIPIcs.SoCG.2025.43</a>","short":"H. Edelsbrunner, A. Garber, M. Saghafian, in:, 41st International Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025.","apa":"Edelsbrunner, H., Garber, A., &#38; Saghafian, M. (2025). On spheres with k points inside. In <i>41st International Symposium on Computational Geometry</i> (Vol. 332). Kanazawa, Japan: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.43\">https://doi.org/10.4230/LIPIcs.SoCG.2025.43</a>","chicago":"Edelsbrunner, Herbert, Alexey Garber, and Morteza Saghafian. “On Spheres with k Points Inside.” In <i>41st International Symposium on Computational Geometry</i>, Vol. 332. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.43\">https://doi.org/10.4230/LIPIcs.SoCG.2025.43</a>."},"has_accepted_license":"1","scopus_import":"1","article_number":"43","quality_controlled":"1","author":[{"orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","first_name":"Herbert","full_name":"Edelsbrunner, Herbert"},{"full_name":"Garber, Alexey","first_name":"Alexey","last_name":"Garber"},{"full_name":"Saghafian, Morteza","id":"f86f7148-b140-11ec-9577-95435b8df824","last_name":"Saghafian","first_name":"Morteza"}],"_id":"20005","file_date_updated":"2025-07-14T07:24:22Z","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","intvolume":"       332","type":"conference","abstract":[{"text":"We generalize a classical result by Boris Delaunay that introduced Delaunay triangulations. In particular, we prove that for a locally finite and coarsely dense generic point set A in ℝ^d, every generic point of ℝ^d belongs to exactly binom(d+k,d) simplices whose vertices belong to A and whose circumspheres enclose exactly k points of A. We extend this result to the cases in which the points are weighted, and when A contains only finitely many points in ℝ^d or in 𝕊^d. Furthermore, we use the result to give a new geometric proof for the fact that volumes of hypersimplices are Eulerian numbers.","lang":"eng"}],"publication_status":"published","ddc":["510"],"status":"public","date_published":"2025-06-20T00:00:00Z","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"month":"06","OA_type":"gold","doi":"10.4230/LIPIcs.SoCG.2025.43","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","arxiv":1,"alternative_title":["LIPIcs"],"oa_version":"Published Version","date_updated":"2025-07-14T07:26:14Z","oa":1,"language":[{"iso":"eng"}],"day":"20","file":[{"checksum":"b5313ed8575ea87913c71a6e3c7513c8","file_id":"20016","date_created":"2025-07-14T07:24:22Z","file_name":"2025_LIPIcs.SoCG_Edelsbrunner.pdf","file_size":661893,"success":1,"access_level":"open_access","creator":"dernst","date_updated":"2025-07-14T07:24:22Z","relation":"main_file","content_type":"application/pdf"}],"corr_author":"1"},{"external_id":{"arxiv":["2405.17920"]},"title":"Banana trees for the persistence in time series experimentally","volume":332,"year":"2025","publication":"41st International Symposium on Computational Geometry","project":[{"grant_number":"W1260-N35","_id":"9B9290DE-BA93-11EA-9121-9846C619BF3A","name":"Vienna Graduate School on Computational Optimization"},{"_id":"2561EBF4-B435-11E9-9278-68D0E5697425","name":"Persistence and stability of geometric complexes","call_identifier":"FWF","grant_number":"I02979-N35"},{"grant_number":"Z00342","call_identifier":"FWF","_id":"268116B8-B435-11E9-9278-68D0E5697425","name":"Mathematics, Computer Science"}],"OA_place":"publisher","related_material":{"link":[{"url":"https://github.com/laraost/BananaPersist","relation":"software"}]},"conference":{"location":"Kanazawa, Japan","end_date":"2025-06-27","start_date":"2025-06-23","name":"SoCG: Symposium on Computational Geometry"},"department":[{"_id":"HeEd"}],"acknowledgement":"Lara Ost: Supported by the Vienna Graduate School on Computational Optimization\r\n(VGSCO), FWF project no. W1260-N35.\r\nSebastiano Cultrera di Montesano: Supported by the Eric and Wendy Schmidt Center at the Broad Institute of MIT and Harvard.\r\nHerbert Edelsbrunner: Partially supported by the Wittgenstein Prize, FWF grant no. Z 342-N31,\r\nand by the DFG Collaborative Research Center TRR 109, FWF grant no. I 02979-N35.","date_created":"2025-07-13T22:01:22Z","article_processing_charge":"Yes","publication_identifier":{"eissn":["1868-8969"],"isbn":["9783959773706"]},"author":[{"first_name":"Lara","last_name":"Ost","full_name":"Ost, Lara"},{"first_name":"Sebastiano","orcid":"0000-0001-6249-0832","last_name":"Cultrera di Montesano","id":"34D2A09C-F248-11E8-B48F-1D18A9856A87","full_name":"Cultrera di Montesano, Sebastiano"},{"first_name":"Herbert","orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","full_name":"Edelsbrunner, Herbert"}],"file_date_updated":"2025-07-14T08:23:38Z","_id":"20006","has_accepted_license":"1","article_number":"71","quality_controlled":"1","scopus_import":"1","citation":{"mla":"Ost, Lara, et al. “Banana Trees for the Persistence in Time Series Experimentally.” <i>41st International Symposium on Computational Geometry</i>, vol. 332, 71, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.71\">10.4230/LIPIcs.SoCG.2025.71</a>.","ieee":"L. Ost, S. Cultrera di Montesano, and H. Edelsbrunner, “Banana trees for the persistence in time series experimentally,” in <i>41st International Symposium on Computational Geometry</i>, Kanazawa, Japan, 2025, vol. 332.","ista":"Ost L, Cultrera di Montesano S, Edelsbrunner H. 2025. Banana trees for the persistence in time series experimentally. 41st International Symposium on Computational Geometry. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 332, 71.","ama":"Ost L, Cultrera di Montesano S, Edelsbrunner H. Banana trees for the persistence in time series experimentally. In: <i>41st International Symposium on Computational Geometry</i>. Vol 332. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2025. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.71\">10.4230/LIPIcs.SoCG.2025.71</a>","short":"L. Ost, S. Cultrera di Montesano, H. Edelsbrunner, in:, 41st International Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025.","apa":"Ost, L., Cultrera di Montesano, S., &#38; Edelsbrunner, H. (2025). Banana trees for the persistence in time series experimentally. In <i>41st International Symposium on Computational Geometry</i> (Vol. 332). Kanazawa, Japan: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.71\">https://doi.org/10.4230/LIPIcs.SoCG.2025.71</a>","chicago":"Ost, Lara, Sebastiano Cultrera di Montesano, and Herbert Edelsbrunner. “Banana Trees for the Persistence in Time Series Experimentally.” In <i>41st International Symposium on Computational Geometry</i>, Vol. 332. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2025.71\">https://doi.org/10.4230/LIPIcs.SoCG.2025.71</a>."},"type":"conference","intvolume":"       332","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","date_published":"2025-06-20T00:00:00Z","status":"public","abstract":[{"text":"In numerous fields, dynamic time series data require continuous updates, necessitating efficient data processing techniques for accurate analysis. This paper examines the banana tree data structure, specifically designed to efficiently maintain the multi-scale topological descriptor commonly known as persistent homology for dynamically changing time series data. We implement this data structure and conduct an experimental study to assess its properties and runtime for update operations. Our findings indicate that banana trees are highly effective with unbiased random data, outperforming state-of-the-art static algorithms in these scenarios. Additionally, our results show that real-world time series share structural properties with unbiased random walks, suggesting potential practical utility for our implementation.","lang":"eng"}],"publication_status":"published","ddc":["000"],"doi":"10.4230/LIPIcs.SoCG.2025.71","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"month":"06","OA_type":"gold","oa":1,"language":[{"iso":"eng"}],"alternative_title":["LIPIcs"],"date_updated":"2025-12-30T11:04:33Z","oa_version":"Published Version","arxiv":1,"corr_author":"1","file":[{"file_id":"20017","date_created":"2025-07-14T08:23:38Z","checksum":"3a4a7a707a56e0cfdf51428782dee55a","file_size":834623,"file_name":"2025_LIPIcs.SoCG_Ost.pdf","success":1,"date_updated":"2025-07-14T08:23:38Z","access_level":"open_access","creator":"dernst","relation":"main_file","content_type":"application/pdf"}],"day":"20"},{"day":"15","file":[{"date_created":"2025-07-14T06:13:10Z","file_id":"20012","checksum":"cf0ab9cb9c6abda188de13dc3f9a4c9b","success":1,"file_name":"2025_STOC_Anastos.pdf","file_size":706445,"date_updated":"2025-07-14T06:13:10Z","creator":"dernst","access_level":"open_access","content_type":"application/pdf","relation":"main_file"}],"corr_author":"1","arxiv":1,"oa_version":"Published Version","date_updated":"2025-07-14T06:33:50Z","ec_funded":1,"language":[{"iso":"eng"}],"oa":1,"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"month":"06","OA_type":"hybrid","doi":"10.1145/3717823.3718173","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","abstract":[{"text":"There is no known polynomial-time algorithm for graph isomorphism testing, but elementary combinatorial “refinement” algorithms seem to be very efficient in practice. Some philosophical justification for this phenomenon is provided by a classical theorem of Babai, Erdős and Selkow: an extremely simple polynomial-time combinatorial algorithm (variously known as “naïve refinement”, “naïve vertex classification”, “colour refinement” or the “1-dimensional Weisfeiler–Leman algorithm”) yields a so-called canonical labelling scheme for “almost all graphs”. More precisely, for a typical outcome of a random graph G(n,1/2), this simple combinatorial algorithm assigns labels to vertices in a way that easily permits isomorphism-testing against any other graph.","lang":"eng"}],"ddc":["000"],"status":"public","date_published":"2025-06-15T00:00:00Z","publisher":"Association for Computing Machinery","type":"conference","citation":{"mla":"Anastos, Michael, et al. “Smoothed Analysis for Graph Isomorphism.” <i>Proceedings of the 57th Annual ACM Symposium on Theory of Computing</i>, Association for Computing Machinery, 2025, pp. 2098–106, doi:<a href=\"https://doi.org/10.1145/3717823.3718173\">10.1145/3717823.3718173</a>.","ieee":"M. Anastos, M. A. Kwan, and B. Moore, “Smoothed analysis for graph isomorphism,” in <i>Proceedings of the 57th Annual ACM Symposium on Theory of Computing</i>, Prague, Czechia, 2025, pp. 2098–2106.","ista":"Anastos M, Kwan MA, Moore B. 2025. Smoothed analysis for graph isomorphism. Proceedings of the 57th Annual ACM Symposium on Theory of Computing. STOC: Symposium on Theory of Computing, 2098–2106.","ama":"Anastos M, Kwan MA, Moore B. Smoothed analysis for graph isomorphism. In: <i>Proceedings of the 57th Annual ACM Symposium on Theory of Computing</i>. Association for Computing Machinery; 2025:2098-2106. doi:<a href=\"https://doi.org/10.1145/3717823.3718173\">10.1145/3717823.3718173</a>","short":"M. Anastos, M.A. Kwan, B. Moore, in:, Proceedings of the 57th Annual ACM Symposium on Theory of Computing, Association for Computing Machinery, 2025, pp. 2098–2106.","apa":"Anastos, M., Kwan, M. A., &#38; Moore, B. (2025). Smoothed analysis for graph isomorphism. In <i>Proceedings of the 57th Annual ACM Symposium on Theory of Computing</i> (pp. 2098–2106). Prague, Czechia: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3717823.3718173\">https://doi.org/10.1145/3717823.3718173</a>","chicago":"Anastos, Michael, Matthew Alan Kwan, and Benjamin Moore. “Smoothed Analysis for Graph Isomorphism.” In <i>Proceedings of the 57th Annual ACM Symposium on Theory of Computing</i>, 2098–2106. Association for Computing Machinery, 2025. <a href=\"https://doi.org/10.1145/3717823.3718173\">https://doi.org/10.1145/3717823.3718173</a>."