[{"_id":"14319","language":[{"iso":"eng"}],"acknowledgement":"Anastos has received funding from the European Union’s Horizon 2020 research and in-novation programme under the Marie Sk lodowska-Curie grant agreement No 101034413.Fabian’s research is supported by the Deutsche Forschungsgemeinschaft (DFG, GermanResearch Foundation) Graduiertenkolleg “Facets of Complexity” (GRK 2434).","issue":"3","ddc":["510"],"arxiv":1,"citation":{"chicago":"Anastos, Michael, David Fabian, Alp Müyesser, and Tibor Szabó. “Splitting Matchings and the Ryser-Brualdi-Stein Conjecture for Multisets.” <i>Electronic Journal of Combinatorics</i>. Electronic Journal of Combinatorics, 2023. <a href=\"https://doi.org/10.37236/11714\">https://doi.org/10.37236/11714</a>.","ieee":"M. Anastos, D. Fabian, A. Müyesser, and T. Szabó, “Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets,” <i>Electronic Journal of Combinatorics</i>, vol. 30, no. 3. Electronic Journal of Combinatorics, 2023.","mla":"Anastos, Michael, et al. “Splitting Matchings and the Ryser-Brualdi-Stein Conjecture for Multisets.” <i>Electronic Journal of Combinatorics</i>, vol. 30, no. 3, P3.10, Electronic Journal of Combinatorics, 2023, doi:<a href=\"https://doi.org/10.37236/11714\">10.37236/11714</a>.","short":"M. Anastos, D. Fabian, A. Müyesser, T. Szabó, Electronic Journal of Combinatorics 30 (2023).","ama":"Anastos M, Fabian D, Müyesser A, Szabó T. Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets. <i>Electronic Journal of Combinatorics</i>. 2023;30(3). doi:<a href=\"https://doi.org/10.37236/11714\">10.37236/11714</a>","ista":"Anastos M, Fabian D, Müyesser A, Szabó T. 2023. Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets. Electronic Journal of Combinatorics. 30(3), P3.10.","apa":"Anastos, M., Fabian, D., Müyesser, A., &#38; Szabó, T. (2023). Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets. <i>Electronic Journal of Combinatorics</i>. Electronic Journal of Combinatorics. <a href=\"https://doi.org/10.37236/11714\">https://doi.org/10.37236/11714</a>"},"article_type":"original","file":[{"checksum":"52c46c8cb329f9aaee9ade01525f317b","creator":"dernst","file_name":"2023_elecJournCombinatorics_Anastos.pdf","relation":"main_file","content_type":"application/pdf","date_updated":"2023-09-15T08:02:09Z","date_created":"2023-09-15T08:02:09Z","access_level":"open_access","success":1,"file_id":"14338","file_size":247917}],"author":[{"id":"0b2a4358-bb35-11ec-b7b9-e3279b593dbb","first_name":"Michael","last_name":"Anastos","full_name":"Anastos, Michael"},{"first_name":"David","last_name":"Fabian","full_name":"Fabian, David"},{"full_name":"Müyesser, Alp","last_name":"Müyesser","first_name":"Alp"},{"last_name":"Szabó","first_name":"Tibor","full_name":"Szabó, Tibor"}],"article_number":"P3.10","file_date_updated":"2023-09-15T08:02:09Z","month":"07","oa":1,"article_processing_charge":"Yes","year":"2023","ec_funded":1,"has_accepted_license":"1","date_updated":"2023-09-15T08:12:30Z","day":"28","publication_identifier":{"eissn":["1077-8926"]},"external_id":{"arxiv":["2212.03100"]},"doi":"10.37236/11714","title":"Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets","tmp":{"image":"/image/cc_by_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nd/4.0/legalcode","short":"CC BY-ND (4.0)","name":"Creative Commons Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0)"},"intvolume":"        30","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Electronic Journal of Combinatorics","status":"public","date_published":"2023-07-28T00:00:00Z","abstract":[{"text":"We study multigraphs whose edge-sets are the union of three perfect matchings, M1, M2, and M3. Given such a graph G and any a1; a2; a3 2 N with a1 +a2 +a3 6 n - 2, we show there exists a matching M of G with jM \\ Mij = ai for each i 2 f1; 2; 3g. The bound n - 2 in the theorem is best possible in general. We conjecture however that if G is bipartite, the same result holds with n - 2 replaced by n - 1. We give a construction that shows such a result would be tight. We\r\nalso make a conjecture generalising the Ryser-Brualdi-Stein conjecture with colour\r\nmultiplicities.","lang":"eng"}],"date_created":"2023-09-10T22:01:12Z","scopus_import":"1","oa_version":"Published Version","type":"journal_article","volume":30,"publisher":"Electronic Journal of Combinatorics","publication_status":"published","quality_controlled":"1","project":[{"call_identifier":"H2020","name":"IST-BRIDGE: International postdoctoral program","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413"}],"department":[{"_id":"MaKw"}]},{"acknowledgement":"A.F.Y. acknowledges primary support from the Department of Energy under award DE-SC0020043, and additional support from the Gordon and Betty Moore Foundation under award GBMF9471 for group operations.","_id":"14320","language":[{"iso":"eng"}],"issue":"12","citation":{"mla":"Henderson, Paul M., et al. “Deep Learning Extraction of Band Structure Parameters from Density of States: A Case Study on Trilayer Graphene.” <i>Physical Review B</i>, vol. 108, no. 12, 125411, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/physrevb.108.125411\">10.1103/physrevb.108.125411</a>.","short":"P.M. Henderson, A. Ghazaryan, A.A. Zibrov, A.F. Young, M. Serbyn, Physical Review B 108 (2023).","chicago":"Henderson, Paul M, Areg Ghazaryan, Alexander A. Zibrov, Andrea F. Young, and Maksym Serbyn. “Deep Learning Extraction of Band Structure Parameters from Density of States: A Case Study on Trilayer Graphene.” <i>Physical Review B</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/physrevb.108.125411\">https://doi.org/10.1103/physrevb.108.125411</a>.","ieee":"P. M. Henderson, A. Ghazaryan, A. A. Zibrov, A. F. Young, and M. Serbyn, “Deep learning extraction of band structure parameters from density of states: A case study on trilayer graphene,” <i>Physical Review B</i>, vol. 108, no. 12. American Physical Society, 2023.","ista":"Henderson PM, Ghazaryan A, Zibrov AA, Young AF, Serbyn M. 2023. Deep learning extraction of band structure parameters from density of states: A case study on trilayer graphene. Physical Review B. 108(12), 125411.","apa":"Henderson, P. M., Ghazaryan, A., Zibrov, A. A., Young, A. F., &#38; Serbyn, M. (2023). Deep learning extraction of band structure parameters from density of states: A case study on trilayer graphene. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevb.108.125411\">https://doi.org/10.1103/physrevb.108.125411</a>","ama":"Henderson PM, Ghazaryan A, Zibrov AA, Young AF, Serbyn M. Deep learning extraction of band structure parameters from density of states: A case study on trilayer graphene. <i>Physical Review B</i>. 2023;108(12). doi:<a href=\"https://doi.org/10.1103/physrevb.108.125411\">10.1103/physrevb.108.125411</a>"},"arxiv":1,"article_type":"original","article_number":"125411","month":"09","author":[{"last_name":"Henderson","first_name":"Paul M","id":"13C09E74-18D9-11E9-8878-32CFE5697425","orcid":"0000-0002-5198-7445","full_name":"Henderson, Paul M"},{"first_name":"Areg","last_name":"Ghazaryan","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9666-3543","full_name":"Ghazaryan, Areg"},{"full_name":"Zibrov, Alexander A.","first_name":"Alexander A.","last_name":"Zibrov"},{"full_name":"Young, Andrea F.","first_name":"Andrea F.","last_name":"Young"},{"orcid":"0000-0002-2399-5827","full_name":"Serbyn, Maksym","last_name":"Serbyn","first_name":"Maksym","id":"47809E7E-F248-11E8-B48F-1D18A9856A87"}],"article_processing_charge":"No","oa":1,"year":"2023","date_updated":"2023-09-20T09:38:24Z","publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]},"day":"15","external_id":{"arxiv":["2210.06310"]},"title":"Deep learning extraction of band structure parameters from density of states: A case study on trilayer graphene","doi":"10.1103/physrevb.108.125411","intvolume":"       108","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-09-15T00:00:00Z","status":"public","publication":"Physical Review B","abstract":[{"lang":"eng","text":"The development of two-dimensional materials has resulted in a diverse range of novel, high-quality compounds with increasing complexity. A key requirement for a comprehensive quantitative theory is the accurate determination of these materials' band structure parameters. However, this task is challenging due to the intricate band structures and the indirect nature of experimental probes. In this work, we introduce a general framework to derive band structure parameters from experimental data using deep neural networks. We applied our method to the penetration field capacitance measurement of trilayer graphene, an effective probe of its density of states. First, we demonstrate that a trained deep network gives accurate predictions for the penetration field capacitance as a function of tight-binding parameters. Next, we use the fast and accurate predictions from the trained network to automatically determine tight-binding parameters directly from experimental data, with extracted parameters being in a good agreement with values in the literature. We conclude by discussing potential applications of our method to other materials and experimental techniques beyond penetration field capacitance."}],"date_created":"2023-09-12T07:12:12Z","scopus_import":"1","oa_version":"Preprint","volume":108,"type":"journal_article","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2210.06310","open_access":"1"}],"publisher":"American Physical Society","publication_status":"published","quality_controlled":"1","department":[{"_id":"MaSe"},{"_id":"ChLa"},{"_id":"MiLe"}]},{"oa_version":"Published Version","date_created":"2023-09-13T09:25:09Z","scopus_import":"1","publication":"The Journal of Chemical Physics","status":"public","date_published":"2023-09-11T00:00:00Z","abstract":[{"lang":"eng","text":"We demonstrate the possibility of a coupling between the magnetization direction of a ferromagnet and the tilting angle of adsorbed achiral molecules. To illustrate the mechanism of the coupling, we analyze a minimal Stoner model that includes Rashba spin–orbit coupling due to the electric field on the surface of the ferromagnet. The proposed mechanism allows us to study magnetic anisotropy of the system with an extended Stoner–Wohlfarth model and argue that adsorbed achiral molecules can change magnetocrystalline anisotropy of the substrate. Our research aims to motivate further experimental studies of the current-free chirality induced spin selectivity effect involving both enantiomers."}],"intvolume":"       159","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","quality_controlled":"1","project":[{"grant_number":"101062862","name":"Non-equilibrium Field Theory of Molecular Rotations","_id":"bd7b5202-d553-11ed-ba76-9b1c1b258338"},{"call_identifier":"H2020","grant_number":"801770","name":"Angulon: physics and applications of a new quasiparticle","_id":"2688CF98-B435-11E9-9278-68D0E5697425"}],"pmid":1,"department":[{"_id":"MiLe"}],"publisher":"AIP Publishing","publication_status":"published","type":"journal_article","volume":159,"file":[{"success":1,"file_id":"14322","file_size":5749653,"date_updated":"2023-09-13T09:34:20Z","date_created":"2023-09-13T09:34:20Z","access_level":"open_access","content_type":"application/pdf","checksum":"507ab65ab29e2c987c94cabad7c5370b","creator":"acappell","relation":"main_file","file_name":"104103_1_5.0165806.pdf"}],"author":[{"id":"d1c405be-ae15-11ed-8510-ccf53278162e","last_name":"Al Hyder","first_name":"Ragheed","full_name":"Al Hyder, Ragheed"},{"orcid":"0000-0001-6110-2359","full_name":"Cappellaro, Alberto","id":"9d13b3cb-30a2-11eb-80dc-f772505e8660","first_name":"Alberto","last_name":"Cappellaro"},{"orcid":"0000-0002-6990-7802","full_name":"Lemeshko, Mikhail","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko","first_name":"Mikhail"},{"last_name":"Volosniev","first_name":"Artem","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","full_name":"Volosniev, Artem","orcid":"0000-0003-0393-5525"}],"month":"09","file_date_updated":"2023-09-13T09:34:20Z","article_number":"104103","ddc":["530"],"keyword":["Physical and Theoretical Chemistry","General Physics and Astronomy"],"citation":{"apa":"Al Hyder, R., Cappellaro, A., Lemeshko, M., &#38; Volosniev, A. (2023). Achiral dipoles on a ferromagnet can affect its magnetization direction. <i>The Journal of Chemical Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0165806\">https://doi.org/10.1063/5.0165806</a>","ista":"Al Hyder R, Cappellaro A, Lemeshko M, Volosniev A. 2023. Achiral dipoles on a ferromagnet can affect its magnetization direction. The Journal of Chemical Physics. 159(10), 104103.","ama":"Al Hyder R, Cappellaro A, Lemeshko M, Volosniev A. Achiral dipoles on a ferromagnet can affect its magnetization direction. <i>The Journal of Chemical Physics</i>. 2023;159(10). doi:<a href=\"https://doi.org/10.1063/5.0165806\">10.1063/5.0165806</a>","short":"R. Al Hyder, A. Cappellaro, M. Lemeshko, A. Volosniev, The Journal of Chemical Physics 159 (2023).","mla":"Al Hyder, Ragheed, et al. “Achiral Dipoles on a Ferromagnet Can Affect Its Magnetization Direction.” <i>The Journal of Chemical Physics</i>, vol. 159, no. 10, 104103, AIP Publishing, 2023, doi:<a href=\"https://doi.org/10.1063/5.0165806\">10.1063/5.0165806</a>.","ieee":"R. Al Hyder, A. Cappellaro, M. Lemeshko, and A. Volosniev, “Achiral dipoles on a ferromagnet can affect its magnetization direction,” <i>The Journal of Chemical Physics</i>, vol. 159, no. 10. AIP Publishing, 2023.","chicago":"Al Hyder, Ragheed, Alberto Cappellaro, Mikhail Lemeshko, and Artem Volosniev. “Achiral Dipoles on a Ferromagnet Can Affect Its Magnetization Direction.” <i>The Journal of Chemical Physics</i>. AIP Publishing, 2023. <a href=\"https://doi.org/10.1063/5.0165806\">https://doi.org/10.1063/5.0165806</a>."