[{"fulldoi":"https://doi.org/10.7554/eLife.84850","external_id":{"pmid":["37477116"],"isi":["001035372800001"]},"publication_status":"published","department":[{"_id":"DaSi"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"Yes","oa_version":"Published Version","date_updated":"2023-12-13T11:37:36Z","article_number":"e84850","day":"21","type":"journal_article","file_date_updated":"2023-07-31T07:43:00Z","month":"07","citation":{"apa":"Toshima, J. Y., Tsukahara, A., Nagano, M., Tojima, T., Siekhaus, D. E., Nakano, A., &#38; Toshima, J. (2023). The yeast endocytic early/sorting compartment exists as an independent sub-compartment within the trans-Golgi network. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.84850\">https://doi.org/10.7554/eLife.84850</a>","ista":"Toshima JY, Tsukahara A, Nagano M, Tojima T, Siekhaus DE, Nakano A, Toshima J. 2023. The yeast endocytic early/sorting compartment exists as an independent sub-compartment within the trans-Golgi network. eLife. 12, e84850.","ama":"Toshima JY, Tsukahara A, Nagano M, et al. The yeast endocytic early/sorting compartment exists as an independent sub-compartment within the trans-Golgi network. <i>eLife</i>. 2023;12. doi:<a href=\"https://doi.org/10.7554/eLife.84850\">10.7554/eLife.84850</a>","ieee":"J. Y. Toshima <i>et al.</i>, “The yeast endocytic early/sorting compartment exists as an independent sub-compartment within the trans-Golgi network,” <i>eLife</i>, vol. 12. eLife Sciences Publications, 2023.","mla":"Toshima, Junko Y., et al. “The Yeast Endocytic Early/Sorting Compartment Exists as an Independent Sub-Compartment within the Trans-Golgi Network.” <i>ELife</i>, vol. 12, e84850, eLife Sciences Publications, 2023, doi:<a href=\"https://doi.org/10.7554/eLife.84850\">10.7554/eLife.84850</a>.","chicago":"Toshima, Junko Y., Ayana Tsukahara, Makoto Nagano, Takuro Tojima, Daria E Siekhaus, Akihiko Nakano, and Jiro Toshima. “The Yeast Endocytic Early/Sorting Compartment Exists as an Independent Sub-Compartment within the Trans-Golgi Network.” <i>ELife</i>. eLife Sciences Publications, 2023. <a href=\"https://doi.org/10.7554/eLife.84850\">https://doi.org/10.7554/eLife.84850</a>.","short":"J.Y. Toshima, A. Tsukahara, M. Nagano, T. Tojima, D.E. Siekhaus, A. Nakano, J. Toshima, ELife 12 (2023)."},"acknowledgement":"This work was supported by JSPS KAKENHI grant #18K062291, and the Takeda Science Foundation to JYT., as well as JSPS KAKENHI grant #19K065710, the Takeda Science Foundation, and Life Science Foundation of Japan to JT.","status":"public","year":"2023","publication_identifier":{"eissn":["2050-084X"]},"doi":"10.7554/eLife.84850","abstract":[{"text":"Although budding yeast has been extensively used as a model organism for studying organelle functions and intracellular vesicle trafficking, whether it possesses an independent endocytic early/sorting compartment that sorts endocytic cargos to the endo-lysosomal pathway or the recycling pathway has long been unclear. The structure and properties of the endocytic early/sorting compartment differ significantly between organisms; in plant cells, the trans-Golgi network (TGN) serves this role, whereas in mammalian cells a separate intracellular structure performs this function. The yeast syntaxin homolog Tlg2p, widely localizing to the TGN and endosomal compartments, is presumed to act as a Q-SNARE for endocytic vesicles, but which compartment is the direct target for endocytic vesicles remained unanswered. Here we demonstrate by high-speed and high-resolution 4D imaging of fluorescently labeled endocytic cargos that the Tlg2p-residing compartment within the TGN functions as the early/sorting compartment. After arriving here, endocytic cargos are recycled to the plasma membrane or transported to the yeast Rab5-residing endosomal compartment through the pathway requiring the clathrin adaptors GGAs. Interestingly, Gga2p predominantly localizes at the Tlg2p-residing compartment, and the deletion of GGAs has little effect on another TGN region where Sec7p is present but suppresses dynamics of the Tlg2-residing early/sorting compartment, indicating that the Tlg2p- and Sec7p-residing regions are discrete entities in the mutant. Thus, the Tlg2p-residing region seems to serve as an early/sorting compartment and function independently of the Sec7p-residing region within the TGN.","lang":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"title":"The yeast endocytic early/sorting compartment exists as an independent sub-compartment within the trans-Golgi network","author":[{"first_name":"Junko Y.","last_name":"Toshima","full_name":"Toshima, Junko Y."