},"has_accepted_license":"1","quality_controlled":"1","scopus_import":"1","author":[{"full_name":"Anastos, Michael","first_name":"Michael","last_name":"Anastos","id":"0b2a4358-bb35-11ec-b7b9-e3279b593dbb"},{"full_name":"Kwan, Matthew Alan","last_name":"Kwan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","orcid":"0000-0002-4003-7567","first_name":"Matthew Alan"},{"full_name":"Moore, Benjamin","first_name":"Benjamin","last_name":"Moore","id":"6dc1a1be-bf1c-11ed-8d2b-d044840f49d6"}],"file_date_updated":"2025-07-14T06:13:10Z","_id":"20007","publication_identifier":{"issn":["0737-8017"],"isbn":["9798400715105"]},"acknowledgement":"All authors were supported by ERC Starting Grant “RANDSTRUCT” No. 101076777. Michael Anastos was also supported in part by the Austrian Science Fund (FWF)[10.55776/ESP3863424] and by the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 101034413. For Open Access purposes, the authors have applied a CC BY public copyright license to any author accepted manuscript version arising from this submission.","date_created":"2025-07-13T22:01:23Z","article_processing_charge":"Yes (via OA deal)","department":[{"_id":"MaKw"}],"conference":{"name":"STOC: Symposium on Theory of Computing","start_date":"2025-06-23","end_date":"2025-06-27","location":"Prague, Czechia"},"page":"2098-2106","OA_place":"publisher","year":"2025","project":[{"name":"Randomness and structure in combinatorics","_id":"bd95085b-d553-11ed-ba76-e55d3349be45","grant_number":"101076777"},{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","name":"IST-BRIDGE: International postdoctoral program","call_identifier":"H2020","grant_number":"101034413"},{"name":"Combinatorial Optimisation Problems on Sparse Random Graphs","_id":"8f906bd2-16d5-11f0-9cad-e07be8aa9ac9","grant_number":"ESP3863424"}],"publication":"Proceedings of the 57th Annual ACM Symposium on Theory of Computing","title":"Smoothed analysis for graph isomorphism","external_id":{"arxiv":["2410.06095"]}},{"department":[{"_id":"BeVi"}],"acknowledgement":"I thank the Vicoso group for in-depth discussions of the original article highlighted here. This work was supported by an Austrian Research Fund (FWF) grant to B.V. (PAT 8748323).","date_created":"2025-07-13T22:01:23Z","article_processing_charge":"Yes (via OA deal)","publication_identifier":{"issn":["0169-5347"]},"title":"Sex chromosome evolution in action in fourspine sticklebacks","article_type":"original","external_id":{"isi":["001550437400006"]},"volume":40,"year":"2025","publication":"Trends in Ecology and Evolution","project":[{"_id":"8ed82125-16d5-11f0-9cad-fbcae312235b","name":"Sex chromosomes in evolution and development","grant_number":"PAT 8748323"}],"page":"728-730","OA_place":"publisher","type":"journal_article","isi":1,"intvolume":"        40","PlanS_conform":"1","publisher":"Elsevier","author":[{"full_name":"Vicoso, Beatriz","first_name":"Beatriz","orcid":"0000-0002-4579-8306","last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"}],"file_date_updated":"2025-12-30T09:21:14Z","_id":"20009","has_accepted_license":"1","quality_controlled":"1","scopus_import":"1","citation":{"apa":"Vicoso, B. (2025). Sex chromosome evolution in action in fourspine sticklebacks. <i>Trends in Ecology and Evolution</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tree.2025.06.010\">https://doi.org/10.1016/j.tree.2025.06.010</a>","short":"B. Vicoso, Trends in Ecology and Evolution 40 (2025) 728–730.","chicago":"Vicoso, Beatriz. “Sex Chromosome Evolution in Action in Fourspine Sticklebacks.” <i>Trends in Ecology and Evolution</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.tree.2025.06.010\">https://doi.org/10.1016/j.tree.2025.06.010</a>.","ista":"Vicoso B. 2025. Sex chromosome evolution in action in fourspine sticklebacks. Trends in Ecology and Evolution. 40(8), 728–730.","mla":"Vicoso, Beatriz. “Sex Chromosome Evolution in Action in Fourspine Sticklebacks.” <i>Trends in Ecology and Evolution</i>, vol. 40, no. 8, Elsevier, 2025, pp. 728–30, doi:<a href=\"https://doi.org/10.1016/j.tree.2025.06.010\">10.1016/j.tree.2025.06.010</a>.","ieee":"B. Vicoso, “Sex chromosome evolution in action in fourspine sticklebacks,” <i>Trends in Ecology and Evolution</i>, vol. 40, no. 8. Elsevier, pp. 728–730, 2025.","ama":"Vicoso B. Sex chromosome evolution in action in fourspine sticklebacks. <i>Trends in Ecology and Evolution</i>. 2025;40(8):728-730. doi:<a href=\"https://doi.org/10.1016/j.tree.2025.06.010\">10.1016/j.tree.2025.06.010</a>"},"doi":"10.1016/j.tree.2025.06.010","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"month":"08","OA_type":"hybrid","date_published":"2025-08-01T00:00:00Z","status":"public","abstract":[{"lang":"eng","text":"The suppression of recombination between young X and Y chromosomes is a crucial step in their evolution, but why it occurs is not known. The detailed characterization of the polymorphic sex chromosomes of the fourspine stickleback by Liu et al. promises to shed new light on this longstanding question."}],"publication_status":"published","ddc":["570"],"corr_author":"1","file":[{"success":1,"file_size":699156,"file_name":"2025_TrendsEcoloEvolution_Vicoso.pdf","checksum":"0a7c6e8600c878dac7082681e4409b50","date_created":"2025-12-30T09:21:14Z","file_id":"20905","content_type":"application/pdf","relation":"main_file","creator":"dernst","access_level":"open_access","date_updated":"2025-12-30T09:21:14Z"}],"day":"01","language":[{"iso":"eng"}],"oa":1,"issue":"8","oa_version":"Published Version","date_updated":"2025-12-30T09:22:29Z"},{"author":[{"full_name":"Li, Liang","last_name":"Li","first_name":"Liang"},{"full_name":"Shi, Wanzhuo","last_name":"Shi","first_name":"Wanzhuo"},{"first_name":"Ankit","last_name":"Mahajan","full_name":"Mahajan, Ankit"},{"last_name":"Zhang","first_name":"Junxiang","full_name":"Zhang, Junxiang"},{"full_name":"Gómez-Gómez, Marta","last_name":"Gómez-Gómez","first_name":"Marta"},{"first_name":"Jorge","last_name":"Labella","full_name":"Labella, Jorge"},{"last_name":"Louie","first_name":"Shayan","full_name":"Louie, Shayan"},{"last_name":"Torres","first_name":"Tomás","full_name":"Torres, Tomás"},{"full_name":"Barlow, Stephen","last_name":"Barlow","first_name":"Stephen"},{"full_name":"Marder, Seth R.","first_name":"Seth R.","last_name":"Marder"},{"full_name":"Reichman, David R.","last_name":"Reichman","first_name":"David R."},{"last_name":"Venkataraman","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","orcid":"0000-0002-6957-6089","first_name":"Latha","full_name":"Venkataraman, Latha"}],"file_date_updated":"2025-12-30T09:09:53Z","_id":"20010","has_accepted_license":"1","scopus_import":"1","quality_controlled":"1","citation":{"apa":"Li, L., Shi, W., Mahajan, A., Zhang, J., Gómez-Gómez, M., Labella, J., … Venkataraman, L. (2025). Too fast for spin flipping: Absence of chirality-induced spin selectivity in coherent electron transport through single-molecule junctions. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/jacs.5c08517\">https://doi.org/10.1021/jacs.5c08517</a>","short":"L. Li, W. Shi, A. Mahajan, J. Zhang, M. Gómez-Gómez, J. Labella, S. Louie, T. Torres, S. Barlow, S.R. Marder, D.R. Reichman, L. Venkataraman, Journal of the American Chemical Society 147 (2025) 25043–25051.","chicago":"Li, Liang, Wanzhuo Shi, Ankit Mahajan, Junxiang Zhang, Marta Gómez-Gómez, Jorge Labella, Shayan Louie, et al. “Too Fast for Spin Flipping: Absence of Chirality-Induced Spin Selectivity in Coherent Electron Transport through Single-Molecule Junctions.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2025. <a href=\"https://doi.org/10.1021/jacs.5c08517\">https://doi.org/10.1021/jacs.5c08517</a>.","mla":"Li, Liang, et al. “Too Fast for Spin Flipping: Absence of Chirality-Induced Spin Selectivity in Coherent Electron Transport through Single-Molecule Junctions.” <i>Journal of the American Chemical Society</i>, vol. 147, no. 28, American Chemical Society, 2025, pp. 25043–51, doi:<a href=\"https://doi.org/10.1021/jacs.5c08517\">10.1021/jacs.5c08517</a>.","ieee":"L. Li <i>et al.</i>, “Too fast for spin flipping: Absence of chirality-induced spin selectivity in coherent electron transport through single-molecule junctions,” <i>Journal of the American Chemical Society</i>, vol. 147, no. 28. American Chemical Society, pp. 25043–25051, 2025.","ista":"Li L, Shi W, Mahajan A, Zhang J, Gómez-Gómez M, Labella J, Louie S, Torres T, Barlow S, Marder SR, Reichman DR, Venkataraman L. 2025. Too fast for spin flipping: Absence of chirality-induced spin selectivity in coherent electron transport through single-molecule junctions. Journal of the American Chemical Society. 147(28), 25043–25051.","ama":"Li L, Shi W, Mahajan A, et al. Too fast for spin flipping: Absence of chirality-induced spin selectivity in coherent electron transport through single-molecule junctions. <i>Journal of the American Chemical Society</i>. 