},"arxiv":1,"article_type":"original","issue":"10","_id":"14321","language":[{"iso":"eng"}],"acknowledgement":"We thank Zhanybek Alpichshev, Mohammad Reza Safari, Binghai Yan, and Yossi Paltiel for enlightening discussions.\r\nM.L. acknowledges support from the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). A. C. received funding from the European Union’s Horizon Europe research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 101062862 - NeqMolRot.","external_id":{"arxiv":["2306.17592"],"pmid":["37694742"]},"doi":"10.1063/5.0165806","title":"Achiral dipoles on a ferromagnet can affect its magnetization direction","date_updated":"2023-09-20T09:48:12Z","day":"11","publication_identifier":{"issn":["0021-9606"],"eissn":["1089-7690"]},"ec_funded":1,"year":"2023","has_accepted_license":"1","oa":1,"article_processing_charge":"Yes (in subscription journal)"},{"type":"dissertation","supervisor":[{"orcid":"0000-0003-4509-4998","full_name":"Kicheva, Anna","first_name":"Anna","last_name":"Kicheva","id":"3959A2A0-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"GradSch"},{"_id":"AnKi"}],"project":[{"_id":"267AF0E4-B435-11E9-9278-68D0E5697425","name":"The role of morphogens in the regulation of neural tube growth"}],"publication_status":"published","acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"publisher":"Institute of Science and Technology Austria","abstract":[{"text":"Morphogens are signaling molecules that are known for their prominent role in pattern formation within developing tissues. In addition to patterning, morphogens also control tissue growth. However, the underlying mechanisms are poorly understood. We studied the role of morphogens in regulating tissue growth in the developing vertebrate neural tube. In this system, opposing morphogen gradients of Shh and BMP establish the dorsoventral pattern of neural progenitor domains. Perturbations in these morphogen pathways result in alterations in tissue growth and cell cycle progression, however, it has been unclear what cellular process is affected. To address this, we analysed the rates of cell proliferation and cell death in mouse mutants in which signaling is perturbed, as well as in chick neural plate explants exposed to defined concentrations of signaling activators or inhibitors. Our results indicated that the rate of cell proliferation was not altered in these assays. By contrast, both the Shh and BMP signaling pathways had profound effects on neural progenitor survival. Our results indicate that these pathways synergise to promote cell survival within neural progenitors. Consistent with this, we found that progenitors within the intermediate region of the neural tube, where the combined levels of Shh and BMP are the lowest, are most prone to cell death when signaling activity is inhibited. In addition, we found that downregulation of Shh results in increased apoptosis within the roof plate, which is the dorsal source of BMP ligand production. This revealed a cross-interaction between the Shh and BMP morphogen signaling pathways that may be relevant for understanding how gradients scale in neural tubes with different overall sizes. We further studied the mechanism acting downstream of Shh in cell survival regulation using genetic and genomic approaches. We propose that Shh transcriptionally regulates a non-canonical apoptotic pathway. Altogether, our study points to a novel role of opposing morphogen gradients in tissue size regulation and provides new insights into complex interactions between Shh and BMP signaling gradients in the neural tube.","lang":"eng"}],"date_published":"2023-09-13T00:00:00Z","status":"public","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","tmp":{"image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"oa_version":"Published Version","alternative_title":["ISTA Thesis"],"date_created":"2023-09-13T10:07:18Z","related_material":{"record":[{"relation":"part_of_dissertation","id":"7883","status":"public"}]},"has_accepted_license":"1","year":"2023","article_processing_charge":"No","doi":"10.15479/at:ista:14323","title":"Regulation of neural progenitor survival by Shh and BMP in the developing spinal cord","day":"13","publication_identifier":{"issn":["2663 - 337X"]},"date_updated":"2024-03-07T15:02:59Z","page":"151","degree_awarded":"PhD","_id":"14323","language":[{"iso":"eng"}],"author":[{"first_name":"Katarzyna","last_name":"Kuzmicz-Kowalska","id":"4CED352A-F248-11E8-B48F-1D18A9856A87","full_name":"Kuzmicz-Kowalska, Katarzyna"}],"file":[{"checksum":"bd83596869c814b24aeff7077d031c0e","creator":"kkuzmicz","file_name":"PhDThesis_KK_final_pdfA.pdf","relation":"main_file","embargo":"2025-03-13","content_type":"application/pdf","date_created":"2023-09-13T09:52:52Z","embargo_to":"open_access","date_updated":"2023-09-13T10:08:25Z","access_level":"closed","file_id":"14324","file_size":10147911},{"file_size":103980668,"file_id":"14325","access_level":"closed","date_created":"2023-09-13T09:53:29Z","date_updated":"2023-09-13T09:53:29Z","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_name":"thesis_KK_final_corrections_092023.docx","relation":"source_file","checksum":"aa2757ae4c3478041fd7e62c587d3e4d","creator":"kkuzmicz"}],"file_date_updated":"2023-09-13T10:08:25Z","month":"09","ddc":["570"],"citation":{"ista":"Kuzmicz-Kowalska K. 2023. Regulation of neural progenitor survival by Shh and BMP in the developing spinal cord. Institute of Science and Technology Austria.","apa":"Kuzmicz-Kowalska, K. (2023). <i>Regulation of neural progenitor survival by Shh and BMP in the developing spinal cord</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14323\">https://doi.org/10.15479/at:ista:14323</a>","ama":"Kuzmicz-Kowalska K. Regulation of neural progenitor survival by Shh and BMP in the developing spinal cord. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:14323\">10.15479/at:ista:14323</a>","mla":"Kuzmicz-Kowalska, Katarzyna. <i>Regulation of Neural Progenitor Survival by Shh and BMP in the Developing Spinal Cord</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:14323\">10.15479/at:ista:14323</a>.","short":"K. Kuzmicz-Kowalska, Regulation of Neural Progenitor Survival by Shh and BMP in the Developing Spinal Cord, Institute of Science and Technology Austria, 2023.","chicago":"Kuzmicz-Kowalska, Katarzyna. “Regulation of Neural Progenitor Survival by Shh and BMP in the Developing Spinal Cord.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:14323\">https://doi.org/10.15479/at:ista:14323</a>.","ieee":"K. Kuzmicz-Kowalska, “Regulation of neural progenitor survival by Shh and BMP in the developing spinal cord,” Institute of Science and Technology Austria, 2023."}},{"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2307.09552","open_access":"1"}],"year":"2023","type":"preprint","oa":1,"article_processing_charge":"No","doi":"10.48550/arXiv.2307.09552","department":[{"_id":"FrLo"}],"title":"Self-compatibility: Evaluating causal discovery without ground truth","external_id":{"arxiv":["2307.09552"]},"day":"18","publication_status":"submitted","date_updated":"2023-09-13T12:47:53Z","abstract":[{"lang":"eng","text":"As causal ground truth is incredibly rare, causal discovery algorithms are\r\ncommonly only evaluated on simulated data. This is concerning, given that\r\nsimulations reflect common preconceptions about generating processes regarding\r\nnoise distributions, model classes, and more. In this work, we propose a novel\r\nmethod for falsifying the output of a causal discovery algorithm in the absence\r\nof ground truth. Our key insight is that while statistical learning seeks\r\nstability across subsets of data points, causal learning should seek stability\r\nacross subsets of variables. Motivated by this insight, our method relies on a\r\nnotion of compatibility between causal graphs learned on different subsets of\r\nvariables. We prove that detecting incompatibilities can falsify wrongly\r\ninferred causal relations due to violation of assumptions or errors from finite\r\nsample effects. Although passing such compatibility tests is only a necessary\r\ncriterion for good performance, we argue that it provides strong evidence for\r\nthe causal models whenever compatibility entails strong implications for the\r\njoint distribution. We also demonstrate experimentally that detection of\r\nincompatibilities can aid in causal model selection."}],"publication":"arXiv","status":"public","date_published":"2023-07-18T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14333","language":[{"iso":"eng"}],"author":[{"last_name":"Faller","first_name":"Philipp M.","full_name":"Faller, Philipp M."},{"full_name":"Vankadara, Leena Chennuru","first_name":"Leena Chennuru","last_name":"Vankadara"},{"first_name":"Atalanti A.","last_name":"Mastakouri","full_name":"Mastakouri, Atalanti A."},{"orcid":"0000-0002-4850-0683","full_name":"Locatello, Francesco","first_name":"Francesco","last_name":"Locatello","id":"26cfd52f-2483-11ee-8040-88983bcc06d4"},{"first_name":"Dominik","last_name":"Janzing","full_name":"Janzing, Dominik"}],"oa_version":"Preprint","article_number":"2307.09552","month":"07","extern":"1","date_created":"2023-09-13T12:44:59Z","citation":{"ama":"Faller PM, Vankadara LC, Mastakouri AA, Locatello F, Janzing D. Self-compatibility: Evaluating causal discovery without ground truth. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2307.09552\">10.48550/arXiv.2307.09552</a>","ista":"Faller PM, Vankadara LC, Mastakouri AA, Locatello F, Janzing D. Self-compatibility: Evaluating causal discovery without ground truth. arXiv, 2307.09552.","apa":"Faller, P. M., Vankadara, L. C., Mastakouri, A. A., Locatello, F., &#38; Janzing, D. (n.d.). Self-compatibility: Evaluating causal discovery without ground truth. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2307.09552\">https://doi.org/10.48550/arXiv.2307.09552</a>","chicago":"Faller, Philipp M., Leena Chennuru Vankadara, Atalanti A. Mastakouri, Francesco Locatello, and Dominik Janzing. “Self-Compatibility: Evaluating Causal Discovery without Ground Truth.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2307.09552\">https://doi.org/10.48550/arXiv.2307.09552</a>.","ieee":"P. M. Faller, L. C. Vankadara, A. A. Mastakouri, F. Locatello, and D. Janzing, “Self-compatibility: Evaluating causal discovery without ground truth,” <i>arXiv</i>. .","short":"P.M. Faller, L.C. Vankadara, A.A. Mastakouri, F. Locatello, D. Janzing, ArXiv (n.d.).","mla":"Faller, Philipp M., et al. “Self-Compatibility: Evaluating Causal Discovery without Ground Truth.” <i>ArXiv</i>, 2307.09552, doi:<a href=\"https://doi.org/10.48550/arXiv.2307.09552\">10.48550/arXiv.2307.09552</a>."},"arxiv":1},{"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"intvolume":"        15","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-09-13T00:00:00Z","status":"public","publication":"SciPost Physics","abstract":[{"text":"Quantum kinetically constrained models have recently attracted significant attention due to their anomalous dynamics and thermalization. In this work, we introduce a hitherto unexplored family of kinetically constrained models featuring conserved particle number and strong inversion-symmetry breaking due to facilitated hopping. We demonstrate that these models provide a generic example of so-called quantum Hilbert space fragmentation, that is manifested in disconnected sectors in the Hilbert space that are not apparent in the computational basis. Quantum Hilbert space fragmentation leads to an exponential in system size number of eigenstates with exactly zero entanglement entropy across several bipartite cuts. These eigenstates can be probed dynamically using quenches from simple initial product states. In addition, we study the particle spreading under unitary dynamics launched from the domain wall state, and find faster than diffusive dynamics at high particle densities, that crosses over into logarithmically slow relaxation at smaller densities. Using a classically simulable cellular automaton, we reproduce the logarithmic dynamics observed in the quantum case. Our work suggests that particle conserving constrained models with inversion symmetry breaking realize so far unexplored dynamical behavior and invite their further theoretical and experimental studies.","lang":"eng"}],"date_created":"2023-09-14T13:08:23Z","oa_version":"Published Version","volume":15,"type":"journal_article","publisher":"SciPost Foundation","publication_status":"published","project":[{"name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E","grant_number":"850899","call_identifier":"H2020"}],"quality_controlled":"1","department":[{"_id":"MaSe"}],"acknowledgement":"We would like to thank Raimel A. Medina, Hansveer Singh, and Dmitry Abanin for useful\r\ndiscussions.The authors acknowledge support by the European Research Council\r\n(ERC) under the European Union’s Horizon 2020 research and innovation program (Grant\r\nAgreement No. 850899). We acknowledge support by the Erwin Schrödinger International\r\nInstitute for Mathematics and Physics (ESI).","_id":"14334","language":[{"iso":"eng"}],"issue":"3","arxiv":1,"keyword":["General Physics and Astronomy"],"citation":{"ista":"Brighi P, Ljubotina M, Serbyn M. 2023. Hilbert space fragmentation and slow dynamics in particle-conserving quantum East models. SciPost Physics. 