},{"last_name":"Tsukahara","first_name":"Ayana","full_name":"Tsukahara, Ayana"},{"full_name":"Nagano, Makoto","first_name":"Makoto","last_name":"Nagano"},{"full_name":"Tojima, Takuro","last_name":"Tojima","first_name":"Takuro"},{"first_name":"Daria E","last_name":"Siekhaus","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","full_name":"Siekhaus, Daria E","orcid":"0000-0001-8323-8353"},{"first_name":"Akihiko","last_name":"Nakano","full_name":"Nakano, Akihiko"},{"last_name":"Toshima","first_name":"Jiro","full_name":"Toshima, Jiro"}],"quality_controlled":"1","pmid":1,"volume":12,"date_published":"2023-07-21T00:00:00Z","file":[{"success":1,"file_size":11980913,"relation":"main_file","file_id":"13324","access_level":"open_access","checksum":"2af111a00cf5e3a956f7f0fd13199b15","file_name":"2023_eLife_Toshima.pdf","creator":"dernst","content_type":"application/pdf","date_created":"2023-07-31T07:43:00Z","date_updated":"2023-07-31T07:43:00Z"}],"language":[{"iso":"eng"}],"publisher":"eLife Sciences Publications","isi":1,"ddc":["570"],"_id":"13316","publication":"eLife","scopus_import":"1","intvolume":"        12","date_created":"2023-07-30T22:01:02Z","oa":1,"has_accepted_license":"1","article_type":"original"},{"publication":"Communications in Mathematical Physics","scopus_import":"1","intvolume":"       403","page":"381-416","ddc":["510"],"_id":"13319","has_accepted_license":"1","project":[{"name":"Gradient flow techniques for quantum Markov semigroups","grant_number":"ESP156_N","_id":"34c6ea2d-11ca-11ed-8bc3-c04f3c502833"}],"article_type":"original","date_created":"2023-07-30T22:01:03Z","oa":1,"isi":1,"publisher":"Springer Nature","date_published":"2023-10-01T00:00:00Z","corr_author":"1","file":[{"date_updated":"2024-01-30T12:15:11Z","date_created":"2024-01-30T12:15:11Z","creator":"dernst","file_name":"2023_CommMathPhysics_Vernooij.pdf","content_type":"application/pdf","checksum":"cca204e81891270216a0c84eb8bcd398","access_level":"open_access","file_size":481209,"success":1,"relation":"main_file","file_id":"14905"}],"language":[{"iso":"eng"}],"arxiv":1,"author":[{"full_name":"Vernooij, Matthijs","first_name":"Matthijs","last_name":"Vernooij"},{"full_name":"Wirth, Melchior","orcid":"0000-0002-0519-4241","first_name":"Melchior","last_name":"Wirth","id":"88644358-0A0E-11EA-8FA5-49A33DDC885E"}],"title":"Derivations and KMS-symmetric quantum Markov semigroups","quality_controlled":"1","pmid":1,"volume":403,"publication_identifier":{"eissn":["1432-0916"],"issn":["0010-3616"]},"doi":"10.1007/s00220-023-04795-6","acknowledgement":"The authors are grateful to Martijn Caspers for helpful comments on a preliminary version of this manuscript. M. V. was supported by the NWO Vidi grant VI.Vidi.192.018 ‘Non-commutative harmonic analysis and rigidity of operator algebras’. M. W. was funded by the Austrian Science Fund (FWF) under the Esprit Programme [ESP 156]. For the purpose of Open Access, the authors have applied a CC BY public copyright licence to any Author Accepted Manuscript (AAM) version arising from this submission. Open access funding provided by Austrian Science Fund (FWF).","status":"public","year":"2023","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"abstract":[{"text":"We prove that the generator of the L2 implementation of a KMS-symmetric quantum Markov semigroup can be expressed as the square of a derivation with values in a Hilbert bimodule, extending earlier results by Cipriani and Sauvageot for tracially symmetric semigroups and the second-named author for GNS-symmetric semigroups. This result hinges on the introduction of a new completely positive map on the algebra of bounded operators on the GNS Hilbert space. This transformation maps symmetric Markov operators to symmetric Markov operators and is essential to obtain the required inner product on the Hilbert bimodule.","lang":"eng"}],"type":"journal_article","day":"01","file_date_updated":"2024-01-30T12:15:11Z","citation":{"short":"M. Vernooij, M. Wirth, Communications in Mathematical Physics 403 (2023) 381–416.","mla":"Vernooij, Matthijs, and Melchior Wirth. “Derivations and KMS-Symmetric Quantum Markov Semigroups.” <i>Communications in Mathematical Physics</i>, vol. 403, Springer Nature, 2023, pp. 381–416, doi:<a href=\"https://doi.org/10.1007/s00220-023-04795-6\">10.1007/s00220-023-04795-6</a>.","chicago":"Vernooij, Matthijs, and Melchior Wirth. “Derivations and KMS-Symmetric Quantum Markov Semigroups.” <i>Communications in Mathematical Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00220-023-04795-6\">https://doi.org/10.1007/s00220-023-04795-6</a>.","ista":"Vernooij M, Wirth M. 2023. Derivations and KMS-symmetric quantum Markov semigroups. Communications in Mathematical Physics. 