2025;147(28):25043-25051. doi:<a href=\"https://doi.org/10.1021/jacs.5c08517\">10.1021/jacs.5c08517</a>"},"type":"journal_article","isi":1,"intvolume":"       147","publisher":"American Chemical Society","PlanS_conform":"1","title":"Too fast for spin flipping: Absence of chirality-induced spin selectivity in coherent electron transport through single-molecule junctions","external_id":{"isi":["001522009200001"]},"article_type":"original","volume":147,"year":"2025","publication":"Journal of the American Chemical Society","OA_place":"publisher","page":"25043-25051","department":[{"_id":"LaVe"}],"date_created":"2025-07-13T22:01:23Z","acknowledgement":"We thank the National Science Foundation (NSF-DMR 2241180) for supporting this research. This work was supported in part by the Institute of Science and Technology Austria. The synthesis of 1R and 1S was supported by the US Air Force Office of Scientific Research through grant no. FA9550-23-1-0648. The synthesis of 3 was supported by the Spanish MCIN/AEI/10.13039/501100011033 grant, the European Union Next Generation EU/PRTR (TED2021-131255B–C43), MCIU/AEI/10.13039/501100011033/FEDER, UE (PID) (PID2023-151167NB-I00), the Comunidad de Madrid and the Spanish State through the Recovery, Transformation and Resilience Plan [“Materiales Disruptivos Bidimensionales (2D)” (MAD2D-CM) (UAM1)-MRR Materiales Avanzados]. IMDEA Nanociencia acknowledges support from the “Severo Ochoa” Programme for Centres of Excellence in R&D (MINECO, CEX2020-001039 S). M.G.G. acknowledges MICIU, Spain, for a F.P.U. The work of DRR and AM was supported by the Spin-COntrolled Chemical Process Engineering (SCOPE) program of the Defense Advanced Research Project Agency grant HR0011-23-9-0109. Numerical calculations were performed on the Delta system at the National Center for Supercomputing Applications through allocation CHE230028 from the Advanced Cyberinfrastructure Coordination Ecosystem: Services and Support (ACCESS) program, which is supported by National Science Foundation grants #2138259, #2138286, #2138307, #2137603, and #2138296.","article_processing_charge":"Yes (via OA deal)","publication_identifier":{"issn":["0002-7863"],"eissn":["1520-5126"]},"language":[{"iso":"eng"}],"oa":1,"issue":"28","oa_version":"Published Version","date_updated":"2025-12-30T09:11:26Z","corr_author":"1","file":[{"content_type":"application/pdf","relation":"main_file","creator":"dernst","access_level":"open_access","date_updated":"2025-12-30T09:09:53Z","success":1,"file_size":5524744,"file_name":"2025_JACS_Li.pdf","checksum":"f2bbe7d64de2d0d78aa2be933d12b096","date_created":"2025-12-30T09:09:53Z","file_id":"20902"}],"day":"01","date_published":"2025-07-01T00:00:00Z","status":"public","abstract":[{"lang":"eng","text":"Chirality-induced spin selectivity (CISS), which refers to the ability of chiral molecules to preferentially select spins during electron transfer, has attracted great attention during the past two decades. However, the theoretical and experimental understanding of the CISS effect remains preliminary. In this study, we demonstrate that there is no distinguishable CISS effect in the case of coherent electron transport through single chiral molecular junctions for a set of four molecule studied here. Our conclusion is based on statistical evaluations of thousands of single-molecule junctions across four different molecules with different origins of chirality measured by the scanning tunneling microscope-based break-junction technique. The experimental results for all molecules show no dependence on external magnetic field or chirality in both conductance and current–voltage measurements. In addition, ab initio Hartree-Fork calculations combined with the nonequilibrium Green’s function method reveal that the spin–orbit coupling within chiral junctions bound to a few gold atoms is generally too weak to induce detectable spin polarizations from spin flipping or spin filtering during the ultrafast electron-transport time scale. The absence of an observable CISS effect in the coherent electron-transport regime suggests that the effect may only be found in other electron-transfer regimes and requires further experimental and theoretical efforts to achieve a comprehensive understanding."}],"publication_status":"published","ddc":["540"],"doi":"10.1021/jacs.5c08517","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"month":"07","OA_type":"hybrid"},{"publisher":"American Chemical Society","type":"journal_article","isi":1,"citation":{"mla":"Zeng, Zezhu, et al. “Thermal Transport of Amorphous Hafnia across the Glass Transition.” <i>ACS Materials Letters</i>, American Chemical Society, 2025, pp. 2695–701, doi:<a href=\"https://doi.org/10.1021/acsmaterialslett.5c00263\">10.1021/acsmaterialslett.5c00263</a>.","ista":"Zeng Z, Liang X, Fan Z, Chen Y, Simoncelli M, Cheng B. 2025. Thermal transport of amorphous hafnia across the glass transition. ACS Materials Letters., 2695–2701.","ieee":"Z. Zeng, X. Liang, Z. Fan, Y. Chen, M. Simoncelli, and B. Cheng, “Thermal transport of amorphous hafnia across the glass transition,” <i>ACS Materials Letters</i>. American Chemical Society, pp. 2695–2701, 2025.","ama":"Zeng Z, Liang X, Fan Z, Chen Y, Simoncelli M, Cheng B. Thermal transport of amorphous hafnia across the glass transition. <i>ACS Materials Letters</i>. 2025:2695-2701. doi:<a href=\"https://doi.org/10.1021/acsmaterialslett.5c00263\">10.1021/acsmaterialslett.5c00263</a>","apa":"Zeng, Z., Liang, X., Fan, Z., Chen, Y., Simoncelli, M., &#38; Cheng, B. (2025). Thermal transport of amorphous hafnia across the glass transition. <i>ACS Materials Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsmaterialslett.5c00263\">https://doi.org/10.1021/acsmaterialslett.5c00263</a>","short":"Z. Zeng, X. Liang, Z. Fan, Y. Chen, M. Simoncelli, B. Cheng, ACS Materials Letters (2025) 2695–2701.","chicago":"Zeng, Zezhu, Xia Liang, Zheyong Fan, Yue Chen, Michele Simoncelli, and Bingqing Cheng. “Thermal Transport of Amorphous Hafnia across the Glass Transition.” <i>ACS Materials Letters</i>. American Chemical Society, 2025. <a href=\"https://doi.org/10.1021/acsmaterialslett.5c00263\">https://doi.org/10.1021/acsmaterialslett.5c00263</a>."},"has_accepted_license":"1","scopus_import":"1","quality_controlled":"1","author":[{"full_name":"Zeng, Zezhu","first_name":"Zezhu","id":"54a2c730-803f-11ed-ab7e-95b29d2680e7","last_name":"Zeng","orcid":"0000-0001-5126-4928"},{"full_name":"Liang, Xia","first_name":"Xia","last_name":"Liang"},{"first_name":"Zheyong","last_name":"Fan","full_name":"Fan, Zheyong"},{"full_name":"Chen, Yue","first_name":"Yue","last_name":"Chen"},{"last_name":"Simoncelli","first_name":"Michele","full_name":"Simoncelli, Michele"},{"first_name":"Bingqing","last_name":"Cheng","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","orcid":"0000-0002-3584-9632","full_name":"Cheng, Bingqing"}],"file_date_updated":"2025-12-30T09:13:06Z","_id":"20011","acknowledged_ssus":[{"_id":"ScienComp"}],"publication_identifier":{"eissn":["2639-4979"]},"acknowledgement":"We thank Ludovic Berthier for fruitful discussions and Ting Liang for providing the initial structures of a-SiO2. Z.Z. acknowledges funding from the European Union’s Horizon 2020 Research and Innovation Programme, under Marie Skłodowska-Curie grant agreement No. 101034413. The authors also acknowledge the research computing facilities provided by HPC ISTA and ITS HKU.","date_created":"2025-07-13T22:01:24Z","article_processing_charge":"Yes (in subscription journal)","department":[{"_id":"BiCh"}],"related_material":{"link":[{"url":"https://github.com/ZengZezhu/heat-conductivity-a-HfO2","relation":"software"}]},"OA_place":"publisher","page":"2695-2701","year":"2025","project":[{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","name":"IST-BRIDGE: International postdoctoral program","grant_number":"101034413","call_identifier":"H2020"}],"publication":"ACS Materials Letters","article_type":"original","title":"Thermal transport of amorphous hafnia across the glass transition","external_id":{"isi":["001520226300001"]},"day":"30","file":[{"access_level":"open_access","creator":"dernst","date_updated":"2025-12-30T09:13:06Z","relation":"main_file","content_type":"application/pdf","checksum":"d61e63439ddeaef29e9a2ee0f65c4ec1","file_id":"20903","date_created":"2025-12-30T09:13:06Z","file_name":"2025_ACSMaterialsLetters_Zeng.pdf","file_size":2402059,"success":1}],"license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","corr_author":"1","date_updated":"2025-12-30T09:15:30Z","oa_version":"Published Version","oa":1,"ec_funded":1,"language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"OA_type":"hybrid","month":"06","doi":"10.1021/acsmaterialslett.5c00263","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Heat transport in glasses over a wide temperature range is critical for applications in gate dielectrics and thermal insulators but remains poorly understood due to the challenges in modeling vibrational anharmonicity and configurational dynamics across the glass transition. Recent predictions show an unusual decrease in thermal conductivity (κ) with temperature in amorphous hafnia (a-HfO2), contrasting with the typical trend in glasses. Using molecular dynamics with a machine-learning-based neuroevolution potential, we compute κ of a-HfO2 from 50 K to 2000 K. At low temperatures, the Wigner transport equation captures both anharmonicity and quantum statistics. Above 1200 K, atomic diffusion invalidates the quasiparticle picture, and we resort to the Green–Kubo method to capture convective transport. We further extend the Wigner transport equation to supercooled a-HfO2, revealing the crucial role of low-frequency modes in facilitating heat transport. The computed κ, based on both Green–Kubo and Wigner transport theories, increases continuously with temperature up to 2000 K."}],"publication_status":"published","ddc":["530"],"status":"public","date_published":"2025-06-30T00:00:00Z"},{"_id":"20024","author":[{"first_name":"Cedric","last_name":"Richter","full_name":"Richter, Cedric"},{"full_name":"Chalupa, Marek","id":"87e34708-d6c6-11ec-9f5b-9391e7be2463","last_name":"Chalupa","first_name":"Marek"},{"first_name":"Marie-Christine","last_name":"Jakobs","full_name":"Jakobs, Marie-Christine"},{"full_name":"Wehrheim, Heike","last_name":"Wehrheim","first_name":"Heike"}],"citation":{"ama":"Richter C, Chalupa M, Jakobs M-C, Wehrheim H. Cooperative software verification via dynamic program splitting. In: <i>47th International Conference on Software Engineering</i>. IEEE; 2025:2087-2099. doi:<a href=\"https://doi.org/10.1109/ICSE55347.2025.00092\">10.1109/ICSE55347.2025.00092</a>","ista":"Richter C, Chalupa M, Jakobs M-C, Wehrheim H. 2025. Cooperative software verification via dynamic program splitting. 47th International Conference on Software Engineering. ICSE: International Conference on Software Engineering, 2087–2099.","ieee":"C. Richter, M. Chalupa, M.-C. Jakobs, and H. Wehrheim, “Cooperative software verification via dynamic program splitting,” in <i>47th International Conference on Software Engineering</i>, Ottawa, ON, Canada, 2025, pp. 2087–2099.","mla":"Richter, Cedric, et al. “Cooperative Software Verification via Dynamic Program Splitting.” <i>47th International Conference on Software Engineering</i>, IEEE, 2025, pp. 2087–99, doi:<a href=\"https://doi.org/10.1109/ICSE55347.2025.00092\">10.1109/ICSE55347.2025.00092</a>.","chicago":"Richter, Cedric, Marek Chalupa, Marie-Christine Jakobs, and Heike Wehrheim. “Cooperative Software Verification via Dynamic Program Splitting.” In <i>47th International Conference on Software Engineering</i>, 2087–99. IEEE, 2025. <a href=\"https://doi.org/10.1109/ICSE55347.2025.00092\">https://doi.org/10.1109/ICSE55347.2025.00092</a>.","apa":"Richter, C., Chalupa, M., Jakobs, M.-C., &#38; Wehrheim, H. (2025). Cooperative software verification via dynamic program splitting. In <i>47th International Conference on Software Engineering</i> (pp. 2087–2099). Ottawa, ON, Canada: IEEE. <a href=\"https://doi.org/10.1109/ICSE55347.2025.00092\">https://doi.org/10.1109/ICSE55347.2025.00092</a>","short":"C. Richter, M. Chalupa, M.-C. Jakobs, H. Wehrheim, in:, 47th International Conference on Software Engineering, IEEE, 2025, pp. 2087–2099."