15(3), 093.","apa":"Brighi, P., Ljubotina, M., &#38; Serbyn, M. (2023). Hilbert space fragmentation and slow dynamics in particle-conserving quantum East models. <i>SciPost Physics</i>. SciPost Foundation. <a href=\"https://doi.org/10.21468/scipostphys.15.3.093\">https://doi.org/10.21468/scipostphys.15.3.093</a>","ama":"Brighi P, Ljubotina M, Serbyn M. Hilbert space fragmentation and slow dynamics in particle-conserving quantum East models. <i>SciPost Physics</i>. 2023;15(3). doi:<a href=\"https://doi.org/10.21468/scipostphys.15.3.093\">10.21468/scipostphys.15.3.093</a>","mla":"Brighi, Pietro, et al. “Hilbert Space Fragmentation and Slow Dynamics in Particle-Conserving Quantum East Models.” <i>SciPost Physics</i>, vol. 15, no. 3, 093, SciPost Foundation, 2023, doi:<a href=\"https://doi.org/10.21468/scipostphys.15.3.093\">10.21468/scipostphys.15.3.093</a>.","short":"P. Brighi, M. Ljubotina, M. Serbyn, SciPost Physics 15 (2023).","chicago":"Brighi, Pietro, Marko Ljubotina, and Maksym Serbyn. “Hilbert Space Fragmentation and Slow Dynamics in Particle-Conserving Quantum East Models.” <i>SciPost Physics</i>. SciPost Foundation, 2023. <a href=\"https://doi.org/10.21468/scipostphys.15.3.093\">https://doi.org/10.21468/scipostphys.15.3.093</a>.","ieee":"P. Brighi, M. Ljubotina, and M. Serbyn, “Hilbert space fragmentation and slow dynamics in particle-conserving quantum East models,” <i>SciPost Physics</i>, vol. 15, no. 3. SciPost Foundation, 2023."},"ddc":["530"],"article_type":"original","article_number":"093","file_date_updated":"2023-09-20T10:46:10Z","month":"09","file":[{"creator":"dernst","checksum":"4cef6a8021f6b6c47ab2f2f2b1387ac2","relation":"main_file","file_name":"2023_SciPostPhysics_Brighi.pdf","content_type":"application/pdf","date_updated":"2023-09-20T10:46:10Z","date_created":"2023-09-20T10:46:10Z","access_level":"open_access","success":1,"file_id":"14350","file_size":4866506}],"author":[{"last_name":"Brighi","first_name":"Pietro","id":"4115AF5C-F248-11E8-B48F-1D18A9856A87","full_name":"Brighi, Pietro","orcid":"0000-0002-7969-2729"},{"full_name":"Ljubotina, Marko","orcid":"0000-0003-0038-7068","id":"F75EE9BE-5C90-11EA-905D-16643DDC885E","first_name":"Marko","last_name":"Ljubotina"},{"first_name":"Maksym","last_name":"Serbyn","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","full_name":"Serbyn, Maksym","orcid":"0000-0002-2399-5827"}],"article_processing_charge":"No","oa":1,"ec_funded":1,"year":"2023","has_accepted_license":"1","related_material":{"record":[{"id":"12750","relation":"earlier_version","status":"public"}]},"date_updated":"2023-09-20T10:46:29Z","publication_identifier":{"issn":["2542-4653"]},"day":"13","external_id":{"arxiv":["2210.15607"]},"title":"Hilbert space fragmentation and slow dynamics in particle-conserving quantum East models","doi":"10.21468/scipostphys.15.3.093"},{"file_date_updated":"2023-09-20T10:51:31Z","month":"09","file":[{"relation":"main_file","file_name":"2023_NaturePlants_Roychoudhry.pdf","checksum":"3d6d5d5abb937c14a5f6f0afba3b8624","creator":"dernst","content_type":"application/pdf","access_level":"open_access","date_updated":"2023-09-20T10:51:31Z","date_created":"2023-09-20T10:51:31Z","file_size":9647103,"success":1,"file_id":"14351"}],"author":[{"full_name":"Roychoudhry, S","first_name":"S","last_name":"Roychoudhry"},{"full_name":"Sageman-Furnas, K","first_name":"K","last_name":"Sageman-Furnas"},{"last_name":"Wolverton","first_name":"C","full_name":"Wolverton, C"},{"id":"399876EC-F248-11E8-B48F-1D18A9856A87","first_name":"Peter","last_name":"Grones","full_name":"Grones, Peter"},{"last_name":"Tan","first_name":"Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","full_name":"Tan, Shutang"},{"full_name":"Molnar, Gergely","first_name":"Gergely","last_name":"Molnar","id":"34F1AF46-F248-11E8-B48F-1D18A9856A87"},{"full_name":"De Angelis, M","first_name":"M","last_name":"De Angelis"},{"first_name":"HL","last_name":"Goodman","full_name":"Goodman, HL"},{"full_name":"Capstaff, N","first_name":"N","last_name":"Capstaff"},{"first_name":"Lloyd","last_name":"JPB","full_name":"JPB, Lloyd"},{"first_name":"J","last_name":"Mullen","full_name":"Mullen, J"},{"first_name":"R","last_name":"Hangarter","full_name":"Hangarter, R"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Kepinski, S","first_name":"S","last_name":"Kepinski"}],"citation":{"short":"S. Roychoudhry, K. Sageman-Furnas, C. Wolverton, P. Grones, S. Tan, G. Molnar, M. De Angelis, H. Goodman, N. Capstaff, L. JPB, J. Mullen, R. Hangarter, J. Friml, S. Kepinski, Nature Plants 9 (2023) 1500–1513.","mla":"Roychoudhry, S., et al. “Antigravitropic PIN Polarization Maintains Non-Vertical Growth in Lateral Roots.” <i>Nature Plants</i>, vol. 9, Springer Nature, 2023, pp. 1500–13, doi:<a href=\"https://doi.org/10.1038/s41477-023-01478-x\">10.1038/s41477-023-01478-x</a>.","chicago":"Roychoudhry, S, K Sageman-Furnas, C Wolverton, Peter Grones, Shutang Tan, Gergely Molnar, M De Angelis, et al. “Antigravitropic PIN Polarization Maintains Non-Vertical Growth in Lateral Roots.” <i>Nature Plants</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41477-023-01478-x\">https://doi.org/10.1038/s41477-023-01478-x</a>.","ieee":"S. Roychoudhry <i>et al.</i>, “Antigravitropic PIN polarization maintains non-vertical growth in lateral roots,” <i>Nature Plants</i>, vol. 9. Springer Nature, pp. 1500–1513, 2023.","ista":"Roychoudhry S, Sageman-Furnas K, Wolverton C, Grones P, Tan S, Molnar G, De Angelis M, Goodman H, Capstaff N, JPB L, Mullen J, Hangarter R, Friml J, Kepinski S. 2023. Antigravitropic PIN polarization maintains non-vertical growth in lateral roots. Nature Plants. 9, 1500–1513.","apa":"Roychoudhry, S., Sageman-Furnas, K., Wolverton, C., Grones, P., Tan, S., Molnar, G., … Kepinski, S. (2023). Antigravitropic PIN polarization maintains non-vertical growth in lateral roots. <i>Nature Plants</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41477-023-01478-x\">https://doi.org/10.1038/s41477-023-01478-x</a>","ama":"Roychoudhry S, Sageman-Furnas K, Wolverton C, et al. Antigravitropic PIN polarization maintains non-vertical growth in lateral roots. <i>Nature Plants</i>. 2023;9:1500-1513. doi:<a href=\"https://doi.org/10.1038/s41477-023-01478-x\">10.1038/s41477-023-01478-x</a>"},"ddc":["580"],"article_type":"original","page":"1500-1513","acknowledgement":"We thank D. Weijers, C. Schwechheimer and R. Offringa for generous sharing of published and unpublished materials and P. Masson for advice on the use of the ARL2 promoter. We are grateful to M. Del Bianco and O. Leyser for critical reading of the manuscript. This work was supported by the BBSRC (grants BB/N010124/1 and BB/R000859/1 to S.K.), the Gatsby Charitable Foundation and the Leverhulme Trust (RPG-2018-137 to S.K.).","_id":"14339","language":[{"iso":"eng"}],"isi":1,"external_id":{"pmid":["37666965"],"isi":["001069238800014"]},"title":"Antigravitropic PIN polarization maintains non-vertical growth in lateral roots","doi":"10.1038/s41477-023-01478-x","date_updated":"2023-12-13T12:23:49Z","publication_identifier":{"issn":["2055-0278"]},"day":"01","year":"2023","has_accepted_license":"1","oa":1,"article_processing_charge":"Yes (in subscription journal)","oa_version":"Published Version","date_created":"2023-09-15T09:56:01Z","status":"public","date_published":"2023-09-01T00:00:00Z","publication":"Nature Plants","abstract":[{"text":"Lateral roots are typically maintained at non-vertical angles with respect to gravity. These gravitropic setpoint angles are intriguing because their maintenance requires that roots are able to effect growth response both with and against the gravity vector, a phenomenon previously attributed to gravitropism acting against an antigravitropic offset mechanism. Here we show how the components mediating gravitropism in the vertical primary root—PINs and phosphatases acting upon them—are reconfigured in their regulation such that lateral root growth at a range of angles can be maintained. We show that the ability of Arabidopsis lateral roots to bend both downward and upward requires the generation of auxin asymmetries and is driven by angle-dependent variation in downward gravitropic auxin flux acting against angle-independent upward, antigravitropic flux. Further, we demonstrate a symmetry in auxin distribution in lateral roots at gravitropic setpoint angle that can be traced back to a net, balanced polarization of PIN3 and PIN7 auxin transporters in the columella. These auxin fluxes are shifted by altering PIN protein phosphoregulation in the columella, either by introducing PIN3 phosphovariant versions or via manipulation of levels of the phosphatase subunit PP2A/RCN1. Finally, we show that auxin, in addition to driving lateral root directional growth, acts within the lateral root columella to induce more vertical growth by increasing RCN1 levels, causing a downward shift in PIN3 localization, thereby diminishing the magnitude of the upward, antigravitropic auxin flux.","lang":"eng"}],"intvolume":"         9","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pmid":1,"quality_controlled":"1","department":[{"_id":"JiFr"}],"publisher":"Springer Nature","publication_status":"published","volume":9,"type":"journal_article"},{"acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"ScienComp"}],"publisher":"Springer Nature","publication_status":"published","pmid":1,"project":[{"grant_number":"662960","name":"Revisiting the Turbulence Problem Using Statistical Mechanics: Experimental Studies on Transitional and Turbulent Flows","_id":"238598C6-32DE-11EA-91FC-C7463DDC885E"},{"grant_number":"I04188","_id":"238B8092-32DE-11EA-91FC-C7463DDC885E","name":"Instabilities in pulsating pipe flow of Newtonian and complex fluids","call_identifier":"FWF"}],"quality_controlled":"1","department":[{"_id":"BjHo"}],"volume":621,"type":"journal_article","date_created":"2023-09-17T22:01:09Z","scopus_import":"1","oa_version":"None","intvolume":"       621","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-09-07T00:00:00Z","status":"public","publication":"Nature","abstract":[{"text":"Flows through pipes and channels are, in practice, almost always turbulent, and the multiscale eddying motion is responsible for a major part of the encountered friction losses and pumping costs1. Conversely, for pulsatile flows, in particular for aortic blood flow, turbulence levels remain low despite relatively large peak velocities. For aortic blood flow, high turbulence levels are intolerable as they would damage the shear-sensitive endothelial cell layer2,3,4,5. Here we show that turbulence in ordinary pipe flow is diminished if the flow is driven in a pulsatile mode that incorporates all the key features of the cardiac waveform. At Reynolds numbers comparable to those of aortic blood flow, turbulence is largely inhibited, whereas at much higher speeds, the turbulent drag is reduced by more than 25%. This specific operation mode is more efficient when compared with steady driving, which is the present situation for virtually all fluid transport processes ranging from heating circuits to water, gas and oil pipelines.","lang":"eng"}],"date_updated":"2023-09-20T12:10:22Z","publication_identifier":{"eissn":["1476-4687"],"issn":["0028-0836"]},"day":"07","external_id":{"pmid":["37673988"]},"title":"Turbulence suppression by cardiac-cycle-inspired driving of pipe flow","doi":"10.1038/s41586-023-06399-5","article_processing_charge":"No","year":"2023","related_material":{"link":[{"url":"https://www.ista.ac.at/en/news/pumping-like-the-heart/","relation":"press_release","description":"News on ISTA website"}]},"citation":{"ama":"Scarselli D, Lopez Alonso JM, Varshney A, Hof B. Turbulence suppression by cardiac-cycle-inspired driving of pipe flow. <i>Nature</i>. 2023;621(7977):71-74. doi:<a href=\"https://doi.org/10.1038/s41586-023-06399-5\">10.1038/s41586-023-06399-5</a>","ista":"Scarselli D, Lopez Alonso JM, Varshney A, Hof B. 2023. Turbulence suppression by cardiac-cycle-inspired driving of pipe flow. Nature. 621(7977), 71–74.","apa":"Scarselli, D., Lopez Alonso, J. M., Varshney, A., &#38; Hof, B. (2023). Turbulence suppression by cardiac-cycle-inspired driving of pipe flow. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-023-06399-5\">https://doi.org/10.1038/s41586-023-06399-5</a>","chicago":"Scarselli, Davide, Jose M Lopez Alonso, Atul Varshney, and Björn Hof. “Turbulence Suppression by Cardiac-Cycle-Inspired Driving of Pipe Flow.” <i>Nature</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41586-023-06399-5\">https://doi.org/10.1038/s41586-023-06399-5</a>.","ieee":"D. Scarselli, J. M. Lopez Alonso, A. Varshney, and B. Hof, “Turbulence suppression by cardiac-cycle-inspired driving of pipe flow,” <i>Nature</i>, vol. 621, no. 7977. Springer Nature, pp. 71–74, 2023.","mla":"Scarselli, Davide, et al. “Turbulence Suppression by Cardiac-Cycle-Inspired Driving of Pipe Flow.” <i>Nature</i>, vol. 621, no. 7977, Springer Nature, 2023, pp. 71–74, doi:<a href=\"https://doi.org/10.1038/s41586-023-06399-5\">10.1038/s41586-023-06399-5</a>.","short":"D. Scarselli, J.M. Lopez Alonso, A. Varshney, B. Hof, Nature 621 (2023) 71–74."