403, 381–416.","apa":"Vernooij, M., &#38; Wirth, M. (2023). Derivations and KMS-symmetric quantum Markov semigroups. <i>Communications in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00220-023-04795-6\">https://doi.org/10.1007/s00220-023-04795-6</a>","ieee":"M. Vernooij and M. Wirth, “Derivations and KMS-symmetric quantum Markov semigroups,” <i>Communications in Mathematical Physics</i>, vol. 403. Springer Nature, pp. 381–416, 2023.","ama":"Vernooij M, Wirth M. Derivations and KMS-symmetric quantum Markov semigroups. <i>Communications in Mathematical Physics</i>. 2023;403:381-416. doi:<a href=\"https://doi.org/10.1007/s00220-023-04795-6\">10.1007/s00220-023-04795-6</a>"},"month":"10","oa_version":"Published Version","article_processing_charge":"Yes (via OA deal)","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2025-04-23T13:10:45Z","external_id":{"isi":["001033655400002"],"arxiv":["2303.15949"],"pmid":["37766789"]},"fulldoi":"https://doi.org/10.1007/s00220-023-04795-6","department":[{"_id":"JaMa"}],"publication_status":"published"},{"alternative_title":["ISTA Master's Thesis"],"publisher":"Institute of Science and Technology Austria","degree_awarded":"MS","has_accepted_license":"1","date_created":"2023-07-31T10:20:55Z","oa":1,"_id":"13331","ddc":["510","516"],"page":"26","OA_place":"publisher","supervisor":[{"id":"36690CA2-F248-11E8-B48F-1D18A9856A87","first_name":"Uli","last_name":"Wagner","orcid":"0000-0002-1494-0568","full_name":"Wagner, Uli"}],"author":[{"id":"8ba3170d-dc85-11ea-9058-c4251c96a6eb","first_name":"Seyda","last_name":"Köse","orcid":"0009-0008-0457-9730","full_name":"Köse, Seyda"}],"title":"Exterior algebra and combinatorics","language":[{"iso":"eng"}],"file":[{"relation":"source_file","file_id":"13333","file_size":28684,"checksum":"96ee518d796d02af71395622c45de03c","access_level":"closed","content_type":"application/x-zip-compressed","file_name":"Exterior Algebra and Combinatorics.zip","creator":"skoese","date_created":"2023-07-31T10:16:32Z","date_updated":"2023-07-31T10:16:32Z"},{"relation":"main_file","file_id":"13480","success":1,"file_size":4953418,"checksum":"f610f4713f88bc477de576aaa46b114e","access_level":"open_access","content_type":"application/pdf","file_name":"thesis-pdfa.pdf","creator":"skoese","date_created":"2023-08-03T15:28:55Z","date_updated":"2023-08-03T15:28:55Z"}],"corr_author":"1","date_published":"2023-07-31T00:00:00Z","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"12680"}]},"citation":{"ama":"Köse S. Exterior algebra and combinatorics. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:13331\">10.15479/at:ista:13331</a>","ista":"Köse S. 2023. Exterior algebra and combinatorics. Institute of Science and Technology Austria.","apa":"Köse, S. (2023). <i>Exterior algebra and combinatorics</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:13331\">https://doi.org/10.15479/at:ista:13331</a>","ieee":"S. Köse, “Exterior algebra and combinatorics,” Institute of Science and Technology Austria, 2023.","mla":"Köse, Seyda. <i>Exterior Algebra and Combinatorics</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:13331\">10.15479/at:ista:13331</a>.","chicago":"Köse, Seyda. “Exterior Algebra and Combinatorics.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:13331\">https://doi.org/10.15479/at:ista:13331</a>.","short":"S. Köse, Exterior Algebra and Combinatorics, Institute of Science and Technology Austria, 2023."