},"quality_controlled":"1","scopus_import":"1","isi":1,"type":"conference","publisher":"IEEE","publication":"47th International Conference on Software Engineering","project":[{"call_identifier":"H2020","grant_number":"101020093","name":"Vigilant Algorithmic Monitoring of Software","_id":"62781420-2b32-11ec-9570-8d9b63373d4d"}],"year":"2025","title":"Cooperative software verification via dynamic program splitting","external_id":{"isi":["001538318100163"]},"page":"2087-2099","department":[{"_id":"ToHe"}],"conference":{"end_date":"2025-05-06","start_date":"2025-04-26","location":"Ottawa, ON, Canada","name":"ICSE: International Conference on Software Engineering"},"publication_identifier":{"eissn":["1558-1225"],"isbn":["9798331505691"]},"article_processing_charge":"No","acknowledgement":"This work is partially supported by the German Research Foundation (DFG) – WE2290/13-2 (Coop2), and in part by the ERC-2020-AdG 101020093.","date_created":"2025-07-16T11:32:29Z","ec_funded":1,"language":[{"iso":"eng"}],"date_updated":"2025-09-30T14:01:55Z","oa_version":"None","corr_author":"1","day":"01","status":"public","date_published":"2025-05-01T00:00:00Z","abstract":[{"lang":"eng","text":"Cooperative software verification divides the task of software verification among several verification tools in order to increase efficiency and effectiveness. The basic approach is to let verifiers work on different parts of a program and at the end join verification results. While this idea is intuitively appealing, cooperative verification is usually hindered by the fact that program decomposition (1) is often static, disregarding strengths and weaknesses of employed verifiers, and (2) often represents the decomposed program parts in a specific proprietary format, thereby making the use of off-the-shelf verifiers in cooperative verification difficult. In this paper, we propose a novel cooperative verification scheme that we call dynamic program splitting (DPS). Splitting decomposes programs into (smaller) programs, and thus directly enables the use of off-the-shelf tools. In DPS, splitting is dynamically applied on demand: Verification starts by giving a verification task (a program plus a correctness specification) to a verifier V1. Whenever V1 finds the current task to be hard to verify, it splits the task (i.e., the program) and restarts verification on subtasks. DPS continues until (1) a violation is found, (2) all subtasks are completed or (3) some user-defined stopping criterion is met. In the latter case, the remaining uncompleted subtasks are merged into a single one and are given to a next verifier V2, repeating the same procedure on the still unverified program parts. This way, the decomposition is steered by what is hard to verify for particular verifiers, leveraging their complementary strengths. We have implemented dynamic program splitting and evaluated it on benchmarks of the annual software verification competition SV-COMP. The evaluation shows that cooperative verification with DPS is able to solve verification tasks that none of the constituent verifiers can solve, without any significant overhead."}],"publication_status":"published","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","doi":"10.1109/ICSE55347.2025.00092","month":"05","OA_type":"closed access"},{"date_published":"2025-07-08T00:00:00Z","status":"public","ddc":["550"],"publication_status":"published","abstract":[{"text":"Deep Convective Systems (DCSs) reaching scales of 100–1000 km play a pivotal role as the primary precipitation source in the tropics. Those systems can have large cloud shields, and thus not only affect severe precipitation patterns but also play a crucial part in modulating the tropical radiation budget. Understanding the complex factors that control how these systems grow and how they will behave in a warming climate remain fundamental challenges. Research efforts have been directed, on one hand, towards understanding the environmental control on these systems, and on the other hand, towards exploring the internal potential of systems to develop and self-aggregate in idealized simulations. However, we still lack understanding on the relative role of the environment and internal feedbacks on DCS mature size and why. The novel high-resolution global SAM simulation from the DYAMOND project, combined with the TOOCAN Lagrangian tracking of DCSs and machine learning tools, offers an unprecedented opportunity to explore this question. We find that a system’s growth rate during the first 2 h of development predicts its final size with a Pearson correlation coefficient of 0.65. Beyond this period, growth rate emerges as the strongest predictor. However, in the early stages, additional factors–such as ice water path heterogeneity, migration distance, interactions with neighboring systems, and deep shear–play a more significant role. Our study quantitatively assesses the relative influence of internal versus external factors on the mature cloud shield size. Our results show that system-intrinsic properties exert a stronger influence than environmental conditions, suggesting that the initial environment does not strictly constrain final system size, particularly for larger systems where internal dynamics dominate.","lang":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","doi":"10.1038/s41612-025-01154-1","OA_type":"gold","month":"07","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"language":[{"iso":"eng"}],"ec_funded":1,"oa":1,"date_updated":"2025-09-30T14:02:27Z","oa_version":"Published Version","file":[{"file_size":3919446,"file_name":"2025_njpClimate_Abramian.pdf","success":1,"file_id":"20061","date_created":"2025-07-22T06:02:14Z","checksum":"8113405b3e52024b24621ea21d89b3ab","relation":"main_file","content_type":"application/pdf","date_updated":"2025-07-22T06:02:14Z","access_level":"open_access","creator":"dernst"}],"day":"08","volume":8,"title":"How key features of early development shape deep convective systems","external_id":{"isi":["001524244500001"]},"article_type":"original","project":[{"grant_number":"805041","call_identifier":"H2020","_id":"629205d8-2b32-11ec-9570-e1356ff73576","name":"Organization of CLoUdS, and implications of Tropical  cyclones and for the Energetics of the tropics, in current and waRming climate"}],"publication":"npj Climate and Atmospheric Science","year":"2025","OA_place":"publisher","department":[{"_id":"CaMu"}],"article_processing_charge":"Yes","acknowledgement":"C.M. and S.A. gratefully acknowledge funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (Project CLUSTER, grant agreement 805041), and from the PhD fellowship of Ecole Normale Supérieure de Paris-Saclay. DYAMOND data management was provided by the German Climate Computing Center (DKRZ) and supported through the projects ESiWACE and ESiWACE2. The projects ESiWACE and ESiWACE2 have received funding from the European Union’s Horizon 2020 research and innovation program under grant agreements No 675191 and 823988. This work used resources of the Deutsches Klimarechenzentrum (DKRZ) granted by its Scientific Steering Committee (WLA) under project IDs bk1040 and bb1153. The authors express their gratitude to Sophie Cloché and Eileen Hertwig for their assistance in data archival at IPSL and DKRZ, respectively. We also thank Christophe Lampert and Benjamin Fildier for valuable scientific discussions, and acknowledge the thoughtful comments of two anonymous reviewers.","date_created":"2025-07-20T22:01:59Z","publication_identifier":{"eissn":["2397-3722"]},"file_date_updated":"2025-07-22T06:02:14Z","_id":"20026","author":[{"last_name":"Abramian","first_name":"Sophie","full_name":"Abramian, Sophie"},{"full_name":"Muller, Caroline J","orcid":"0000-0001-5836-5350","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","last_name":"Muller","first_name":"Caroline J"},{"first_name":"Camille","last_name":"Risi","full_name":"Risi, Camille"},{"first_name":"Thomas","last_name":"Fiolleau","full_name":"Fiolleau, Thomas"},{"full_name":"Roca, Rémy","first_name":"Rémy","last_name":"Roca"}],"quality_controlled":"1","article_number":"258","scopus_import":"1","has_accepted_license":"1","citation":{"apa":"Abramian, S., Muller, C. J., Risi, C., Fiolleau, T., &#38; Roca, R. (2025). How key features of early development shape deep convective systems. <i>Npj Climate and Atmospheric Science</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41612-025-01154-1\">https://doi.org/10.1038/s41612-025-01154-1</a>","short":"S. Abramian, C.J. Muller, C. Risi, T. Fiolleau, R. Roca, Npj Climate and Atmospheric Science 8 (2025).","chicago":"Abramian, Sophie, Caroline J Muller, Camille Risi, Thomas Fiolleau, and Rémy Roca. “How Key Features of Early Development Shape Deep Convective Systems.” <i>Npj Climate and Atmospheric Science</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41612-025-01154-1\">https://doi.org/10.1038/s41612-025-01154-1</a>.","ieee":"S. Abramian, C. J. Muller, C. Risi, T. Fiolleau, and R. Roca, “How key features of early development shape deep convective systems,” <i>npj Climate and Atmospheric Science</i>, vol. 8. Springer Nature, 2025.","ista":"Abramian S, Muller CJ, Risi C, Fiolleau T, Roca R. 2025. How key features of early development shape deep convective systems. npj Climate and Atmospheric Science. 8, 258.","mla":"Abramian, Sophie, et al. “How Key Features of Early Development Shape Deep Convective Systems.” <i>Npj Climate and Atmospheric Science</i>, vol. 8, 258, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1038/s41612-025-01154-1\">10.1038/s41612-025-01154-1</a>.","ama":"Abramian S, Muller CJ, Risi C, Fiolleau T, Roca R. How key features of early development shape deep convective systems. <i>npj Climate and Atmospheric Science</i>. 2025;8. doi:<a href=\"https://doi.org/10.1038/s41612-025-01154-1\">10.1038/s41612-025-01154-1</a>"},"isi":1,"DOAJ_listed":"1","type":"journal_article","intvolume":"         8","publisher":"Springer Nature"},{"file":[{"file_id":"20064","date_created":"2025-07-22T07:19:20Z","checksum":"f8708c78016f8917765026502c6b50b6","file_size":38102038,"file_name":"2025_MonthlyNoticesRAS_Pirie.pdf","success":1,"date_updated":"2025-07-22T07:19:20Z","access_level":"open_access","creator":"dernst","relation":"main_file","content_type":"application/pdf"}],"day":"01","oa":1,"language":[{"iso":"eng"}],"issue":"2","oa_version":"Published Version","date_updated":"2025-09-30T14:03:40Z","arxiv":1,"doi":"10.1093/mnras/staf1006","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"month":"08","OA_type":"gold","date_published":"2025-08-01T00:00:00Z","status":"public","publication_status":"published","abstract":[{"text":"We present the first results of the JWST Emission Line Survey (JELS). Utilizing the first NIRCam narrow-band imaging at 4.7 μm, over 63 arcmin2 in the PRIMER/COSMOS field, we have identified 609 emission line galaxy candidates. From these, we robustly selected 35 H α star-forming galaxies at z ∼ 6.1, with H α star-formation rates (SFRH α) of ∼ 0.9 − 15 M yr−1.