},"article_type":"original","month":"09","author":[{"orcid":"0000-0001-5227-4271","full_name":"Scarselli, Davide","first_name":"Davide","last_name":"Scarselli","id":"40315C30-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Lopez Alonso, Jose M","orcid":"0000-0002-0384-2022","id":"40770848-F248-11E8-B48F-1D18A9856A87","first_name":"Jose M","last_name":"Lopez Alonso"},{"orcid":"0000-0002-3072-5999","full_name":"Varshney, Atul","last_name":"Varshney","first_name":"Atul","id":"2A2006B2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hof, Björn","orcid":"0000-0003-2057-2754","id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn","last_name":"Hof"}],"acknowledgement":"We acknowledge the assistance of the Miba machine shop and the team of the ISTA-HPC cluster. We thank M. Quadrio for the discussions. The work was supported by the Simons Foundation (grant no. 662960) and by the Austrian Science Fund (grant no. I4188-N30), within Deutsche Forschungsgemeinschaft research unit FOR 2688.","language":[{"iso":"eng"}],"_id":"14341","issue":"7977","page":"71-74"},{"article_type":"original","citation":{"short":"D. Lorenc, Z. Alpichshev, Applied Physics Letters 123 (2023).","mla":"Lorenc, Dusan, and Zhanybek Alpichshev. “Mid-Infrared Kerr Index Evaluation via Cross-Phase Modulation with a near-Infrared Probe Beam.” <i>Applied Physics Letters</i>, vol. 123, no. 9, 091104, AIP Publishing, 2023, doi:<a href=\"https://doi.org/10.1063/5.0161713\">10.1063/5.0161713</a>.","chicago":"Lorenc, Dusan, and Zhanybek Alpichshev. “Mid-Infrared Kerr Index Evaluation via Cross-Phase Modulation with a near-Infrared Probe Beam.” <i>Applied Physics Letters</i>. AIP Publishing, 2023. <a href=\"https://doi.org/10.1063/5.0161713\">https://doi.org/10.1063/5.0161713</a>.","ieee":"D. Lorenc and Z. Alpichshev, “Mid-infrared Kerr index evaluation via cross-phase modulation with a near-infrared probe beam,” <i>Applied Physics Letters</i>, vol. 123, no. 9. AIP Publishing, 2023.","ista":"Lorenc D, Alpichshev Z. 2023. Mid-infrared Kerr index evaluation via cross-phase modulation with a near-infrared probe beam. Applied Physics Letters. 123(9), 091104.","apa":"Lorenc, D., &#38; Alpichshev, Z. (2023). Mid-infrared Kerr index evaluation via cross-phase modulation with a near-infrared probe beam. <i>Applied Physics Letters</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0161713\">https://doi.org/10.1063/5.0161713</a>","ama":"Lorenc D, Alpichshev Z. Mid-infrared Kerr index evaluation via cross-phase modulation with a near-infrared probe beam. <i>Applied Physics Letters</i>. 2023;123(9). doi:<a href=\"https://doi.org/10.1063/5.0161713\">10.1063/5.0161713</a>"},"arxiv":1,"ddc":["530"],"month":"08","file_date_updated":"2023-09-20T11:36:16Z","article_number":"091104","author":[{"full_name":"Lorenc, Dusan","id":"40D8A3E6-F248-11E8-B48F-1D18A9856A87","last_name":"Lorenc","first_name":"Dusan"},{"full_name":"Alpichshev, Zhanybek","orcid":"0000-0002-7183-5203","last_name":"Alpichshev","first_name":"Zhanybek","id":"45E67A2A-F248-11E8-B48F-1D18A9856A87"}],"file":[{"content_type":"application/pdf","checksum":"89a1b604d58b209fec66c6b6f919ac98","creator":"dernst","file_name":"2023_ApplPhysLetter_Lorenc.pdf","relation":"main_file","success":1,"file_id":"14353","file_size":1486715,"date_updated":"2023-09-20T11:36:16Z","date_created":"2023-09-20T11:36:16Z","access_level":"open_access"}],"acknowledgement":"The work was supported by IST Austria. The authors would like to gratefully acknowledge the help and assistance of Professor John M. Dudley.","_id":"14342","language":[{"iso":"eng"}],"issue":"9","publication_identifier":{"issn":["0003-6951"]},"day":"28","date_updated":"2023-09-20T11:50:06Z","title":"Mid-infrared Kerr index evaluation via cross-phase modulation with a near-infrared probe beam","doi":"10.1063/5.0161713","external_id":{"arxiv":["2306.09043"]},"oa":1,"article_processing_charge":"Yes (in subscription journal)","has_accepted_license":"1","year":"2023","scopus_import":"1","date_created":"2023-09-17T22:01:09Z","oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"intvolume":"       123","abstract":[{"lang":"eng","text":"We propose a simple method to measure nonlinear Kerr refractive index in mid-infrared frequency range that avoids using sophisticated infrared detectors. Our approach is based on using a near-infrared probe beam which interacts with a mid-IR beam via wavelength-non-degenerate cross-phase modulation (XPM). By carefully measuring XPM-induced spectral modifications in the probe beam and comparing the experimental data with simulation results, we extract the value for the non-degenerate Kerr index. Finally, in order to obtain the value of degenerate mid-IR Kerr index, we use the well-established two-band formalism of Sheik-Bahae et al., which is shown to become particularly simple in the limit of low frequencies. The proposed technique is complementary to the conventional techniques, such as z-scan, and has the advantage of not requiring any mid-infrared detectors."}],"date_published":"2023-08-28T00:00:00Z","status":"public","publication":"Applied Physics Letters","publication_status":"published","publisher":"AIP Publishing","department":[{"_id":"ZhAl"}],"quality_controlled":"1","volume":123,"type":"journal_article"},{"abstract":[{"text":"The total energy of an eigenstate in a composite quantum system tends to be distributed equally among its constituents. We identify the quantum fluctuation around this equipartition principle in the simplest disordered quantum system consisting of linear combinations of Wigner matrices. As our main ingredient, we prove the Eigenstate Thermalisation Hypothesis and Gaussian fluctuation for general quadratic forms of the bulk eigenvectors of Wigner matrices with an arbitrary deformation.","lang":"eng"}],"date_published":"2023-08-23T00:00:00Z","status":"public","publication":"Forum of Mathematics, Sigma","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"intvolume":"        11","oa_version":"Published Version","scopus_import":"1","date_created":"2023-09-17T22:01:09Z","volume":11,"type":"journal_article","department":[{"_id":"LaEr"},{"_id":"GradSch"}],"project":[{"grant_number":"101020331","name":"Random matrices beyond Wigner-Dyson-Mehta","_id":"62796744-2b32-11ec-9570-940b20777f1d","call_identifier":"H2020"}],"quality_controlled":"1","publication_status":"published","publisher":"Cambridge University Press","acknowledgement":"G.C. and L.E. gratefully acknowledge many discussions with Dominik Schröder at the preliminary stage of this project, especially his essential contribution to identify the correct generalisation of traceless observables to the deformed Wigner ensembles.\r\nL.E. and J.H. acknowledges support by ERC Advanced Grant ‘RMTBeyond’ No. 101020331.","_id":"14343","language":[{"iso":"eng"}],"article_number":"e74","month":"08","file_date_updated":"2023-09-20T11:09:35Z","author":[{"id":"42198EFA-F248-11E8-B48F-1D18A9856A87","first_name":"Giorgio","last_name":"Cipolloni","orcid":"0000-0002-4901-7992","full_name":"Cipolloni, Giorgio"},{"full_name":"Erdös, László","orcid":"0000-0001-5366-9603","first_name":"László","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Henheik, Sven Joscha","orcid":"0000-0003-1106-327X","last_name":"Henheik","first_name":"Sven Joscha","id":"31d731d7-d235-11ea-ad11-b50331c8d7fb"},{"full_name":"Kolupaiev, Oleksii","first_name":"Oleksii","last_name":"Kolupaiev","id":"149b70d4-896a-11ed-bdf8-8c63fd44ca61"}],"file":[{"relation":"main_file","file_name":"2023_ForumMathematics_Cipolloni.pdf","checksum":"eb747420e6a88a7796fa934151957676","creator":"dernst","content_type":"application/pdf","access_level":"open_access","date_created":"2023-09-20T11:09:35Z","date_updated":"2023-09-20T11:09:35Z","file_size":852652,"file_id":"14352","success":1}],"article_type":"original","arxiv":1,"citation":{"short":"G. Cipolloni, L. Erdös, S.J. Henheik, O. Kolupaiev, Forum of Mathematics, Sigma 11 (2023).","mla":"Cipolloni, Giorgio, et al. “Gaussian Fluctuations in the Equipartition Principle for Wigner Matrices.” <i>Forum of Mathematics, Sigma</i>, vol. 11, e74, Cambridge University Press, 2023, doi:<a href=\"https://doi.org/10.1017/fms.2023.70\">10.1017/fms.2023.70</a>.","chicago":"Cipolloni, Giorgio, László Erdös, Sven Joscha Henheik, and Oleksii Kolupaiev. “Gaussian Fluctuations in the Equipartition Principle for Wigner Matrices.” <i>Forum of Mathematics, Sigma</i>. Cambridge University Press, 2023. <a href=\"https://doi.org/10.1017/fms.2023.70\">https://doi.org/10.1017/fms.2023.70</a>.","ieee":"G. Cipolloni, L. Erdös, S. J. Henheik, and O. Kolupaiev, “Gaussian fluctuations in the equipartition principle for Wigner matrices,” <i>Forum of Mathematics, Sigma</i>, vol. 11. Cambridge University Press, 2023.","ista":"Cipolloni G, Erdös L, Henheik SJ, Kolupaiev O. 2023. Gaussian fluctuations in the equipartition principle for Wigner matrices. Forum of Mathematics, Sigma. 11, e74.","apa":"Cipolloni, G., Erdös, L., Henheik, S. J., &#38; Kolupaiev, O. (2023). Gaussian fluctuations in the equipartition principle for Wigner matrices. <i>Forum of Mathematics, Sigma</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/fms.2023.70\">https://doi.org/10.1017/fms.2023.70</a>","ama":"Cipolloni G, Erdös L, Henheik SJ, Kolupaiev O. Gaussian fluctuations in the equipartition principle for Wigner matrices. <i>Forum of Mathematics, Sigma</i>. 2023;11. doi:<a href=\"https://doi.org/10.1017/fms.2023.70\">10.1017/fms.2023.70</a>"},"ddc":["510"],"has_accepted_license":"1","year":"2023","ec_funded":1,"oa":1,"article_processing_charge":"Yes","title":"Gaussian fluctuations in the equipartition principle for Wigner matrices","doi":"10.1017/fms.2023.70","isi":1,"external_id":{"arxiv":["2301.05181"],"isi":["001051980200001"]},"publication_identifier":{"eissn":["2050-5094"]},"day":"23","date_updated":"2023-12-13T12:24:23Z"},{"oa":1,"article_processing_charge":"No","conference":{"location":"Florence, Italy","name":"SODA: Symposium on Discrete Algorithms","start_date":"2023-01-22","end_date":"2023-01-25"},"year":"2023","publication_identifier":{"isbn":["9781611977554"]},"day":"01","date_updated":"2023-09-25T09:13:41Z","title":"Fast algorithms for solving the Hamilton cycle problem with high probability","doi":"10.1137/1.9781611977554.ch88","external_id":{"arxiv":["2111.14759"]},"language":[{"iso":"eng"}],"_id":"14344","page":"2286-2323","citation":{"ama":"Anastos M. Fast algorithms for solving the Hamilton cycle problem with high probability. In: <i>Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms</i>. Vol 2023. Society for Industrial and Applied Mathematics; 2023:2286-2323. doi:<a href=\"https://doi.org/10.1137/1.9781611977554.ch88\">10.1137/1.9781611977554.ch88</a>","ista":"Anastos M. 2023. Fast algorithms for solving the Hamilton cycle problem with high probability. Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms. SODA: Symposium on Discrete Algorithms vol. 2023, 2286–2323.","apa":"Anastos, M. (2023). Fast algorithms for solving the Hamilton cycle problem with high probability. In <i>Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms</i> (Vol. 2023, pp. 2286–2323). Florence, Italy: Society for Industrial and Applied Mathematics. <a href=\"https://doi.org/10.1137/1.9781611977554.ch88\">https://doi.org/10.1137/1.9781611977554.ch88</a>","chicago":"Anastos, Michael. “Fast Algorithms for Solving the Hamilton Cycle Problem with High Probability.” In <i>Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms</i>, 2023:2286–2323. Society for Industrial and Applied Mathematics, 2023. <a href=\"https://doi.org/10.1137/1.9781611977554.ch88\">https://doi.org/10.1137/1.9781611977554.ch88</a>.","ieee":"M. Anastos, “Fast algorithms for solving the Hamilton cycle problem with high probability,” in <i>Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms</i>, Florence, Italy, 2023, vol. 2023, pp. 2286–2323.","mla":"Anastos, Michael. “Fast Algorithms for Solving the Hamilton Cycle Problem with High Probability.” <i>Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms</i>, vol. 2023, Society for Industrial and Applied Mathematics, 2023, pp. 2286–323, doi:<a href=\"https://doi.org/10.1137/1.9781611977554.ch88\">10.1137/1.9781611977554.ch88</a>.","short":"M. Anastos, in:, Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2023, pp. 2286–2323."},"arxiv":1,"month":"01","author":[{"full_name":"Anastos, Michael","id":"0b2a4358-bb35-11ec-b7b9-e3279b593dbb","first_name":"Michael","last_name":"Anastos"}],"volume":2023,"type":"conference","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2111.14759","open_access":"1"}],"publication_status":"published","publisher":"Society for Industrial and Applied Mathematics","department":[{"_id":"MaKw"}],"quality_controlled":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"      2023","abstract":[{"text":"We study the Hamilton cycle problem with input a random graph G ~ G(n,p) in two different settings. In the first one, G is given to us in the form of randomly ordered adjacency lists while in the second one, we are given the adjacency matrix of G. In each of the two settings we derive a deterministic algorithm that w.h.p. either finds a Hamilton cycle or returns a certificate that such a cycle does not exist for p = p(n) ≥ 0. The running times of our algorithms are O(n) and  respectively, each being best possible in its own setting.","lang":"eng"}],"status":"public","date_published":"2023-01-01T00:00:00Z","publication":"Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms","scopus_import":"1","date_created":"2023-09-17T22:01:10Z","oa_version":"Preprint"},{"isi":1,"external_id":{"isi":["001060727600004"],"arxiv":["2204.01076"]},"title":"On angles in higher order Brillouin tessellations and related tilings in the plane","doi":"10.1007/s00454-023-00566-1","date_updated":"2023-12-13T12:25:06Z","publication_identifier":{"issn":["0179-5376"],"eissn":["1432-0444"]},"day":"07","ec_funded":1,"year":"2023","oa":1,"article_processing_charge":"Yes (via OA deal)","month":"09","author":[{"id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","first_name":"Herbert","last_name":"Edelsbrunner","orcid":"0000-0002-9823-6833","full_name":"Edelsbrunner, Herbert"},{"first_name":"Alexey","last_name":"Garber","full_name":"Garber, Alexey"},{"first_name":"Mohadese","last_name":"Ghafari","full_name":"Ghafari, Mohadese"},{"full_name":"Heiss, Teresa","orcid":"0000-0002-1780-2689","last_name":"Heiss","first_name":"Teresa","id":"4879BB4E-F248-11E8-B48F-1D18A9856A87"},{"id":"f86f7148-b140-11ec-9577-95435b8df824","last_name":"Saghafian","first_name":"Morteza","full_name":"Saghafian, Morteza"}],"citation":{"mla":"Edelsbrunner, Herbert, et al. “On Angles in Higher Order Brillouin Tessellations and Related Tilings in the Plane.” <i>Discrete and Computational Geometry</i>, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s00454-023-00566-1\">10.1007/s00454-023-00566-1</a>.","short":"H. Edelsbrunner, A. Garber, M. Ghafari, T. Heiss, M. Saghafian, Discrete and Computational Geometry (2023).","ieee":"H. Edelsbrunner, A. Garber, M. Ghafari, T. Heiss, and M. Saghafian, “On angles in higher order Brillouin tessellations and related tilings in the plane,” <i>Discrete and Computational Geometry</i>. Springer Nature, 2023.","chicago":"Edelsbrunner, Herbert, Alexey Garber, Mohadese Ghafari, Teresa Heiss, and Morteza Saghafian. “On Angles in Higher Order Brillouin Tessellations and Related Tilings in the Plane.” <i>Discrete and Computational Geometry</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00454-023-00566-1\">https://doi.org/10.1007/s00454-023-00566-1</a>.","apa":"Edelsbrunner, H., Garber, A., Ghafari, M., Heiss, T., &#38; Saghafian, M. (2023). On angles in higher order Brillouin tessellations and related tilings in the plane. <i>Discrete and Computational Geometry</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00454-023-00566-1\">https://doi.org/10.1007/s00454-023-00566-1</a>","ista":"Edelsbrunner H, Garber A, Ghafari M, Heiss T, Saghafian M. 2023. On angles in higher order Brillouin tessellations and related tilings in the plane. Discrete and Computational Geometry.","ama":"Edelsbrunner H, Garber A, Ghafari M, Heiss T, Saghafian M. On angles in higher order Brillouin tessellations and related tilings in the plane. <i>Discrete and Computational Geometry</i>. 2023. doi:<a href=\"https://doi.org/10.1007/s00454-023-00566-1\">10.1007/s00454-023-00566-1</a>"},"arxiv":1,"article_type":"original","acknowledgement":"Work by all authors but A. Garber is supported by the European Research Council (ERC), Grant No. 788183, by the Wittgenstein Prize, Austrian Science Fund (FWF), Grant No. Z 342-N31, and by the DFG Collaborative Research Center TRR 109, Austrian Science Fund (FWF), Grant No. I 02979-N35. Work by A. Garber is partially supported by the Alexander von Humboldt Foundation.","language":[{"iso":"eng"}],"_id":"14345","project":[{"grant_number":"788183","_id":"266A2E9E-B435-11E9-9278-68D0E5697425","name":"Alpha Shape Theory Extended","call_identifier":"H2020"},{"call_identifier":"FWF","grant_number":"Z00342","_id":"268116B8-B435-11E9-9278-68D0E5697425","name":"The Wittgenstein Prize"},{"grant_number":"I02979-N35","name":"Persistence and stability of geometric complexes","_id":"2561EBF4-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"quality_controlled":"1","department":[{"_id":"HeEd"}],"publisher":"Springer Nature","publication_status":"epub_ahead","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1007/s00454-023-00566-1"}],"type":"journal_article","oa_version":"Published Version","date_created":"2023-09-17T22:01:10Z","scopus_import":"1","status":"public","date_published":"2023-09-07T00:00:00Z","publication":"Discrete and Computational Geometry","abstract":[{"lang":"eng","text":"For a locally finite set in R2, the order-k Brillouin tessellations form an infinite sequence of convex face-to-face tilings of the plane. If the set is coarsely dense and generic, then the corresponding infinite sequences of minimum and maximum angles are both monotonic in k. As an example, a stationary Poisson point process in R2  is locally finite, coarsely dense, and generic with probability one. For such a set, the distributions of angles in the Voronoi tessellations, Delaunay mosaics, and Brillouin tessellations are independent of the order and can be derived from the formula for angles in order-1 Delaunay mosaics given by Miles (Math. Biosci. 6, 85–127 (1970))."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"_id":"14360","language":[{"iso":"eng"}],"acknowledgement":"We thank Jan Ellenberg, Leanne Strauss, Anusha Gopalan, and Jia Hui Li for critical feedback on the manuscript and the Life Science Editors for editing assistance. The plasmid with hSnx33 was a kind gift from Duanqing Pei. Cell line with GFP-tagged IRSp53 was a kind gift from Orion Weiner. We thank Brian Graziano for providing protocols, reagents, and key advice to generate CRISPR knockout HL-60 cells. We thank the EMBL flow cytometry core facility, the EMBL advanced light microscopy facility, the EMBL proteomics facility, and the EMBL genomics core facility for support and advice. We thank Anusha Gopalan and Martin Bergert for their support during mechanical measurements by AFM. We thank Estela Sosa Osorio for technical assistance for the co-immunoprecipitation. We thank the EMBL genome biology computational support (and specially Charles Girardot and Jelle Scholtalbers) for critical assistance during RNAseq analysis. We thank Hans Kristian Hannibal‐Bach for his technical assistance during the lipidomic analysis of plasma membrane isolates. We thank Steffen Burgold for their support with LLS7 microscope in the ZEISS Microscopy Customer Center Europe. We acknowledge the financial support of the European Molecular Biology Laboratory (EMBL) to A.D.-M., Y.S., A.K., and A.E., the EMBL Interdisciplinary Postdocs (EIPOD) program under Marie Sklodowska-Curie COFUND actions MSCA-COFUND-FP to M.S.B. and M. S. (grant agreement number: 847543), the BEST program funding by FCT (SFRH/BEST/150300/2019) to S.D.A. and the Joachim Herz Stiftung Add-on Fellowship for Interdisciplinary Science to E.S.\r\nOpen Access funding enabled and organized by Projekt DEAL.","author":[{"last_name":"Sitarska","first_name":"Ewa","full_name":"Sitarska, Ewa"},{"last_name":"Almeida","first_name":"Silvia Dias","full_name":"Almeida, Silvia Dias"},{"first_name":"Marianne Sandvold","last_name":"Beckwith","full_name":"Beckwith, Marianne Sandvold"},{"id":"489E3F00-F248-11E8-B48F-1D18A9856A87","last_name":"Stopp","first_name":"Julian A","full_name":"Stopp, Julian A"},{"full_name":"Czuchnowski, Jakub","first_name":"Jakub","last_name":"Czuchnowski"},{"last_name":"Siggel","first_name":"Marc","full_name":"Siggel, Marc"},{"full_name":"Roessner, Rita","first_name":"Rita","last_name":"Roessner"},{"full_name":"Tschanz, Aline","last_name":"Tschanz","first_name":"Aline"},{"full_name":"Ejsing, Christer","last_name":"Ejsing","first_name":"Christer"},{"full_name":"Schwab, Yannick","first_name":"Yannick","last_name":"Schwab"},{"first_name":"Jan","last_name":"Kosinski","full_name":"Kosinski, Jan"},{"full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179","first_name":"Michael K","last_name":"Sixt","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Anna","last_name":"Kreshuk","full_name":"Kreshuk, Anna"},{"full_name":"Erzberger, Anna","first_name":"Anna","last_name":"Erzberger"},{"full_name":"Diz-Muñoz, Alba","last_name":"Diz-Muñoz","first_name":"Alba"}],"file":[{"success":1,"file_id":"14365","file_size":2725421,"date_updated":"2023-09-25T08:22:58Z","date_created":"2023-09-25T08:22:58Z","access_level":"open_access","content_type":"application/pdf","creator":"dernst","checksum":"ad670e3b3c64fc585675948370f6b149","relation":"main_file","file_name":"2023_NatureComm_Sitarska.pdf"}],"article_number":"5644","file_date_updated":"2023-09-25T08:22:58Z","month":"09","ddc":["570"],"citation":{"ama":"Sitarska E, Almeida SD, Beckwith MS, et al. Sensing their plasma membrane curvature allows migrating cells to circumvent obstacles. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-41173-1\">10.1038/s41467-023-41173-1</a>","apa":"Sitarska, E., Almeida, S. D., Beckwith, M. S., Stopp, J. A., Czuchnowski, J., Siggel, M., … Diz-Muñoz, A. (2023). Sensing their plasma membrane curvature allows migrating cells to circumvent obstacles. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-41173-1\">https://doi.org/10.1038/s41467-023-41173-1</a>","ista":"Sitarska E, Almeida SD, Beckwith MS, Stopp JA, Czuchnowski J, Siggel M, Roessner R, Tschanz A, Ejsing C, Schwab Y, Kosinski J, Sixt MK, Kreshuk A, Erzberger A, Diz-Muñoz A. 2023. Sensing their plasma membrane curvature allows migrating cells to circumvent obstacles. Nature Communications. 14, 5644.","ieee":"E. Sitarska <i>et al.</i>, “Sensing their plasma membrane curvature allows migrating cells to circumvent obstacles,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","chicago":"Sitarska, Ewa, Silvia Dias Almeida, Marianne Sandvold Beckwith, Julian A Stopp, Jakub Czuchnowski, Marc Siggel, Rita Roessner, et al. “Sensing Their Plasma Membrane Curvature Allows Migrating Cells to Circumvent Obstacles.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-41173-1\">https://doi.org/10.1038/s41467-023-41173-1</a>.","short":"E. Sitarska, S.D. Almeida, M.S. Beckwith, J.A. Stopp, J. Czuchnowski, M. Siggel, R. Roessner, A. Tschanz, C. Ejsing, Y. Schwab, J. Kosinski, M.K. Sixt, A. Kreshuk, A. Erzberger, A. Diz-Muñoz, Nature Communications 14 (2023).","mla":"Sitarska, Ewa, et al. “Sensing Their Plasma Membrane Curvature Allows Migrating Cells to Circumvent Obstacles.” <i>Nature Communications</i>, vol. 14, 5644, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-41173-1\">10.1038/s41467-023-41173-1</a>."},"article_type":"original","year":"2023","related_material":{"record":[{"id":"14697","relation":"dissertation_contains","status":"public"}]},"has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","oa":1,"external_id":{"pmid":["37704612"],"isi":["001087583700008"]},"isi":1,"doi":"10.1038/s41467-023-41173-1","title":"Sensing their plasma membrane curvature allows migrating cells to circumvent obstacles","date_updated":"2023-12-21T14:30:01Z","day":"13","publication_identifier":{"eissn":["2041-1723"]},"publication":"Nature Communications","status":"public","date_published":"2023-09-13T00:00:00Z","abstract":[{"lang":"eng","text":"To navigate through diverse tissues, migrating cells must balance persistent self-propelled motion with adaptive behaviors to circumvent obstacles. We identify a curvature-sensing mechanism underlying obstacle evasion in immune-like cells. Specifically, we propose that actin polymerization at the advancing edge of migrating cells is inhibited by the curvature-sensitive BAR domain protein Snx33 in regions with inward plasma membrane curvature. The genetic perturbation of this machinery reduces the cells’ capacity to evade obstructions combined with faster and more persistent cell migration in obstacle-free environments. Our results show how cells can read out their surface topography and utilize actin and plasma membrane biophysics to interpret their environment, allowing them to adaptively decide if they should move ahead or turn away. On the basis of our findings, we propose that the natural diversity of BAR domain proteins may allow cells to tune their curvature sensing machinery to match the shape characteristics in their environment."}],"intvolume":"        14","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","date_created":"2023-09-24T22:01:10Z","scopus_import":"1","type":"journal_article","volume":14,"quality_controlled":"1","pmid":1,"department":[{"_id":"MiSi"}],"publisher":"Springer Nature","publication_status":"published"},{"year":"2023","ec_funded":1,"has_accepted_license":"1","oa":1,"article_processing_charge":"Yes","external_id":{"pmid":["37704595"],"isi":["001087583700030"]},"isi":1,"doi":"10.1038/s41467-023-41432-1","title":"Synchronization in collectively moving inanimate and living active matter","date_updated":"2023-12-13T12:29:41Z","day":"13","publication_identifier":{"eissn":["2041-1723"]},"language":[{"iso":"eng"}],"_id":"14361","acknowledgement":"We thank K. O’Keeffe, E. Hannezo, P. Devreotes, C. Dessalles, and E. Martens for discussion and/or critical reading of the manuscript; the Bioimaging Facility of ISTA for excellent support, as well as the Life Science Facility and the Miba Machine Shop of ISTA. This work was supported by the European Research Council (ERC StG 281556 and CoG 724373) to M.S.","author":[{"last_name":"Riedl","first_name":"Michael","id":"3BE60946-F248-11E8-B48F-1D18A9856A87","full_name":"Riedl, Michael","orcid":"0000-0003-4844-6311"},{"full_name":"Mayer, Isabelle D","id":"61763940-15b2-11ec-abd3-cfaddfbc66b4","last_name":"Mayer","first_name":"Isabelle D"},{"full_name":"Merrin, Jack","orcid":"0000-0001-5145-4609","id":"4515C308-F248-11E8-B48F-1D18A9856A87","last_name":"Merrin","first_name":"Jack"},{"id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael K","last_name":"Sixt","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179"},{"id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn","last_name":"Hof","full_name":"Hof, Björn","orcid":"0000-0003-2057-2754"}],"file":[{"access_level":"open_access","date_updated":"2023-09-25T08:32:37Z","date_created":"2023-09-25T08:32:37Z","file_size":2317272,"success":1,"file_id":"14366","file_name":"2023_NatureComm_Riedl.pdf","relation":"main_file","creator":"dernst","checksum":"82d2d4ad736cc8493db8ce45cd313f7b","content_type":"application/pdf"}],"month":"09","article_number":"5633","file_date_updated":"2023-09-25T08:32:37Z","ddc":["530","570"],"citation":{"chicago":"Riedl, Michael, Isabelle D Mayer, Jack Merrin, Michael K Sixt, and Björn Hof. “Synchronization in Collectively Moving Inanimate and Living Active Matter.