\r\nCombining our unique H α sample with the exquisite panchromatic data in the field, we explored their physical properties and star-formation histories, and compared these to a broad-band selected sample at z ∼ 6 which has offered vital new insights into the nature of high-redshift galaxies. UV-continuum slopes (β) were considerably redder for our H α sample (\u0004β\u0005 ∼ −1.92)\r\ncompared to the broad-band sample (\u0004β\u0005 ∼ −2.35). This was not due to dust attenuation as our H α sample was relatively dustpoor (median AV = 0.23); instead, we argue that the reddened slopes could be due to nebular continuum. We compared SFRH α and the UV-continuum-derived SFRUV to SED-fitted measurements averaged over canonical time-scales of 10 and 100 Myr (SFR10 and SFR100). We found an increase in recent SFR for our sample of H α emitters, particularly at lower stellar masses (< 109 M). We also found that SFRH α strongly traces SFR averaged over 10 Myr time-scales, whereas the UV-continuum overpredicts SFR on 100 Myr time-scales at low stellar masses. These results point to our H α sample undergoing ‘bursty’ star\r\nformation. Our F356W z ∼ 6 sample showed a larger scatter in SFR10/SFR100 across all stellar masses, which has highlighted how narrow-band photometric selections of H α emitters are key to quantifying the burstiness of star-formation activity. ","lang":"eng"}],"ddc":["520"],"type":"journal_article","DOAJ_listed":"1","isi":1,"intvolume":"       541","publisher":"Oxford University Press","PlanS_conform":"1","author":[{"full_name":"Pirie, C. A.","last_name":"Pirie","first_name":"C. A."},{"full_name":"Best, P. N.","last_name":"Best","first_name":"P. N."},{"first_name":"K. J.","last_name":"Duncan","full_name":"Duncan, K. J."},{"first_name":"D. J.","last_name":"Mcleod","full_name":"Mcleod, D. J."},{"first_name":"R. K.","last_name":"Cochrane","full_name":"Cochrane, R. K."},{"first_name":"M.","last_name":"Clausen","full_name":"Clausen, M."},{"last_name":"Dunlop","first_name":"J. S.","full_name":"Dunlop, J. S."},{"first_name":"S. R.","last_name":"Flury","full_name":"Flury, S. R."},{"first_name":"J. E.","last_name":"Geach","full_name":"Geach, J. E."},{"full_name":"Hale, C. L.","last_name":"Hale","first_name":"C. L."},{"first_name":"E.","last_name":"Ibar","full_name":"Ibar, E."},{"last_name":"Kondapally","first_name":"R.","full_name":"Kondapally, R."},{"first_name":"Zefeng","last_name":"Li","full_name":"Li, Zefeng"},{"orcid":"0000-0003-2871-127X","id":"7439a258-f3c0-11ec-9501-9df22fe06720","last_name":"Matthee","first_name":"Jorryt J","full_name":"Matthee, Jorryt J"},{"first_name":"R. J.","last_name":"Mclure","full_name":"Mclure, R. J."},{"full_name":"Ossa-Fuentes, L.","first_name":"L.","last_name":"Ossa-Fuentes"},{"first_name":"A. L.","last_name":"Patrick","full_name":"Patrick, A. L."},{"full_name":"Smail, Ian","last_name":"Smail","first_name":"Ian"},{"first_name":"D.","last_name":"Sobral","full_name":"Sobral, D."},{"last_name":"Stephenson","first_name":"H. M.O.","full_name":"Stephenson, H. M.O."},{"full_name":"Stott, J. P.","last_name":"Stott","first_name":"J. P."},{"full_name":"Swinbank, A. M.","last_name":"Swinbank","first_name":"A. M."}],"_id":"20027","file_date_updated":"2025-07-22T07:19:20Z","has_accepted_license":"1","scopus_import":"1","quality_controlled":"1","citation":{"chicago":"Pirie, C. A., P. N. Best, K. J. Duncan, D. J. Mcleod, R. K. Cochrane, M. Clausen, J. S. Dunlop, et al. “The JWST Emission Line Survey (JELS): An Untargeted Search for H α Emission Line Galaxies at z &#62; 6 and Their Physical Properties.” <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press, 2025. <a href=\"https://doi.org/10.1093/mnras/staf1006\">https://doi.org/10.1093/mnras/staf1006</a>.","short":"C.A. Pirie, P.N. Best, K.J. Duncan, D.J. Mcleod, R.K. Cochrane, M. Clausen, J.S. Dunlop, S.R. Flury, J.E. Geach, C.L. Hale, E. Ibar, R. Kondapally, Z. Li, J.J. Matthee, R.J. Mclure, L. Ossa-Fuentes, A.L. Patrick, I. Smail, D. Sobral, H.M.O. Stephenson, J.P. Stott, A.M. Swinbank, Monthly Notices of the Royal Astronomical Society 541 (2025) 1348–1376.","apa":"Pirie, C. A., Best, P. N., Duncan, K. J., Mcleod, D. J., Cochrane, R. K., Clausen, M., … Swinbank, A. M. (2025). The JWST Emission Line Survey (JELS): An untargeted search for H α emission line galaxies at z &#62; 6 and their physical properties. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/mnras/staf1006\">https://doi.org/10.1093/mnras/staf1006</a>","ama":"Pirie CA, Best PN, Duncan KJ, et al. The JWST Emission Line Survey (JELS): An untargeted search for H α emission line galaxies at z &#62; 6 and their physical properties. <i>Monthly Notices of the Royal Astronomical Society</i>. 2025;541(2):1348-1376. doi:<a href=\"https://doi.org/10.1093/mnras/staf1006\">10.1093/mnras/staf1006</a>","ieee":"C. A. Pirie <i>et al.</i>, “The JWST Emission Line Survey (JELS): An untargeted search for H α emission line galaxies at z &#62; 6 and their physical properties,” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 541, no. 2. Oxford University Press, pp. 1348–1376, 2025.","ista":"Pirie CA, Best PN, Duncan KJ, Mcleod DJ, Cochrane RK, Clausen M, Dunlop JS, Flury SR, Geach JE, Hale CL, Ibar E, Kondapally R, Li Z, Matthee JJ, Mclure RJ, Ossa-Fuentes L, Patrick AL, Smail I, Sobral D, Stephenson HMO, Stott JP, Swinbank AM. 2025. The JWST Emission Line Survey (JELS): An untargeted search for H α emission line galaxies at z &#62; 6 and their physical properties. Monthly Notices of the Royal Astronomical Society. 541(2), 1348–1376.","mla":"Pirie, C. A., et al. “The JWST Emission Line Survey (JELS): An Untargeted Search for H α Emission Line Galaxies at z &#62; 6 and Their Physical Properties.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 541, no. 2, Oxford University Press, 2025, pp. 1348–76, doi:<a href=\"https://doi.org/10.1093/mnras/staf1006\">10.1093/mnras/staf1006</a>."},"department":[{"_id":"JoMa"}],"acknowledgement":"The authors would like to thank Adam Carnall and Joel Leja for their helpful advice with the SED fitting of our sample, Callum Donnan for his advice on the selection techniques of high-redshift\r\ngalaxies, Alice Shapley for discussion around H α SFR calibrations at high-redshift, Fred Jennings for providing insight into the interpretation of SFR ratios, and the anonymous referee for their helpful comments – all of which have greatly improved this paper. Several other authors acknowledge the support of the UK Science and Technology Facilities Council (STFC) via grants ST/W507441/1 (CAP), ST/V000594/1 (DJM, PNB, RK, and RJM), ST/Y000951/1 (PNB and RK) and ST/X001075/1 (AMS and IRS), and through an Ernest Rutherford Fellowship (KJD; grant number ST/W003120/1). RKC was funded by support for programme #02321, provided by\r\nNASA through a grant from the Space Telescope Science Institute, which is operated by the Association of Universities for Research in Astronomy, Inc., under NASA contract NAS5-03127. RKC and CLH are both grateful for support from the Leverhulme Trust via a Leverhulme Early Career Fellowship, and CLH also acknowledges support from the Oxford Hintze Centre for Astrophysical Surveys which is funded through generous support from the Hintze Family\r\nCharitable Foundation. JSD acknowledges the support of the Royal Society via a Royal Society Research Professorship. EI gratefully acknowledge financialsupport from ANID–MILENIO–NCN2024 112 and ANID FONDECYT Regular 1221846. LOF acknowledges by ANID BECAS/DOCTORADO NACIONAL 21220499.","date_created":"2025-07-20T22:02:00Z","article_processing_charge":"Yes","publication_identifier":{"eissn":["1365-2966"],"issn":["0035-8711"]},"external_id":{"arxiv":["2410.11808"],"isi":["001527095600001"]},"title":"The JWST Emission Line Survey (JELS): An untargeted search for H α emission line galaxies at z > 6 and their physical properties","article_type":"original","volume":541,"year":"2025","publication":"Monthly Notices of the Royal Astronomical Society","OA_place":"publisher","page":"1348-1376"},{"intvolume":"       541","publisher":"Oxford University Press","PlanS_conform":"1","isi":1,"type":"journal_article","DOAJ_listed":"1","quality_controlled":"1","scopus_import":"1","has_accepted_license":"1","citation":{"ista":"Duncan KJ, Mcleod DJ, Best PN, Pirie CA, Clausen M, Cochrane RK, Dunlop JS, Flury SR, Geach JE, Grogin NA, Hale CL, Ibar E, Kondapally R, Li Z, Matthee JJ, Mclure RJ, Ossa-Fuentes L, Patrick AL, Smail I, Sobral D, Stephenson HMO, Stott JP, Swinbank AM. 2025. The JWST Emission-Line Survey: Extending rest-optical narrow-band emission-line selection into the Epoch of Reionization. Monthly Notices of the Royal Astronomical Society. 541(2), 1329–1347.","mla":"Duncan, K. J., et al. “The JWST Emission-Line Survey: Extending Rest-Optical Narrow-Band Emission-Line Selection into the Epoch of Reionization.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 541, no. 2, Oxford University Press, 2025, pp. 1329–47, doi:<a href=\"https://doi.org/10.1093/mnras/staf1061\">10.1093/mnras/staf1061</a>.","ieee":"K. J. Duncan <i>et al.</i>, “The JWST Emission-Line Survey: Extending rest-optical narrow-band emission-line selection into the Epoch of Reionization,” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 541, no. 2. Oxford University Press, pp. 1329–1347, 2025.","ama":"Duncan KJ, Mcleod DJ, Best PN, et al. The JWST Emission-Line Survey: Extending rest-optical narrow-band emission-line selection into the Epoch of Reionization. <i>Monthly Notices of the Royal Astronomical Society</i>. 2025;541(2):1329-1347. doi:<a href=\"https://doi.org/10.1093/mnras/staf1061\">10.1093/mnras/staf1061</a>","apa":"Duncan, K. J., Mcleod, D. J., Best, P. N., Pirie, C. A., Clausen, M., Cochrane, R. K., … Swinbank, A. M. (2025). The JWST Emission-Line Survey: Extending rest-optical narrow-band emission-line selection into the Epoch of Reionization. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/mnras/staf1061\">https://doi.org/10.1093/mnras/staf1061</a>","short":"K.J. Duncan, D.J. Mcleod, P.N. Best, C.A. Pirie, M. Clausen, R.K. Cochrane, J.S. Dunlop, S.R. Flury, J.E. Geach, N.A. Grogin, C.L. Hale, E. Ibar, R. Kondapally, Z. Li, J.J. Matthee, R.J. Mclure, L. Ossa-Fuentes, A.L. Patrick, I. Smail, D. Sobral, H.M.O. Stephenson, J.P. Stott, A.M. Swinbank, Monthly Notices of the Royal Astronomical Society 541 (2025) 1329–1347.","chicago":"Duncan, K. J., D. J. Mcleod, P. N. Best, C. A. Pirie, M. Clausen, R. K. Cochrane, J. S. Dunlop, et al. “The JWST Emission-Line Survey: Extending Rest-Optical Narrow-Band Emission-Line Selection into the Epoch of Reionization.” <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press, 2025. <a href=\"https://doi.org/10.1093/mnras/staf1061\">https://doi.org/10.1093/mnras/staf1061</a>."},"_id":"20028","file_date_updated":"2025-07-22T07:02:02Z","author":[{"full_name":"Duncan, K. J.","first_name":"K. J.","last_name":"Duncan"},{"full_name":"Mcleod, D. J.","first_name":"D. J.","last_name":"Mcleod"},{"last_name":"Best","first_name":"P. N.","full_name":"Best, P. N."},{"full_name":"Pirie, C. A.","last_name":"Pirie","first_name":"C. A."},{"full_name":"Clausen, M.","first_name":"M.","last_name":"Clausen"},{"first_name":"R. K.","last_name":"Cochrane","full_name":"Cochrane, R. K."},{"first_name":"J. S.","last_name":"Dunlop","full_name":"Dunlop, J. S."},{"full_name":"Flury, S. R.","last_name":"Flury","first_name":"S. R."},{"full_name":"Geach, J. E.","last_name":"Geach","first_name":"J. E."},{"first_name":"N. A.","last_name":"Grogin","full_name":"Grogin, N. A."},{"first_name":"C. L.","last_name":"Hale","full_name":"Hale, C. L."},{"full_name":"Ibar, E.","last_name":"Ibar","first_name":"E."},{"last_name":"Kondapally","first_name":"R.","full_name":"Kondapally, R."},{"first_name":"Zefeng","last_name":"Li","full_name":"Li, Zefeng"},{"full_name":"Matthee, Jorryt J","orcid":"0000-0003-2871-127X","id":"7439a258-f3c0-11ec-9501-9df22fe06720","last_name":"Matthee","first_name":"Jorryt J"},{"last_name":"Mclure","first_name":"R. J.","full_name":"Mclure, R. J."