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-41432-1\">https://doi.org/10.1038/s41467-023-41432-1</a>.","ieee":"M. Riedl, I. D. Mayer, J. Merrin, M. K. Sixt, and B. Hof, “Synchronization in collectively moving inanimate and living active matter,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","short":"M. Riedl, I.D. Mayer, J. Merrin, M.K. Sixt, B. Hof, Nature Communications 14 (2023).","mla":"Riedl, Michael, et al. “Synchronization in Collectively Moving Inanimate and Living Active Matter.” <i>Nature Communications</i>, vol. 14, 5633, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-41432-1\">10.1038/s41467-023-41432-1</a>.","ama":"Riedl M, Mayer ID, Merrin J, Sixt MK, Hof B. Synchronization in collectively moving inanimate and living active matter. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-41432-1\">10.1038/s41467-023-41432-1</a>","ista":"Riedl M, Mayer ID, Merrin J, Sixt MK, Hof B. 2023. Synchronization in collectively moving inanimate and living active matter. Nature Communications. 14, 5633.","apa":"Riedl, M., Mayer, I. D., Merrin, J., Sixt, M. K., &#38; Hof, B. (2023). Synchronization in collectively moving inanimate and living active matter. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-41432-1\">https://doi.org/10.1038/s41467-023-41432-1</a>"},"article_type":"original","type":"journal_article","volume":14,"quality_controlled":"1","pmid":1,"project":[{"call_identifier":"FP7","grant_number":"281556","name":"Cytoskeletal force generation and force transduction of migrating leukocytes","_id":"25A603A2-B435-11E9-9278-68D0E5697425"},{"name":"Cellular navigation along spatial gradients","_id":"25FE9508-B435-11E9-9278-68D0E5697425","grant_number":"724373","call_identifier":"H2020"}],"department":[{"_id":"MiSi"},{"_id":"NanoFab"},{"_id":"BjHo"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"M-Shop"}],"publisher":"Springer Nature","publication_status":"published","publication":"Nature Communications","status":"public","date_published":"2023-09-13T00:00:00Z","abstract":[{"lang":"eng","text":"Whether one considers swarming insects, flocking birds, or bacterial colonies, collective motion arises from the coordination of individuals and entails the adjustment of their respective velocities. In particular, in close confinements, such as those encountered by dense cell populations during development or regeneration, collective migration can only arise coordinately. Yet, how individuals unify their velocities is often not understood. Focusing on a finite number of cells in circular confinements, we identify waves of polymerizing actin that function as a pacemaker governing the speed of individual cells. We show that the onset of collective motion coincides with the synchronization of the wave nucleation frequencies across the population. Employing a simpler and more readily accessible mechanical model system of active spheres, we identify the synchronization of the individuals’ internal oscillators as one of the essential requirements to reach the corresponding collective state. The mechanical ‘toy’ experiment illustrates that the global synchronous state is achieved by nearest neighbor coupling. We suggest by analogy that local coupling and the synchronization of actin waves are essential for the emergent, self-organized motion of cell collectives."}],"intvolume":"        14","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","date_created":"2023-09-24T22:01:10Z","scopus_import":"1"},{"month":"10","article_number":"114129","author":[{"full_name":"Castellano, Ilaria","last_name":"Castellano","first_name":"Ilaria"},{"full_name":"Giordano Bruno, Anna","last_name":"Giordano Bruno","first_name":"Anna"},{"first_name":"Nicolò","last_name":"Zava","id":"c8b3499c-7a77-11eb-b046-aa368cbbf2ad","full_name":"Zava, Nicolò","orcid":"0000-0001-8686-1888"}],"article_type":"original","arxiv":1,"citation":{"chicago":"Castellano, Ilaria, Anna Giordano Bruno, and Nicolò Zava. “Weakly Weighted Generalised Quasi-Metric Spaces and Semilattices.” <i>Theoretical Computer Science</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.tcs.2023.114129\">https://doi.org/10.1016/j.tcs.2023.114129</a>.","ieee":"I. Castellano, A. Giordano Bruno, and N. Zava, “Weakly weighted generalised quasi-metric spaces and semilattices,” <i>Theoretical Computer Science</i>, vol. 977. Elsevier, 2023.","short":"I. Castellano, A. Giordano Bruno, N. Zava, Theoretical Computer Science 977 (2023).","mla":"Castellano, Ilaria, et al. “Weakly Weighted Generalised Quasi-Metric Spaces and Semilattices.” <i>Theoretical Computer Science</i>, vol. 977, 114129, Elsevier, 2023, doi:<a href=\"https://doi.org/10.1016/j.tcs.2023.114129\">10.1016/j.tcs.2023.114129</a>.","ama":"Castellano I, Giordano Bruno A, Zava N. Weakly weighted generalised quasi-metric spaces and semilattices. <i>Theoretical Computer Science</i>. 2023;977. doi:<a href=\"https://doi.org/10.1016/j.tcs.2023.114129\">10.1016/j.tcs.2023.114129</a>","ista":"Castellano I, Giordano Bruno A, Zava N. 2023. Weakly weighted generalised quasi-metric spaces and semilattices. Theoretical Computer Science. 977, 114129.","apa":"Castellano, I., Giordano Bruno, A., &#38; Zava, N. (2023). Weakly weighted generalised quasi-metric spaces and semilattices. <i>Theoretical Computer Science</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tcs.2023.114129\">https://doi.org/10.1016/j.tcs.2023.114129</a>"},"_id":"14362","language":[{"iso":"eng"}],"title":"Weakly weighted generalised quasi-metric spaces and semilattices","doi":"10.1016/j.tcs.2023.114129","isi":1,"external_id":{"arxiv":["2212.08424"],"isi":["001076934000001"]},"publication_identifier":{"issn":["0304-3975"]},"day":"25","date_updated":"2024-01-30T13:22:04Z","year":"2023","oa":1,"article_processing_charge":"No","oa_version":"Preprint","scopus_import":"1","date_created":"2023-09-24T22:01:11Z","abstract":[{"text":"Motivated by recent applications to entropy theory in dynamical systems, we generalise notions introduced by Matthews and define weakly weighted and componentwise weakly weighted (generalised) quasi-metrics. We then systematise and extend to full generality the correspondences between these objects and other structures arising in theoretical computer science and dynamics. In particular, we study the correspondences with weak partial metrics and, if the underlying space is a semilattice, with invariant (generalised) quasi-metrics satisfying the descending path condition, and with strictly monotone semi(-co-)valuations.\r\nWe conclude discussing, for endomorphisms of generalised quasi-metric semilattices, a generalisation of both the known intrinsic semilattice entropy and the semigroup entropy.","lang":"eng"}],"date_published":"2023-10-25T00:00:00Z","status":"public","publication":"Theoretical Computer Science","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"       977","department":[{"_id":"HeEd"}],"quality_controlled":"1","publication_status":"published","publisher":"Elsevier","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2212.08424 ","open_access":"1"}],"volume":977,"type":"journal_article"},{"issue":"10","language":[{"iso":"eng"}],"_id":"14363","acknowledgement":"We thank the Scientific Service Units (SSU) of ISTA through resources provided by the Imaging and Optics Facility (IOF), the Lab Support Facility (LSF), and the Pre-Clinical Facility (PCF) team, specifically Sonja Haslinger and Michael Schunn for excellent mouse colony management and support. This research was supported by the FWF Sonderforschungsbereich F83 (to E.E.P). We thank Bálint Nagy, Ryan John A. Cubero, Marco Benevento and all members of the Siegert group for constant feedback on the project and article.","author":[{"full_name":"Maes, Margaret E","orcid":"0000-0001-9642-1085","id":"3838F452-F248-11E8-B48F-1D18A9856A87","last_name":"Maes","first_name":"Margaret E"},{"first_name":"Gloria","last_name":"Colombo","id":"3483CF6C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9434-8902","full_name":"Colombo, Gloria"},{"id":"3526230C-F248-11E8-B48F-1D18A9856A87","first_name":"Florianne E","last_name":"Schoot Uiterkamp","full_name":"Schoot Uiterkamp, Florianne E"},{"last_name":"Sternberg","first_name":"Felix","full_name":"Sternberg, Felix"},{"orcid":"0000-0003-2356-9403","full_name":"Venturino, Alessandro","id":"41CB84B2-F248-11E8-B48F-1D18A9856A87","last_name":"Venturino","first_name":"Alessandro"},{"first_name":"Elena E.","last_name":"Pohl","full_name":"Pohl, Elena E."},{"full_name":"Siegert, Sandra","orcid":"0000-0001-8635-0877","id":"36ACD32E-F248-11E8-B48F-1D18A9856A87","first_name":"Sandra","last_name":"Siegert"}],"file":[{"success":1,"file_id":"14497","file_size":8197935,"date_updated":"2023-11-07T08:53:21Z","date_created":"2023-11-07T08:53:21Z","access_level":"open_access","content_type":"application/pdf","checksum":"be1a560efdd96d20712311f4fc54aac2","creator":"dernst","file_name":"2023_iScience_Maes.pdf","relation":"main_file"}],"file_date_updated":"2023-11-07T08:53:21Z","article_number":"107780","month":"10","ddc":["570"],"citation":{"ista":"Maes ME, Colombo G, Schoot Uiterkamp FE, Sternberg F, Venturino A, Pohl EE, Siegert S. 2023. Mitochondrial network adaptations of microglia reveal sex-specific stress response after injury and UCP2 knockout. iScience. 26(10), 107780.","apa":"Maes, M. E., Colombo, G., Schoot Uiterkamp, F. E., Sternberg, F., Venturino, A., Pohl, E. E., &#38; Siegert, S. (2023). Mitochondrial network adaptations of microglia reveal sex-specific stress response after injury and UCP2 knockout. <i>IScience</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.isci.2023.107780\">https://doi.org/10.1016/j.isci.2023.107780</a>","ama":"Maes ME, Colombo G, Schoot Uiterkamp FE, et al. Mitochondrial network adaptations of microglia reveal sex-specific stress response after injury and UCP2 knockout. <i>iScience</i>. 2023;26(10). doi:<a href=\"https://doi.org/10.1016/j.isci.2023.107780\">10.1016/j.isci.2023.107780</a>","short":"M.E. Maes, G. Colombo, F.E. Schoot Uiterkamp, F. Sternberg, A. Venturino, E.E. Pohl, S. Siegert, IScience 26 (2023).","mla":"Maes, Margaret E., et al. “Mitochondrial Network Adaptations of Microglia Reveal Sex-Specific Stress Response after Injury and UCP2 Knockout.” <i>IScience</i>, vol. 26, no. 10, 107780, Elsevier, 2023, doi:<a href=\"https://doi.org/10.1016/j.isci.2023.107780\">10.1016/j.isci.2023.107780</a>.","chicago":"Maes, Margaret E, Gloria Colombo, Florianne E Schoot Uiterkamp, Felix Sternberg, Alessandro Venturino, Elena E. Pohl, and Sandra Siegert. “Mitochondrial Network Adaptations of Microglia Reveal Sex-Specific Stress Response after Injury and UCP2 Knockout.” <i>IScience</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.isci.2023.107780\">https://doi.org/10.1016/j.isci.2023.107780</a>.","ieee":"M. E. Maes <i>et al.</i>, “Mitochondrial network adaptations of microglia reveal sex-specific stress response after injury and UCP2 knockout,” <i>iScience</i>, vol. 26, no. 10. Elsevier, 2023."