},{"full_name":"Ossa-Fuentes, Luis","last_name":"Ossa-Fuentes","first_name":"Luis"},{"first_name":"A. L.","last_name":"Patrick","full_name":"Patrick, A. L."},{"full_name":"Smail, Ian","first_name":"Ian","last_name":"Smail"},{"last_name":"Sobral","first_name":"D.","full_name":"Sobral, D."},{"first_name":"H. M.O.","last_name":"Stephenson","full_name":"Stephenson, H. M.O."},{"full_name":"Stott, J. P.","first_name":"J. P.","last_name":"Stott"},{"full_name":"Swinbank, A. M.","first_name":"A. M.","last_name":"Swinbank"}],"article_processing_charge":"Yes","acknowledgement":"We thank the anonymous referee for their helpful and constructive feedback that hassignificantly improved this manuscript. The authors also thank DavidCoulter and ArminRestfor allowing the inclusion of JELS targets in their director’s discretionary observing programme. KJD acknowledges support from the Science and Technology Facilities Council (STFC) through an Ernest Rutherford Fellowship (grant number ST/W003120/1). DJM, PNB, RK, and RJM acknowledge the support of the UK STFC via grant ST/V000594/1. PNB and RK are grateful for support from the UK STFC via grant ST/Y000951/1. RKC was funded by support for programme #02321, provided by NASA through a grant from the Space Telescope Science Institute,\r\nwhich is operated by the Association of Universities for Research in Astronomy, Inc., under NASA contract NAS5-03127. RKC is grateful for support from the Leverhulme Trust via the Leverhulme Early Career Fellowship.JSD acknowledgesthe support of the Royal Society via a Royal Society Research Professorship. CLH acknowledges support from the Leverhulme Trust through an Early Career Research Fellowship and also acknowledge support from the Oxford\r\nHintze Centre for Astrophysical Surveys which is funded through generous support from the Hintze Family Charitable Foundation. EI gratefully acknowledge financial support from ANID –MILENIO – NCN2024 112 and ANID FONDECYT Regular 1221846. AMS and IRS acknowledge support from the STFC via grant ST/X001075/1.This work was initiated in part at Aspen Center for Physics, which is supported by National Science Foundation grant PHY-2210452.","date_created":"2025-07-20T22:02:00Z","publication_identifier":{"eissn":["1365-2966"],"issn":["0035-8711"]},"department":[{"_id":"JoMa"}],"OA_place":"publisher","page":"1329-1347","volume":541,"title":"The JWST Emission-Line Survey: Extending rest-optical narrow-band emission-line selection into the Epoch of Reionization","external_id":{"isi":["001527085900001"],"arxiv":["2410.09000"]},"article_type":"original","publication":"Monthly Notices of the Royal Astronomical Society","year":"2025","day":"01","file":[{"file_name":"2025_MonthlyNoticesRAS_Duncan.pdf","file_size":4451937,"success":1,"file_id":"20063","date_created":"2025-07-22T07:02:02Z","checksum":"abedbbce98d448f374dc922dad9133fc","relation":"main_file","content_type":"application/pdf","date_updated":"2025-07-22T07:02:02Z","access_level":"open_access","creator":"dernst"}],"oa_version":"Published Version","date_updated":"2025-09-30T14:03:01Z","issue":"2","arxiv":1,"oa":1,"language":[{"iso":"eng"}],"month":"08","OA_type":"gold","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","doi":"10.1093/mnras/staf1061","ddc":["520"],"publication_status":"published","abstract":[{"lang":"eng","text":"We present the JWST Emission-Line Survey (JELS), a JWST imaging programme exploiting the wavelength coverage and sensitivity of the Near-Infrared Camera (NIRCam) to extend narrow-band rest-optical emission-line selection into the Epoch of Reionization (EoR) for the first time, and to enable unique studies of the resolved ionized gas morphology in individual galaxies across cosmic history. The primary JELS observations comprise ∼ 4.7 μm narrow-band imaging over ∼ 63 arcmin2 designed to enable selection of H α emitters at z ∼ 6.1 and a host of novel emission-line samples, including [O III] (z ∼ 8.3) and Paschen α/β (z ∼ 1.5/2.8). For the F466N/F470N narrow-band observations, the emission-line sensitivities achieved are up to ∼ 2× more sensitive than current slitless spectroscopy surveys (5σ limits of 0.8–1.2×10−18 erg s−1cm−2), corresponding to unobscured H α star formation rates (SFRs) of 0.9–1.3 M yr−1 at z ∼ 6.1, extending emission-line selections in the EoR to fainter populations. Simultaneously, JELS also adds F200W broad-band and F212N narrow-band imaging (H α at z ∼ 2.23) that probes SFRs  5× fainter than previous ground-based narrow-band studies (∼ 0.2 M yr−1), offering an unprecedented resolved view of star formation at cosmic noon. We present the detailed JELS design, key data processing steps specific to the survey observations, and demonstrate the exceptional data quality and imaging sensitivity achieved. We then summarize the key scientific goals of JELS, demonstrate the precision and accuracy of the expected redshift and measured emission-line recovery through detailed simulations, and present examples of spectroscopically confirmed H α and [O III] emitters discovered by JELS that illustrate the novel parameter space probed."}],"date_published":"2025-08-01T00:00:00Z","status":"public"},{"file":[{"file_name":"2025_CellReports_Guan.pdf","file_size":37708120,"success":1,"file_id":"20067","date_created":"2025-07-22T08:52:17Z","checksum":"ee03deee47a084b0295251dc49470ad4","relation":"main_file","content_type":"application/pdf","date_updated":"2025-07-22T08:52:17Z","access_level":"open_access","creator":"dernst"}],"license":"https://creativecommons.org/licenses/by-nc/4.0/","day":"22","oa":1,"language":[{"iso":"eng"}],"issue":"7","oa_version":"Published Version","date_updated":"2025-09-30T14:05:28Z","pmid":1,"doi":"10.1016/j.celrep.2025.116024","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png"},"OA_type":"hybrid","month":"07","status":"public","date_published":"2025-07-22T00:00:00Z","publication_status":"published","abstract":[{"lang":"eng","text":"Vacuolar acidification is crucial for the homeostasis of intracellular pH and the recycling of proteins and nutrients in cells, thereby playing important roles in various physiological processes related to vacuolar function. The key factors regulating vacuolar acidification and underlying mechanisms remain unclear. Here, we report that Arabidopsis phospholipase Dζ2 (PLDζ2) promotes the acidification of the vacuolar lumen to stimulate autophagic degradation under phosphorus deficiency. The pldζ2 mutant massively accumulates autophagic structures while exhibiting premature leaf senescence under nutrient starvation. Impaired autophagic flux, lytic vacuole morphology, and lytic degradation in pldζ2 indicate that PLDζ2 regulates autophagy by affecting the vacuolar function. PLDζ2 locates in both tonoplast and cytoplasm. Genetic, structural, and biochemical studies demonstrate that PLDζ2 directly interacts with vacuolar-type ATPase (V-ATPase) subunit D (VATD) to promote vacuolar acidification and autophagy under phosphorus starvation. These findings reveal the importance of V-ATPase and vacuolar pH in autophagic activity and provide clues in elucidating the regulatory mechanism of vacuolar acidification."}],"ddc":["580"],"type":"journal_article","isi":1,"publisher":"Elsevier","intvolume":"        44","author":[{"first_name":"Bin","id":"56aad729-cca2-11ed-a45a-9b4138991a48","last_name":"Guan","full_name":"Guan, Bin"},{"full_name":"Xie, Ke Xuan","last_name":"Xie","first_name":"Ke Xuan"},{"first_name":"Xin Qiao","last_name":"Du","full_name":"Du, Xin Qiao"},{"full_name":"Bai, Yu Xuan","last_name":"Bai","first_name":"Yu Xuan"},{"full_name":"Hao, Peng Chao","last_name":"Hao","first_name":"Peng Chao"},{"first_name":"Wen Hui","last_name":"Lin","full_name":"Lin, Wen Hui"},{"full_name":"Friml, Jiří","first_name":"Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Xue, Hong Wei","last_name":"Xue","first_name":"Hong Wei"}],"_id":"20029","file_date_updated":"2025-07-22T08:52:17Z","citation":{"ieee":"B. Guan <i>et al.</i>, “Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD,” <i>Cell Reports</i>, vol. 44, no. 7. Elsevier, 2025.","ista":"Guan B, Xie KX, Du XQ, Bai YX, Hao PC, Lin WH, Friml J, Xue HW. 2025. Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD. Cell Reports. 44(7), 116024.","mla":"Guan, Bin, et al. “Arabidopsis Phospholipase Dζ2 Facilitates Vacuolar Acidification and Autophagy under Phosphorus Starvation by Interacting with VATD.” <i>Cell Reports</i>, vol. 44, no. 7, 116024, Elsevier, 2025, doi:<a href=\"https://doi.org/10.1016/j.celrep.2025.116024\">10.1016/j.celrep.2025.116024</a>.","ama":"Guan B, Xie KX, Du XQ, et al. Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD. <i>Cell Reports</i>. 2025;44(7). doi:<a href=\"https://doi.org/10.1016/j.celrep.2025.116024\">10.1016/j.celrep.2025.116024</a>","apa":"Guan, B., Xie, K. X., Du, X. Q., Bai, Y. X., Hao, P. C., Lin, W. H., … Xue, H. W. (2025). Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD. <i>Cell Reports</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.celrep.2025.116024\">https://doi.org/10.1016/j.celrep.2025.116024</a>","short":"B. Guan, K.X. Xie, X.Q. Du, Y.X. Bai, P.C. Hao, W.H. Lin, J. Friml, H.W. Xue, Cell Reports 44 (2025).","chicago":"Guan, Bin, Ke Xuan Xie, Xin Qiao Du, Yu Xuan Bai, Peng Chao Hao, Wen Hui Lin, Jiří Friml, and Hong Wei Xue. “Arabidopsis Phospholipase Dζ2 Facilitates Vacuolar Acidification and Autophagy under Phosphorus Starvation by Interacting with VATD.” <i>Cell Reports</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.celrep.2025.116024\">https://doi.org/10.1016/j.celrep.2025.116024</a>."},"has_accepted_license":"1","scopus_import":"1","article_number":"116024","quality_controlled":"1","department":[{"_id":"JiFr"}],"publication_identifier":{"eissn":["2211-1247"],"issn":["2639-1856"]},"date_created":"2025-07-20T22:02:01Z","acknowledgement":"The study was supported by National Natural Science Foundation of China (NSFC, 92354301, 32230011, 32200274, and 91954206). The computations were run on the Siyuan-1 cluster supported by the Center for High-Performance Computing at Shanghai Jiao Tong University.","article_processing_charge":"Yes (in subscription journal)","year":"2025","publication":"Cell Reports","title":"Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD","article_type":"original","external_id":{"isi":["001533244800001"],"pmid":["40668679"]},"volume":44,"OA_place":"publisher"},{"ddc":["520"],"abstract":[{"lang":"eng","text":"We report the discovery of a Lyα emitter (LAE) candidate in the immediate foreground of the quasar PSO J158-14 at zQSO = 6.0685 at a projected distance ∼29 pkpc that is associated with an extremely metal-poor absorption system. This system was found in archival observations of the quasar field with the Very Large Telescope (VLT)/Multi-Unit Spectroscopic Explorer (MUSE) and was previously missed in searches of absorption systems using quasar absorption line spectroscopy, as it imparts no detectable metal absorption lines on the background quasar spectrum. The detected Lyα emission line at a redshift of zLAE = 6.0323 is well aligned with the outer edge of the quasar’s proximity zone and can plausibly cause its observed damping wing if it is associated with a proximate subdamped Lyα absorption system with a column density of log Nhi/cm^-2 19.7. A >10 hr medium-resolution spectrum of the quasar observed with the Magellan/Folded-port InfraRed Echellette (FIRE) and VLT/X-Shooter spectrographs reveals a metallicity constraint of [Z/H] < −3. Such low metallicity makes this system an extremely metal-poor galaxy candidate and provides an exciting site to study possible signatures of Population III stars."