},"article_type":"original","year":"2023","has_accepted_license":"1","article_processing_charge":"Yes","oa":1,"external_id":{"pmid":["37731609"],"isi":["001080403500001"]},"isi":1,"doi":"10.1016/j.isci.2023.107780","title":"Mitochondrial network adaptations of microglia reveal sex-specific stress response after injury and UCP2 knockout","date_updated":"2023-12-13T12:27:30Z","day":"20","publication_identifier":{"eissn":["2589-0042"]},"publication":"iScience","date_published":"2023-10-20T00:00:00Z","status":"public","abstract":[{"text":"Mitochondrial networks remodel their connectivity, content, and subcellular localization to support optimized energy production in conditions of increased environmental or cellular stress. Microglia rely on mitochondria to respond to these stressors, however our knowledge about mitochondrial networks and their adaptations in microglia in vivo is limited. Here, we generate a mouse model that selectively labels mitochondria in microglia. We identify that mitochondrial networks are more fragmented with increased content and perinuclear localization in vitro vs. in vivo. Mitochondrial networks adapt similarly in microglia closest to the injury site after optic nerve crush. Preventing microglial UCP2 increase after injury by selective knockout induces cellular stress. This results in mitochondrial hyperfusion in male microglia, a phenotype absent in females due to circulating estrogens. Our results establish the foundation for mitochondrial network analysis of microglia in vivo, emphasizing the importance of mitochondrial-based sex effects of microglia in other pathologies.","lang":"eng"}],"intvolume":"        26","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","date_created":"2023-09-24T22:01:11Z","scopus_import":"1","type":"journal_article","volume":26,"quality_controlled":"1","pmid":1,"department":[{"_id":"SaSi"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"PreCl"}],"publisher":"Elsevier","publication_status":"published"},{"oa_version":"Preprint","scopus_import":"1","date_created":"2023-09-24T22:01:11Z","abstract":[{"text":"We introduce extension-based proofs, a class of impossibility proofs that includes valency arguments. They are modelled as an interaction between a prover and a protocol. Using proofs based on combinatorial topology, it has been shown that it is impossible to deterministically solve -set agreement among  processes or approximate agreement on a cycle of length 4 among  processes in a wait-free manner in asynchronous models where processes communicate using objects that can be constructed from shared registers. However, it was unknown whether proofs based on simpler techniques were possible. We show that these impossibility results cannot be obtained by extension-based proofs in the iterated snapshot model and, hence, extension-based proofs are limited in power.","lang":"eng"}],"publication":"SIAM Journal on Computing","date_published":"2023-07-25T00:00:00Z","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"        52","department":[{"_id":"DaAl"}],"quality_controlled":"1","project":[{"grant_number":"805223","name":"Elastic Coordination for Scalable Machine Learning","_id":"268A44D6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"publication_status":"published","publisher":"Society for Industrial and Applied Mathematics","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1811.01421"}],"type":"journal_article","volume":52,"author":[{"id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","last_name":"Alistarh","first_name":"Dan-Adrian","orcid":"0000-0003-3650-940X","full_name":"Alistarh, Dan-Adrian"},{"first_name":"James","last_name":"Aspnes","full_name":"Aspnes, James"},{"last_name":"Ellen","first_name":"Faith","full_name":"Ellen, Faith"},{"last_name":"Gelashvili","first_name":"Rati","full_name":"Gelashvili, Rati"},{"first_name":"Leqi","last_name":"Zhu","id":"a2117c59-cee4-11ed-b9d0-874ecf0f8ac5","full_name":"Zhu, Leqi"}],"month":"07","article_type":"original","arxiv":1,"citation":{"ieee":"D.-A. Alistarh, J. Aspnes, F. Ellen, R. Gelashvili, and L. Zhu, “Why extension-based proofs fail,” <i>SIAM Journal on Computing</i>, vol. 52, no. 4. Society for Industrial and Applied Mathematics, pp. 913–944, 2023.","chicago":"Alistarh, Dan-Adrian, James Aspnes, Faith Ellen, Rati Gelashvili, and Leqi Zhu. “Why Extension-Based Proofs Fail.” <i>SIAM Journal on Computing</i>. Society for Industrial and Applied Mathematics, 2023. <a href=\"https://doi.org/10.1137/20M1375851\">https://doi.org/10.1137/20M1375851</a>.","mla":"Alistarh, Dan-Adrian, et al. “Why Extension-Based Proofs Fail.” <i>SIAM Journal on Computing</i>, vol. 52, no. 4, Society for Industrial and Applied Mathematics, 2023, pp. 913–44, doi:<a href=\"https://doi.org/10.1137/20M1375851\">10.1137/20M1375851</a>.","short":"D.-A. Alistarh, J. Aspnes, F. Ellen, R. Gelashvili, L. Zhu, SIAM Journal on Computing 52 (2023) 913–944.","ama":"Alistarh D-A, Aspnes J, Ellen F, Gelashvili R, Zhu L. Why extension-based proofs fail. <i>SIAM Journal on Computing</i>. 2023;52(4):913-944. doi:<a href=\"https://doi.org/10.1137/20M1375851\">10.1137/20M1375851</a>","apa":"Alistarh, D.-A., Aspnes, J., Ellen, F., Gelashvili, R., &#38; Zhu, L. (2023). Why extension-based proofs fail. <i>SIAM Journal on Computing</i>. Society for Industrial and Applied Mathematics. <a href=\"https://doi.org/10.1137/20M1375851\">https://doi.org/10.1137/20M1375851</a>","ista":"Alistarh D-A, Aspnes J, Ellen F, Gelashvili R, Zhu L. 2023. Why extension-based proofs fail. SIAM Journal on Computing. 52(4), 913–944."},"page":"913-944","issue":"4","language":[{"iso":"eng"}],"_id":"14364","acknowledgement":"We would like to thank Valerie King, Toniann Pitassi, and Michael Saks for helpful discussions and Shi Hao Liu for his useful feedback.\r\nThis research was supported by the Natural Science and Engineering Research Council of Canada under grants RGPIN-2015-05080 and RGPIN-2020-04178, a postgraduate scholarship, and a postdoctoral fellowship; a University of Toronto postdoctoral fellowship; the National Science Foundation under grants CCF-1217921, CCF-1301926, CCF-1637385, CCF-1650596, and IIS-1447786; the U.S. Department of Energy under grant ER26116/DE-SC0008923; the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme grant agreement 805223 ScaleML; and the Oracle and Intel corporations. Some of the work on this paper was done while Faith Ellen was visiting IST Austria.","doi":"10.1137/20M1375851","title":"Why extension-based proofs fail","external_id":{"isi":["001082972300004"],"arxiv":["1811.01421"]},"isi":1,"day":"25","publication_identifier":{"eissn":["1095-7111"],"issn":["0097-5397"]},"date_updated":"2023-12-13T12:28:29Z","related_material":{"record":[{"id":"6676","relation":"earlier_version","status":"public"}]},"year":"2023","ec_funded":1,"oa":1,"article_processing_charge":"No"},{"file":[{"checksum":"440f0cd8a2ffcbe03c015c1746728387","creator":"dernst","relation":"main_file","file_name":"2023_GeneticsMedicine_Accogli.pdf","content_type":"application/pdf","date_updated":"2023-09-25T08:48:54Z","date_created":"2023-09-25T08:48:54Z","access_level":"open_access","success":1,"file_id":"14369","file_size":4105513}],"author":[{"full_name":"Accogli, Andrea","last_name":"Accogli","first_name":"Andrea"},{"full_name":"Lin, Sheng-Jia","first_name":"Sheng-Jia","last_name":"Lin"},{"full_name":"Severino, Mariasavina","last_name":"Severino","first_name":"Mariasavina"},{"last_name":"Kim","first_name":"Sung-Hoon","full_name":"Kim, Sung-Hoon"},{"last_name":"Huang","first_name":"Kevin","id":"3b3d2888-1ff6-11ee-9fa6-8f209ca91fe3","full_name":"Huang, Kevin","orcid":"0000-0002-2512-7812"},{"first_name":"Clarissa","last_name":"Rocca","full_name":"Rocca, Clarissa"},{"last_name":"Landsverk","first_name":"Megan","full_name":"Landsverk, Megan"},{"full_name":"Zaki, Maha S.","first_name":"Maha S.","last_name":"Zaki"},{"first_name":"Almundher","last_name":"Al-Maawali","full_name":"Al-Maawali, Almundher"},{"last_name":"Srinivasan","first_name":"Varunvenkat M.","full_name":"Srinivasan, Varunvenkat M."},{"last_name":"Al-Thihli","first_name":"Khalid","full_name":"Al-Thihli, Khalid"},{"full_name":"Schaefer, G. Bradly","last_name":"Schaefer","first_name":"G. Bradly"},{"first_name":"Monica","last_name":"Davis","full_name":"Davis, Monica"},{"full_name":"Tonduti, Davide","first_name":"Davide","last_name":"Tonduti"},{"first_name":"Chiara","last_name":"Doneda","full_name":"Doneda, Chiara"},{"first_name":"Lara M.","last_name":"Marten","full_name":"Marten, Lara M."},{"full_name":"Mühlhausen, Chris","last_name":"Mühlhausen","first_name":"Chris"},{"last_name":"Gomez","first_name":"Maria","full_name":"Gomez, Maria"},{"full_name":"Lamantea, Eleonora","last_name":"Lamantea","first_name":"Eleonora"},{"last_name":"Mena","first_name":"Rafael","full_name":"Mena, Rafael"},{"full_name":"Nizon, Mathilde","first_name":"Mathilde","last_name":"Nizon"},{"full_name":"Procaccio, Vincent","first_name":"Vincent","last_name":"Procaccio"},{"full_name":"Begtrup, Amber","first_name":"Amber","last_name":"Begtrup"},{"full_name":"Telegrafi, Aida","first_name":"Aida","last_name":"Telegrafi"},{"last_name":"Cui","first_name":"Hong","full_name":"Cui, Hong"},{"full_name":"Schulz, Heidi L.","first_name":"Heidi L.","last_name":"Schulz"},{"full_name":"Mohr, Julia","last_name":"Mohr","first_name":"Julia"},{"last_name":"Biskup","first_name":"Saskia","full_name":"Biskup, Saskia"},{"full_name":"Loos, Mariana Amina","first_name":"Mariana Amina","last_name":"Loos"},{"last_name":"Aráoz","first_name":"Hilda Verónica","full_name":"Aráoz, Hilda Verónica"},{"full_name":"Salpietro, Vincenzo","first_name":"Vincenzo","last_name":"Salpietro"},{"first_name":"Laura Davis","last_name":"Keppen","full_name":"Keppen, Laura Davis"},{"full_name":"Chitre, Manali","last_name":"Chitre","first_name":"Manali"},{"first_name":"Cassidy","last_name":"Petree","full_name":"Petree, Cassidy"},{"last_name":"Raymond","first_name":"Lucy","full_name":"Raymond, Lucy"},{"full_name":"Vogt, Julie","first_name":"Julie","last_name":"Vogt"},{"full_name":"Sawyer, Lindsey B.","first_name":"Lindsey B.","last_name":"Sawyer"},{"last_name":"Basinger","first_name":"Alice A.","full_name":"Basinger, Alice A."},{"last_name":"Pedersen","first_name":"Signe Vandal","full_name":"Pedersen, Signe Vandal"},{"last_name":"Pearson","first_name":"Toni S.","full_name":"Pearson, Toni S."},{"last_name":"Grange","first_name":"Dorothy K.","full_name":"Grange, Dorothy K."},{"first_name":"Lokesh","last_name":"Lingappa","full_name":"Lingappa, Lokesh"},{"full_name":"McDunnah, Paige","last_name":"McDunnah","first_name":"Paige"},{"full_name":"Horvath, Rita","first_name":"Rita","last_name":"Horvath"},{"first_name":"Benjamin","last_name":"Cognè","full_name":"Cognè, Benjamin"},{"full_name":"Isidor, Bertrand","last_name":"Isidor","first_name":"Bertrand"},{"full_name":"Hahn, Andreas","last_name":"Hahn","first_name":"Andreas"},{"first_name":"Karen W.","last_name":"Gripp","full_name":"Gripp, Karen W."},{"first_name":"Seyed Mehdi","last_name":"Jafarnejad","full_name":"Jafarnejad, Seyed Mehdi"},{"first_name":"Elsebet","last_name":"Østergaard","full_name":"Østergaard, Elsebet"},{"last_name":"Prada","first_name":"Carlos E.","full_name":"Prada, Carlos E."},{"first_name":"Daniele","last_name":"Ghezzi","full_name":"Ghezzi, Daniele"},{"full_name":"Gowda, Vykuntaraju K.","last_name":"Gowda","first_name":"Vykuntaraju K."},{"full_name":"Taylor, Robert W.","last_name":"Taylor","first_name":"Robert W."},{"full_name":"Sonenberg, Nahum","first_name":"Nahum","last_name":"Sonenberg"},{"first_name":"Henry","last_name":"Houlden","full_name":"Houlden, Henry"},{"full_name":"Sissler, Marie","first_name":"Marie","last_name":"Sissler"},{"full_name":"Varshney, Gaurav K.","first_name":"Gaurav K.","last_name":"Varshney"},{"full_name":"Maroofian, Reza","first_name":"Reza","last_name":"Maroofian"}],"file_date_updated":"2023-09-25T08:48:54Z","article_number":"100938","month":"11","ddc":["570"],"citation":{"mla":"Accogli, Andrea, et al. “Clinical, Neuroradiological, and Molecular Characterization of Mitochondrial Threonyl-TRNA-Synthetase (TARS2)-Related Disorder.” <i>Genetics in Medicine</i>, vol. 25, no. 11, 100938, Elsevier, 2023, doi:<a href=\"https://doi.org/10.1016/j.gim.2023.100938\">10.1016/j.gim.2023.100938</a>.","short":"A. Accogli, S.-J. Lin, M. Severino, S.-H. Kim, K. Huang, C. Rocca, M. Landsverk, M.S. Zaki, A. Al-Maawali, V.M. Srinivasan, K. Al-Thihli, G.B. Schaefer, M. Davis, D. Tonduti, C. Doneda, L.M. Marten, C. Mühlhausen, M. Gomez, E. Lamantea, R. Mena, M. Nizon, V. Procaccio, A. Begtrup, A. Telegrafi, H. Cui, H.L. Schulz, J. Mohr, S. Biskup, M.A. Loos, H.V. Aráoz, V. Salpietro, L.D. Keppen, M. Chitre, C. Petree, L. Raymond, J. Vogt, L.B. Sawyer, A.A. Basinger, S.V. Pedersen, T.S. Pearson, D.K. Grange, L. Lingappa, P. McDunnah, R. Horvath, B. Cognè, B. Isidor, A. Hahn, K.W. Gripp, S.M. Jafarnejad, E. Østergaard, C.E. Prada, D. Ghezzi, V.K. Gowda, R.W. Taylor, N. Sonenberg, H. Houlden, M. Sissler, G.K. Varshney, R. Maroofian, Genetics in Medicine 25 (2023).","ieee":"A. Accogli <i>et al.</i>, “Clinical, neuroradiological, and molecular characterization of mitochondrial threonyl-tRNA-synthetase (TARS2)-related disorder,” <i>Genetics in Medicine</i>, vol. 25, no. 11. Elsevier, 2023.","chicago":"Accogli, Andrea, Sheng-Jia Lin, Mariasavina Severino, Sung-Hoon Kim, Kevin Huang, Clarissa Rocca, Megan Landsverk, et al. “Clinical, Neuroradiological, and Molecular Characterization of Mitochondrial Threonyl-TRNA-Synthetase (TARS2)-Related Disorder.” <i>Genetics in Medicine</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.gim.2023.100938\">https://doi.org/10.1016/j.gim.2023.100938</a>.","apa":"Accogli, A., Lin, S.-J., Severino, M., Kim, S.-H., Huang, K., Rocca, C., … Maroofian, R. (2023). Clinical, neuroradiological, and molecular characterization of mitochondrial threonyl-tRNA-synthetase (TARS2)-related disorder. <i>Genetics in Medicine</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.gim.2023.100938\">https://doi.org/10.1016/j.gim.2023.100938</a>","ista":"Accogli A, Lin S-J, Severino M, Kim S-H, Huang K, Rocca C, Landsverk M, Zaki MS, Al-Maawali A, Srinivasan VM, Al-Thihli K, Schaefer GB, Davis M, Tonduti D, Doneda C, Marten LM, Mühlhausen C, Gomez M, Lamantea E, Mena R, Nizon M, Procaccio V, Begtrup A, Telegrafi A, Cui H, Schulz HL, Mohr J, Biskup S, Loos MA, Aráoz HV, Salpietro V, Keppen LD, Chitre M, Petree C, Raymond L, Vogt J, Sawyer LB, Basinger AA, Pedersen SV, Pearson TS, Grange DK, Lingappa L, McDunnah P, Horvath R, Cognè B, Isidor B, Hahn A, Gripp KW, Jafarnejad SM, Østergaard E, Prada CE, Ghezzi D, Gowda VK, Taylor RW, Sonenberg N, Houlden H, Sissler M, Varshney GK, Maroofian R. 2023. Clinical, neuroradiological, and molecular characterization of mitochondrial threonyl-tRNA-synthetase (TARS2)-related disorder. Genetics in Medicine. 