}],"publication_status":"published","status":"public","date_published":"2025-07-10T00:00:00Z","month":"07","OA_type":"gold","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.3847/2041-8213/ade71c","arxiv":1,"date_updated":"2026-02-16T12:44:23Z","oa_version":"Published Version","issue":"2","language":[{"iso":"eng"}],"oa":1,"day":"10","file":[{"content_type":"application/pdf","relation":"main_file","date_updated":"2025-07-22T08:38:14Z","creator":"dernst","access_level":"open_access","success":1,"file_name":"2025_AstrophysicalJourLetters_Durovcikova.pdf","file_size":6453728,"date_created":"2025-07-22T08:38:14Z","file_id":"20066","checksum":"75d0c08514209fc6e3078fdec8e815a2"}],"OA_place":"publisher","publication":"The Astrophysical Journal Letters","year":"2025","volume":987,"article_type":"original","external_id":{"arxiv":["2505.01499"],"isi":["001524847100001"]},"title":"An extremely metal-poor Lyα emitter candidate at z = 6 revealed through absorption spectroscopy","publication_identifier":{"eissn":["2041-8213"],"issn":["2041-8205"]},"article_processing_charge":"Yes","date_created":"2025-07-20T22:02:01Z","acknowledgement":"We thank the referee for the feedback and suggestions that greatly improved the quality of this manuscript. We would like to thank Carlos Contreras, Matías Díaz, Carla Fuentes, Mauricio Martínez, Alberto Pastén, Roger Leiton, Hugo Rivera, and Gabriel Prieto for their help and support during the Magellan/FIRE observations. We would also like to thank Rongmon Bordoloi for helpful discussions. R.A.M. acknowledges support from the Swiss National Science Foundation (SNSF) through project grant 200020_207349. This Letter includes data gathered with the 6.5 m Magellan Telescopes located at Las Campanas Observatory, Chile.\r\nBased on observations collected at the European Southern Observatory under ESO programs 106.215A and 096.A-0418.\r\n\r\nThe HST data presented in this Letter were obtained from the Mikulski Archive for Space Telescopes (MAST) at the Space Telescope Science Institute. The observations analyzed in this work can be accessed via doi:10.17909/gxmz-zd87.","department":[{"_id":"JoMa"}],"citation":{"ama":"Ďurovčíková D, Eilers AC, Simcoe RA, et al. An extremely metal-poor Lyα emitter candidate at z = 6 revealed through absorption spectroscopy. <i>The Astrophysical Journal Letters</i>. 2025;987(2). doi:<a href=\"https://doi.org/10.3847/2041-8213/ade71c\">10.3847/2041-8213/ade71c</a>","mla":"Ďurovčíková, Dominika, et al. “An Extremely Metal-Poor Lyα Emitter Candidate at z = 6 Revealed through Absorption Spectroscopy.” <i>The Astrophysical Journal Letters</i>, vol. 987, no. 2, L33, IOP Publishing, 2025, doi:<a href=\"https://doi.org/10.3847/2041-8213/ade71c\">10.3847/2041-8213/ade71c</a>.","ieee":"D. Ďurovčíková <i>et al.</i>, “An extremely metal-poor Lyα emitter candidate at z = 6 revealed through absorption spectroscopy,” <i>The Astrophysical Journal Letters</i>, vol. 987, no. 2. IOP Publishing, 2025.","ista":"Ďurovčíková D, Eilers AC, Simcoe RA, Welsh L, Meyer RA, Matthee JJ, Ryan-Weber EV, Yue M, Katz H, Satyavolu S, Becker G, Davies FB, Farina EP. 2025. An extremely metal-poor Lyα emitter candidate at z = 6 revealed through absorption spectroscopy. The Astrophysical Journal Letters. 987(2), L33.","chicago":"Ďurovčíková, Dominika, Anna Christina Eilers, Robert A. Simcoe, Louise Welsh, Romain A. Meyer, Jorryt J Matthee, Emma V. Ryan-Weber, et al. “An Extremely Metal-Poor Lyα Emitter Candidate at z = 6 Revealed through Absorption Spectroscopy.” <i>The Astrophysical Journal Letters</i>. IOP Publishing, 2025. <a href=\"https://doi.org/10.3847/2041-8213/ade71c\">https://doi.org/10.3847/2041-8213/ade71c</a>.","apa":"Ďurovčíková, D., Eilers, A. C., Simcoe, R. A., Welsh, L., Meyer, R. A., Matthee, J. J., … Farina, E. P. (2025). An extremely metal-poor Lyα emitter candidate at z = 6 revealed through absorption spectroscopy. <i>The Astrophysical Journal Letters</i>. IOP Publishing. <a href=\"https://doi.org/10.3847/2041-8213/ade71c\">https://doi.org/10.3847/2041-8213/ade71c</a>","short":"D. Ďurovčíková, A.C. Eilers, R.A. Simcoe, L. Welsh, R.A. Meyer, J.J. Matthee, E.V. Ryan-Weber, M. Yue, H. Katz, S. Satyavolu, G. Becker, F.B. Davies, E.P. Farina, The Astrophysical Journal Letters 987 (2025)."},"quality_controlled":"1","article_number":"L33","scopus_import":"1","has_accepted_license":"1","file_date_updated":"2025-07-22T08:38:14Z","_id":"20030","author":[{"last_name":"Ďurovčíková","first_name":"Dominika","full_name":"Ďurovčíková, Dominika"},{"last_name":"Eilers","first_name":"Anna Christina","full_name":"Eilers, Anna Christina"},{"first_name":"Robert A.","last_name":"Simcoe","full_name":"Simcoe, Robert A."},{"first_name":"Louise","last_name":"Welsh","full_name":"Welsh, Louise"},{"full_name":"Meyer, Romain A.","last_name":"Meyer","first_name":"Romain A."},{"full_name":"Matthee, Jorryt J","first_name":"Jorryt J","id":"7439a258-f3c0-11ec-9501-9df22fe06720","last_name":"Matthee","orcid":"0000-0003-2871-127X"},{"full_name":"Ryan-Weber, Emma V.","first_name":"Emma V.","last_name":"Ryan-Weber"},{"first_name":"Minghao","last_name":"Yue","full_name":"Yue, Minghao"},{"first_name":"Harley","last_name":"Katz","full_name":"Katz, Harley"},{"first_name":"Sindhu","last_name":"Satyavolu","full_name":"Satyavolu, Sindhu"},{"full_name":"Becker, George","last_name":"Becker","first_name":"George"},{"full_name":"Davies, Frederick B.","first_name":"Frederick B.","last_name":"Davies"},{"first_name":"Emanuele Paolo","last_name":"Farina","full_name":"Farina, Emanuele Paolo"}],"publisher":"IOP Publishing","PlanS_conform":"1","intvolume":"       987","isi":1,"DOAJ_listed":"1","type":"journal_article"},{"date_published":"2025-07-02T00:00:00Z","status":"public","publication_status":"published","abstract":[{"text":"The central vacuole is a multifunctional organelle with the most significant occupancy in a differentiated plant cell. Plants depend on the function of the vacuole for critical development, growth, and environmental responses. As the cell expands, the vacuole changes shape and size, increasing its membrane and luminal content. The set of these events is called the vacuolar configuration process, which has not been well described. Our research highlights the impact of plasma membrane internalization on vacuole morphology during the vacuolar configuration process. We observed a direct correlation between differential endocytosis rates and the enrichment of vacuolar membranous structures. Chemical and genetic interference with clathrin-mediated endocytosis (CME) revealed that it is required for the vacuolar configuration of growing root cells. The contribution of CME to the vacuole configuration process co-occurs with the induction of post-trans-Golgi network (TGN)/early endosome (EE) trafficking with the participation of the Rab GTPases ARA6 and ARA7. Our results show that the CME plays an active role during vacuole configuration, most probably carrying the material that allows the establishment of the vacuole in elongating cells. Since membrane trafficking through the EE/TGN is required to reach the vacuole, additional players must be defined.","lang":"eng"}],"pmid":1,"doi":"10.1093/jxb/eraf084","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","month":"07","OA_type":"closed access","language":[{"iso":"eng"}],"issue":"10","oa_version":"None","date_updated":"2025-09-30T14:04:16Z","day":"02","title":"The configuration of the vacuole is driven by clathrin-mediated trafficking in root cells of Arabidopsis thaliana","external_id":{"isi":["001482869200001"],"pmid":["40056424"]},"article_type":"original","volume":76,"year":"2025","publication":"Journal of Experimental Botany","page":"2700-2714","department":[{"_id":"JiFr"}],"date_created":"2025-07-20T22:02:01Z","acknowledgement":"This research was supported by FONDECYT grants 1170950 and 1211311 and by ANID PhD fellowship 2020-21201663 to PhD student CO-N. The microscopes used in this work were funded by grants FONDEQUIP #EQM 140019 and #EQM12-0003 at the Advanced Microscopy Unit of the Biology Department, Faculty of Science, University of Chile.\r\nWe thank Jiri Friml for donating the XVE»AUXILIN-LIKE2 (AX2) line to support our research. We wish to acknowledge the active and helpful discussion of all the members of the LNM team and the Plant Molecular Biology Centre at Universidad de Chile.","article_processing_charge":"No","publication_identifier":{"eissn":["1460-2431"],"issn":["0022-0957"]},"author":[{"last_name":"Osorio-Navarro","first_name":"Claudio","full_name":"Osorio-Navarro, Claudio"},{"full_name":"Neira-Valenzuela, Gabriel","first_name":"Gabriel","last_name":"Neira-Valenzuela"},{"full_name":"Sierra, Paula","last_name":"Sierra","first_name":"Paula"},{"first_name":"Maciek","orcid":"0000-0001-6463-5257","last_name":"Adamowski","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","full_name":"Adamowski, Maciek"},{"last_name":"Toledo","first_name":"Jorge","full_name":"Toledo, Jorge"},{"last_name":"Norambuena","first_name":"Lorena","full_name":"Norambuena, Lorena"}],"_id":"20031","scopus_import":"1","quality_controlled":"1","citation":{"chicago":"Osorio-Navarro, Claudio, Gabriel Neira-Valenzuela, Paula Sierra, Maciek Adamowski, Jorge Toledo, and Lorena Norambuena. “The Configuration of the Vacuole Is Driven by Clathrin-Mediated Trafficking in Root Cells of Arabidopsis Thaliana.” <i>Journal of Experimental Botany</i>. Oxford University Press, 2025. <a href=\"https://doi.org/10.1093/jxb/eraf084\">https://doi.org/10.1093/jxb/eraf084</a>.","apa":"Osorio-Navarro, C., Neira-Valenzuela, G., Sierra, P., Adamowski, M., Toledo, J., &#38; Norambuena, L. (2025). The configuration of the vacuole is driven by clathrin-mediated trafficking in root cells of Arabidopsis thaliana. <i>Journal of Experimental Botany</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/jxb/eraf084\">https://doi.org/10.1093/jxb/eraf084</a>","short":"C. Osorio-Navarro, G. Neira-Valenzuela, P. Sierra, M. Adamowski, J. Toledo, L. Norambuena, Journal of Experimental Botany 76 (2025) 2700–2714.","ama":"Osorio-Navarro C, Neira-Valenzuela G, Sierra P, Adamowski M, Toledo J, Norambuena L. The configuration of the vacuole is driven by clathrin-mediated trafficking in root cells of Arabidopsis thaliana. <i>Journal of Experimental Botany</i>. 