25(11), 100938.","ama":"Accogli A, Lin S-J, Severino M, et al. Clinical, neuroradiological, and molecular characterization of mitochondrial threonyl-tRNA-synthetase (TARS2)-related disorder. <i>Genetics in Medicine</i>. 2023;25(11). doi:<a href=\"https://doi.org/10.1016/j.gim.2023.100938\">10.1016/j.gim.2023.100938</a>"},"keyword":["Genetics (clinical)"],"article_type":"original","issue":"11","_id":"14368","language":[{"iso":"eng"}],"doi":"10.1016/j.gim.2023.100938","title":"Clinical, neuroradiological, and molecular characterization of mitochondrial threonyl-tRNA-synthetase (TARS2)-related disorder","date_updated":"2023-09-25T08:50:10Z","day":"01","publication_identifier":{"issn":["1098-3600"]},"year":"2023","has_accepted_license":"1","article_processing_charge":"No","oa":1,"oa_version":"Published Version","date_created":"2023-09-25T08:44:29Z","extern":"1","scopus_import":"1","publication":"Genetics in Medicine","date_published":"2023-11-01T00:00:00Z","status":"public","abstract":[{"lang":"eng","text":"Purpose: \r\nBiallelic variants in TARS2, encoding the mitochondrial threonyl-tRNA-synthetase, have been reported in a small group of individuals displaying a neurodevelopmental phenotype but with limited neuroradiological data and insufficient evidence for causality of the variants.\r\nMethods:\r\nExome or genome sequencing was carried out in 15 families. Clinical and neuroradiological evaluation was performed for all affected individuals, including review of 10 previously reported individuals. The pathogenicity of TARS2 variants was evaluated using in vitro assays and a zebrafish model.\r\nResults:\r\nWe report 18 new individuals harboring biallelic TARS2 variants. Phenotypically, these individuals show developmental delay/intellectual disability, regression, cerebellar and cerebral atrophy, basal ganglia signal alterations, hypotonia, cerebellar signs, and increased blood lactate. In vitro studies showed that variants within the TARS2301-381 region had decreased binding to Rag GTPases, likely impairing mTORC1 activity. The zebrafish model recapitulated key features of the human phenotype and unraveled dysregulation of downstream targets of mTORC1 signaling. Functional testing of the variants confirmed the pathogenicity in a zebrafish model.\r\nConclusion:\r\nWe define the clinico-radiological spectrum of TARS2-related mitochondrial disease, unveil the likely involvement of the mTORC1 signaling pathway as a distinct molecular mechanism, and establish a TARS2 zebrafish model as an important tool to study variant pathogenicity."}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"intvolume":"        25","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","quality_controlled":"1","publisher":"Elsevier","publication_status":"published","type":"journal_article","volume":25},{"date_published":"2023-09-30T00:00:00Z","status":"public","abstract":[{"text":"Superconductivity has many important applications ranging from levitating trains over qubits to MRI scanners. The phenomenon is successfully modeled by Bardeen-Cooper-Schrieffer (BCS) theory. From a mathematical perspective, BCS theory has been studied extensively for systems without boundary. However, little is known in the presence of boundaries. With the help of numerical methods physicists observed that the critical temperature may increase in the presence of a boundary. The goal of this thesis is to understand the influence of boundaries on the critical temperature in BCS theory and to give a first rigorous justification of these observations. On the way, we also study two-body Schrödinger operators on domains with boundaries and prove additional results for superconductors without boundary.\r\n\r\nBCS theory is based on a non-linear functional, where the minimizer indicates whether the system is superconducting or in the normal, non-superconducting state. By considering the Hessian of the BCS functional at the normal state, one can analyze whether the normal state is possibly a minimum of the BCS functional and estimate the critical temperature. The Hessian turns out to be a linear operator resembling a Schrödinger operator for two interacting particles, but with more complicated kinetic energy. As a first step, we study the two-body Schrödinger operator in the presence of boundaries.\r\nFor Neumann boundary conditions, we prove that the addition of a boundary can create new eigenvalues, which correspond to the two particles forming a bound state close to the boundary.\r\n\r\nSecond, we need to understand superconductivity in the translation invariant setting. While in three dimensions this has been extensively studied, there is no mathematical literature for the one and two dimensional cases. In dimensions one and two, we compute the weak coupling asymptotics of the critical temperature and the energy gap  in the translation invariant setting. We also prove that their ratio is independent of the microscopic details of the model in the weak coupling limit; this property is referred to as universality.\r\n\r\nIn the third part, we study the critical temperature of superconductors in the presence of boundaries. We start by considering the one-dimensional case of a half-line with contact interaction. Then, we generalize the results to generic interactions and half-spaces in one, two and three dimensions. Finally, we compare the critical temperature of a quarter space in two dimensions to the critical temperatures of a half-space and of the full space.","lang":"eng"}],"license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","tmp":{"image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","short":"CC BY-NC-SA (4.0)"},"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa_version":"Published Version","date_created":"2023-09-28T14:23:04Z","alternative_title":["ISTA Thesis"],"type":"dissertation","project":[{"_id":"25C6DC12-B435-11E9-9278-68D0E5697425","name":"Analysis of quantum many-body systems","grant_number":"694227","call_identifier":"H2020"},{"grant_number":"I06427","name":"Mathematical Challenges in BCS Theory of Superconductivity","_id":"bda63fe5-d553-11ed-ba76-a16e3d2f256b"}],"department":[{"_id":"GradSch"},{"_id":"RoSe"}],"supervisor":[{"first_name":"Robert","last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6781-0521","full_name":"Seiringer, Robert"}],"publisher":"Institute of Science and Technology Austria","publication_status":"published","page":"206","_id":"14374","language":[{"iso":"eng"}],"degree_awarded":"PhD","file_date_updated":"2023-10-06T11:38:01Z","month":"09","author":[{"id":"5DA90512-D80F-11E9-8994-2E2EE6697425","last_name":"Roos","first_name":"Barbara","full_name":"Roos, Barbara","orcid":"0000-0002-9071-5880"}],"file":[{"content_type":"application/pdf","relation":"main_file","file_name":"phd-thesis-draft_pdfa_acrobat.pdf","creator":"broos","checksum":"ef039ffc3de2cb8dee5b14110938e9b6","file_size":2365702,"file_id":"14398","access_level":"open_access","date_created":"2023-10-06T11:35:56Z","date_updated":"2023-10-06T11:35:56Z"},{"creator":"broos","checksum":"81dcac33daeefaf0111db52f41bb1fd0","file_name":"Version5.zip","relation":"source_file","content_type":"application/x-zip-compressed","date_created":"2023-10-06T11:38:01Z","date_updated":"2023-10-06T11:38:01Z","access_level":"closed","file_id":"14399","file_size":4691734}],"citation":{"ista":"Roos B. 2023. Boundary superconductivity in BCS theory. Institute of Science and Technology Austria.","apa":"Roos, B. (2023). <i>Boundary superconductivity in BCS theory</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14374\">https://doi.org/10.15479/at:ista:14374</a>","ama":"Roos B. Boundary superconductivity in BCS theory. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:14374\">10.15479/at:ista:14374</a>","short":"B. Roos, Boundary Superconductivity in BCS Theory, Institute of Science and Technology Austria, 2023.","mla":"Roos, Barbara. <i>Boundary Superconductivity in BCS Theory</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:14374\">10.15479/at:ista:14374</a>.","chicago":"Roos, Barbara. “Boundary Superconductivity in BCS Theory.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:14374\">https://doi.org/10.15479/at:ista:14374</a>.","ieee":"B. Roos, “Boundary superconductivity in BCS theory,” Institute of Science and Technology Austria, 2023."},"ddc":["515","539"],"ec_funded":1,"year":"2023","related_material":{"record":[{"id":"13207","relation":"part_of_dissertation","status":"public"},{"id":"10850","relation":"part_of_dissertation","status":"public"}]},"has_accepted_license":"1","oa":1,"article_processing_charge":"No","title":"Boundary superconductivity in BCS theory","doi":"10.15479/at:ista:14374","date_updated":"2023-10-27T10:37:30Z","publication_identifier":{"issn":["2663 - 337X"]},"day":"30"},{"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2209.10916"}],"volume":8,"type":"journal_article","quality_controlled":"1","publisher":"American Physical Society","publication_status":"published","date_published":"2023-06-14T00:00:00Z","status":"public","publication":"Physical Review Fluids","abstract":[{"lang":"eng","text":"Coherent flows of self-propelled particles are characterized by vortices and jets that sustain chaotic flows, referred to as active turbulence. Here, we reveal a crossover between defect-free active turbulence and active turbulence laden with topological defects. Interestingly, we show that concurrent to the crossover from defect-free to defect-laden active turbulence is the restoration of the previously broken SO(2) symmetry signaled by the fast decay of the two-point correlations. By stability analyses of the topological charge density field, we provide theoretical insights on the criterion for the crossover to the defect-laden active turbulent state. Despite the distinct symmetry features between these two active turbulence regimes, the flow fluctuations exhibit universal statistical scaling behaviors at large scales, while the spectrum of polarity fluctuations decays exponentially at small length scales compared to the active energy injection length. These findings reveal a dynamical crossover between distinct spatiotemporal organization patterns in polar active matter."}],"intvolume":"         8","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Preprint","date_created":"2023-09-29T08:46:47Z","scopus_import":"1","extern":"1","year":"2023","oa":1,"article_processing_charge":"No","external_id":{"arxiv":["2209.10916"]},"title":"Symmetry-restoring crossover from defect-free to defect-laden turbulence in polar active matter","doi":"10.1103/physrevfluids.8.063101","date_updated":"2023-10-03T07:25:39Z","publication_identifier":{"issn":["2469-990X"]},"day":"14","issue":"6","language":[{"iso":"eng"}],"_id":"14377","article_number":"063101","month":"06","author":[{"last_name":"Andersen","first_name":"Benjamin H.","full_name":"Andersen, Benjamin H."},{"last_name":"Renaud","first_name":"Julian B","id":"7af6767d-14eb-11ed-b536-a32449ae867c","full_name":"Renaud, Julian B"},{"last_name":"Rønning","first_name":"Jonas","full_name":"Rønning, Jonas"},{"last_name":"Angheluta","first_name":"Luiza","full_name":"Angheluta, Luiza"},{"first_name":"Amin","last_name":"Doostmohammadi","full_name":"Doostmohammadi, Amin"}],"arxiv":1,"keyword":["Fluid Flow and Transfer Processes","Modeling and Simulation","Computational Mechanics"],"citation":{"mla":"Andersen, Benjamin H., et al. “Symmetry-Restoring Crossover from Defect-Free to Defect-Laden Turbulence in Polar Active Matter.” <i>Physical Review Fluids</i>, vol. 8, no. 6, 063101, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/physrevfluids.8.063101\">10.1103/physrevfluids.8.063101</a>.","short":"B.H. Andersen, J.B. Renaud, J. Rønning, L. Angheluta, A. Doostmohammadi, Physical Review Fluids 8 (2023).","ieee":"B. H. Andersen, J. B. Renaud, J. Rønning, L. Angheluta, and A. Doostmohammadi, “Symmetry-restoring crossover from defect-free to defect-laden turbulence in polar active matter,” <i>Physical Review Fluids</i>, vol. 8, no. 6. American Physical Society, 2023.","chicago":"Andersen, Benjamin H., Julian B Renaud, Jonas Rønning, Luiza Angheluta, and Amin Doostmohammadi. “Symmetry-Restoring Crossover from Defect-Free to Defect-Laden Turbulence in Polar Active Matter.” <i>Physical Review Fluids</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/physrevfluids.8.063101\">https://doi.org/10.1103/physrevfluids.8.063101</a>.","apa":"Andersen, B. H., Renaud, J. B., Rønning, J., Angheluta, L., &#38; Doostmohammadi, A. (2023). Symmetry-restoring crossover from defect-free to defect-laden turbulence in polar active matter. <i>Physical Review Fluids</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevfluids.8.063101\">https://doi.org/10.1103/physrevfluids.8.063101</a>","ista":"Andersen BH, Renaud JB, Rønning J, Angheluta L, Doostmohammadi A. 2023. Symmetry-restoring crossover from defect-free to defect-laden turbulence in polar active matter. Physical Review Fluids. 8(6), 063101.","ama":"Andersen BH, Renaud JB, Rønning J, Angheluta L, Doostmohammadi A. Symmetry-restoring crossover from defect-free to defect-laden turbulence in polar active matter. <i>Physical Review Fluids</i>. 2023;8(6). doi:<a href=\"https://doi.org/10.1103/physrevfluids.8.063101\">10.1103/physrevfluids.8.063101</a>"},"article_type":"original"}]