2025;76(10):2700-2714. doi:<a href=\"https://doi.org/10.1093/jxb/eraf084\">10.1093/jxb/eraf084</a>","mla":"Osorio-Navarro, Claudio, et al. “The Configuration of the Vacuole Is Driven by Clathrin-Mediated Trafficking in Root Cells of Arabidopsis Thaliana.” <i>Journal of Experimental Botany</i>, vol. 76, no. 10, Oxford University Press, 2025, pp. 2700–14, doi:<a href=\"https://doi.org/10.1093/jxb/eraf084\">10.1093/jxb/eraf084</a>.","ieee":"C. Osorio-Navarro, G. Neira-Valenzuela, P. Sierra, M. Adamowski, J. Toledo, and L. Norambuena, “The configuration of the vacuole is driven by clathrin-mediated trafficking in root cells of Arabidopsis thaliana,” <i>Journal of Experimental Botany</i>, vol. 76, no. 10. Oxford University Press, pp. 2700–2714, 2025.","ista":"Osorio-Navarro C, Neira-Valenzuela G, Sierra P, Adamowski M, Toledo J, Norambuena L. 2025. The configuration of the vacuole is driven by clathrin-mediated trafficking in root cells of Arabidopsis thaliana. Journal of Experimental Botany. 76(10), 2700–2714."},"type":"journal_article","isi":1,"intvolume":"        76","publisher":"Oxford University Press"},{"publisher":"ICLR","type":"conference","scopus_import":"1","quality_controlled":"1","has_accepted_license":"1","citation":{"short":"J. Chen, D. Yao, A.A. Pervez, D.-A. Alistarh, F. Locatello, in:, 13th International Conference on Learning Representations, ICLR, 2025, pp. 63716–63737.","apa":"Chen, J., Yao, D., Pervez, A. A., Alistarh, D.-A., &#38; Locatello, F. (2025). Scalable mechanistic neural networks. In <i>13th International Conference on Learning Representations</i> (pp. 63716–63737). Singapore, Singapore: ICLR.","chicago":"Chen, Jiale, Dingling Yao, Adeel A Pervez, Dan-Adrian Alistarh, and Francesco Locatello. “Scalable Mechanistic Neural Networks.” In <i>13th International Conference on Learning Representations</i>, 63716–37. ICLR, 2025.","ista":"Chen J, Yao D, Pervez AA, Alistarh D-A, Locatello F. 2025. Scalable mechanistic neural networks. 13th International Conference on Learning Representations. ICLR: International Conference on Learning Representations, 63716–63737.","ieee":"J. Chen, D. Yao, A. A. Pervez, D.-A. Alistarh, and F. Locatello, “Scalable mechanistic neural networks,” in <i>13th International Conference on Learning Representations</i>, Singapore, Singapore, 2025, pp. 63716–63737.","mla":"Chen, Jiale, et al. “Scalable Mechanistic Neural Networks.” <i>13th International Conference on Learning Representations</i>, ICLR, 2025, pp. 63716–37.","ama":"Chen J, Yao D, Pervez AA, Alistarh D-A, Locatello F. Scalable mechanistic neural networks. In: <i>13th International Conference on Learning Representations</i>. ICLR; 2025:63716-63737."},"_id":"20032","file_date_updated":"2025-07-22T07:58:22Z","author":[{"id":"4d0a9064-1ff6-11ee-9fa6-ec046c604785","last_name":"Chen","orcid":"0000-0001-5337-5875","first_name":"Jiale","full_name":"Chen, Jiale"},{"full_name":"Yao, Dingling","last_name":"Yao","id":"d3e02e50-48a8-11ee-8f62-c108061797fa","first_name":"Dingling"},{"full_name":"Pervez, Adeel A","id":"fca6d90c-d47f-11ee-bc87-93ff51604981","last_name":"Pervez","first_name":"Adeel A"},{"first_name":"Dan-Adrian","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","last_name":"Alistarh","orcid":"0000-0003-3650-940X","full_name":"Alistarh, Dan-Adrian"},{"full_name":"Locatello, Francesco","orcid":"0000-0002-4850-0683","last_name":"Locatello","id":"26cfd52f-2483-11ee-8040-88983bcc06d4","first_name":"Francesco"}],"article_processing_charge":"No","date_created":"2025-07-20T22:02:01Z","publication_identifier":{"isbn":["9798331320850"]},"conference":{"location":"Singapore, Singapore","end_date":"2025-04-28","start_date":"2025-04-24","name":"ICLR: International Conference on Learning Representations"},"department":[{"_id":"DaAl"},{"_id":"FrLo"}],"page":"63716-63737","OA_place":"publisher","related_material":{"link":[{"url":"https://github.com/IST-DASLab/ScalableMNN","relation":"software"}]},"external_id":{"arxiv":["2410.06074"]},"title":"Scalable mechanistic neural networks","publication":"13th International Conference on Learning Representations","year":"2025","day":"01","corr_author":"1","file":[{"success":1,"file_size":732745,"file_name":"2025_ICLR_Chen.pdf","checksum":"64cfdb12ae3e4e8ba57b1403e1066776","date_created":"2025-07-22T07:58:22Z","file_id":"20065","content_type":"application/pdf","relation":"main_file","creator":"dernst","access_level":"open_access","date_updated":"2025-07-22T07:58:22Z"}],"oa_version":"Published Version","date_updated":"2025-08-04T08:03:11Z","arxiv":1,"language":[{"iso":"eng"}],"oa":1,"OA_type":"diamond","month":"04","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["000"],"publication_status":"published","abstract":[{"lang":"eng","text":"We propose Scalable Mechanistic Neural Network (S-MNN), an enhanced neural network framework designed for scientific machine learning applications involving long temporal sequences. By reformulating the original Mechanistic Neural Network (MNN) (Pervez et al., 2024), we reduce the computational time and space complexities from cubic and quadratic with respect to the sequence length, respectively, to linear. This significant improvement enables efficient modeling of long-term dynamics without sacrificing accuracy or interpretability. Extensive experiments demonstrate that S-MNN matches the original MNN in precision while substantially reducing computational resources. Consequently, S-MNN can drop-in replace the original MNN in applications, providing a practical and efficient tool for integrating mechanistic bottlenecks into neural network models of complex dynamical systems. Source code is available at https://github.com/IST-DASLab/ScalableMNN."}],"date_published":"2025-04-01T00:00:00Z","status":"public"},{"publication_identifier":{"isbn":["9798331320850"]},"article_processing_charge":"No","date_created":"2025-07-20T22:02:02Z","acknowledgement":"M.E.I., H.A.G., E.O.T., S.O. are supported by the NSF grants CCF-2046816, CCF-2403075, the Office of Naval Research grant N000142412289, an OpenAI Agentic AI Systems grant, and gifts by Open Philanthropy and Google Research. M. M. is funded by the European Union (ERC, INF2, project number 101161364). Views and opinions expressed are however those of the author(s) only and do not necessarily reflect those of the European Union or the European Research Council Executive Agency. Neither the European Union nor the granting authority can be held responsible for them.","department":[{"_id":"MaMo"}],"conference":{"name":"ICLR: International Conference on Learning Representations","start_date":"2025-04-24","end_date":"2025-04-28","location":"Singapore, Singapore"},"page":"2967-3006","OA_place":"publisher","publication":"13th International Conference on Learning Representations","project":[{"grant_number":"101161364","_id":"911e6d1f-16d5-11f0-9cad-c5c68c6a1cdf","name":"Inference in High Dimensions: Light-speed Algorithms and Information Limits"}],"year":"2025","external_id":{"arxiv":["2410.18837"]},"title":"High-dimensional analysis of knowledge distillation: Weak-to-Strong generalization and scaling laws","publisher":"ICLR","type":"conference","citation":{"chicago":"Emrullah Ildiz, M., Halil Alperen Gozeten, Ege Onur Taga, Marco Mondelli, and Samet Oymak. “High-Dimensional Analysis of Knowledge Distillation: Weak-to-Strong Generalization and Scaling Laws.” In <i>13th International Conference on Learning Representations</i>, 2967–3006. ICLR, 2025.","apa":"Emrullah Ildiz, M., Gozeten, H. A., Taga, E. O., Mondelli, M., &#38; Oymak, S. (2025). High-dimensional analysis of knowledge distillation: Weak-to-Strong generalization and scaling laws. In <i>13th International Conference on Learning Representations</i> (pp. 2967–3006). Singapore, Singapore: ICLR.","short":"M. Emrullah Ildiz, H.A. Gozeten, E.O. Taga, M. Mondelli, S. Oymak, in:, 13th International Conference on Learning Representations, ICLR, 2025, pp. 2967–3006.","ama":"Emrullah Ildiz M, Gozeten HA, Taga EO, Mondelli M, Oymak S. High-dimensional analysis of knowledge distillation: Weak-to-Strong generalization and scaling laws. In: <i>13th International Conference on Learning Representations</i>. ICLR; 2025:2967-3006.","ieee":"M. Emrullah Ildiz, H. A. Gozeten, E. O. Taga, M. Mondelli, and S. Oymak, “High-dimensional analysis of knowledge distillation: Weak-to-Strong generalization and scaling laws,” in <i>13th International Conference on Learning Representations</i>, Singapore, Singapore, 2025, pp. 2967–3006.","mla":"Emrullah Ildiz, M., et al. “High-Dimensional Analysis of Knowledge Distillation: Weak-to-Strong Generalization and Scaling Laws.” <i>13th International Conference on Learning Representations</i>, ICLR, 2025, pp. 2967–3006.","ista":"Emrullah Ildiz M, Gozeten HA, Taga EO, Mondelli M, Oymak S. 2025. High-dimensional analysis of knowledge distillation: Weak-to-Strong generalization and scaling laws. 13th International Conference on Learning Representations. ICLR: International Conference on Learning Representations, 2967–3006."},"quality_controlled":"1","scopus_import":"1","has_accepted_license":"1","file_date_updated":"2025-08-04T08:32:38Z","_id":"20033","author":[{"full_name":"Emrullah Ildiz, M.","first_name":"M.","last_name":"Emrullah Ildiz"},{"full_name":"Gozeten, Halil Alperen","last_name":"Gozeten","first_name":"Halil Alperen"},{"last_name":"Taga","first_name":"Ege Onur","full_name":"Taga, Ege Onur"},{"full_name":"Mondelli, Marco","first_name":"Marco","id":"27EB676C-8706-11E9-9510-7717E6697425","last_name":"Mondelli","orcid":"0000-0002-3242-7020"},{"full_name":"Oymak, Samet","last_name":"Oymak","first_name":"Samet"}],"OA_type":"diamond","month":"04","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["000"],"publication_status":"published","abstract":[{"text":"A growing number of machine learning scenarios rely on knowledge distillation where one uses the output of a surrogate model as labels to supervise the training of a target model. In this work, we provide a sharp characterization of this process for ridgeless, high-dimensional regression, under two settings: (i) model shift, where the surrogate model is arbitrary, and (ii) distribution shift, where the surrogate model is the solution of empirical risk minimization with out-of-distribution data. In both cases, we characterize the precise risk of the target model through non-asymptotic bounds in terms of sample size and data distribution under mild conditions. As a consequence, we identify the form of the optimal surrogate model, which reveals the benefits and limitations of discarding weak features in a data-dependent fashion. In the context of weak-to-strong (W2S) generalization, this has the interpretation that (i) W2S training, with the surrogate as the weak model, can provably outperform training with strong labels under the same data budget, but (ii) it is unable to improve the data scaling law. We validate our results on numerical experiments both on ridgeless regression and on neural network architectures.","lang":"eng"}],"status":"public","date_published":"2025-04-01T00:00:00Z","day":"01","file":[{"content_type":"application/pdf","relation":"main_file","creator":"dernst","access_level":"open_access","date_updated":"2025-08-04T08:32:38Z","success":1,"file_name":"2025_ICLR_Ildiz.pdf","file_size":528171,"checksum":"5a38b093ebb4ee4eb662ea142621a5ca","date_created":"2025-08-04T08:32:38Z","file_id":"20112"}],"arxiv":1,"oa_version":"Published Version","date_updated":"2025-08-04T08:33:58Z","oa":1,"language":[{"iso":"eng"}]}]