},"month":"07","file_date_updated":"2023-08-03T15:28:55Z","day":"31","type":"dissertation","abstract":[{"text":"The extension of extremal combinatorics to the setting of exterior algebra is a work\r\nin progress that gained attention recently. In this thesis, we study the combinatorial structure of exterior algebra by introducing a dictionary that translates the notions from the set systems into the framework of exterior algebra. We show both generalizations of celebrated Erdös--Ko--Rado theorem and Hilton--Milner theorem to the setting of exterior algebra in the simplest non-trivial case of two-forms.\r\n","lang":"eng"}],"doi":"10.15479/at:ista:13331","publication_identifier":{"issn":["2791-4585"]},"year":"2023","status":"public","department":[{"_id":"GradSch"},{"_id":"UlWa"}],"publication_status":"published","fulldoi":"https://doi.org/10.15479/at:ista:13331","date_updated":"2026-04-07T13:29:29Z","article_processing_charge":"No","oa_version":"Published Version","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"id":"13258","relation":"used_in_publication","status":"public"}]},"article_processing_charge":"No","oa_version":"Published Version","corr_author":"1","date_published":"2023-06-20T00:00:00Z","date_updated":"2025-04-15T06:54:58Z","fulldoi":"https://doi.org/10.5281/ZENODO.8059564","title":"kleshnina/stochgames_info: The effect of environmental information on evolution of cooperation in stochastic games","author":[{"full_name":"Kleshnina, Maria","last_name":"Kleshnina","first_name":"Maria","id":"4E21749C-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"KrCh"}],"_id":"13336","year":"2023","ddc":["000"],"status":"public","doi":"10.5281/ZENODO.8059564","oa":1,"date_created":"2023-07-31T11:30:46Z","type":"research_data_reference","day":"20","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.8059564"}],"publisher":"Zenodo","month":"06","citation":{"ista":"Kleshnina M. 2023. kleshnina/stochgames_info: The effect of environmental information on evolution of cooperation in stochastic games, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.8059564\">10.5281/ZENODO.8059564</a>.","apa":"Kleshnina, M. (2023). kleshnina/stochgames_info: The effect of environmental information on evolution of cooperation in stochastic games. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.8059564\">https://doi.org/10.5281/ZENODO.8059564</a>","ama":"Kleshnina M. kleshnina/stochgames_info: The effect of environmental information on evolution of cooperation in stochastic games. 2023. doi:<a href=\"https://doi.org/10.5281/ZENODO.8059564\">10.5281/ZENODO.8059564</a>","ieee":"M. Kleshnina, “kleshnina/stochgames_info: The effect of environmental information on evolution of cooperation in stochastic games.” Zenodo, 2023.","short":"M. Kleshnina, (2023).","chicago":"Kleshnina, Maria. “Kleshnina/Stochgames_info: The Effect of Environmental Information on Evolution of Cooperation in Stochastic Games.” Zenodo, 2023. <a href=\"https://doi.org/10.5281/ZENODO.8059564\">https://doi.org/10.5281/ZENODO.8059564</a>.","mla":"Kleshnina, Maria. <i>Kleshnina/Stochgames_info: The Effect of Environmental Information on Evolution of Cooperation in Stochastic Games</i>. Zenodo, 2023, doi:<a href=\"https://doi.org/10.5281/ZENODO.8059564\">10.5281/ZENODO.8059564</a>."}},{"language":[{"iso":"eng"}],"date_published":"2023-11-21T00:00:00Z","file":[{"date_created":"2023-11-27T08:45:56Z","date_updated":"2023-11-27T08:45:56Z","file_name":"2023_EmboJournal_Kroll.pdf","creator":"dernst","content_type":"application/pdf","access_level":"open_access","checksum":"6261d0041c7e8d284c39712c40079730","file_size":4862497,"success":1,"relation":"main_file","file_id":"14611"}],"quality_controlled":"1","pmid":1,"author":[{"full_name":"Kroll, Janina","last_name":"Kroll","first_name":"Janina"},{"full_name":"Hauschild, Robert","orcid":"0000-0001-9843-3522","first_name":"Robert","last_name":"Hauschild","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Kuznetcov, Arthur","first_name":"Arthur","last_name":"Kuznetcov"},{"first_name":"Kasia","last_name":"Stefanowski","full_name":"Stefanowski, Kasia"},{"last_name":"Hermann","first_name":"Monika D.","full_name":"Hermann, Monika D."},{"orcid":"0000-0001-5145-4609","full_name":"Merrin, Jack","id":"4515C308-F248-11E8-B48F-1D18A9856A87","last_name":"Merrin","first_name":"Jack"},{"id":"3CD37A82-F248-11E8-B48F-1D18A9856A87","first_name":"Lubuna B","last_name":"Shafeek","orcid":"0000-0001-7180-6050","full_name":"Shafeek, Lubuna B"},{"full_name":"Müller-Taubenberger, Annette","first_name":"Annette","last_name":"Müller-Taubenberger"},{"last_name":"Renkawitz","first_name":"Jörg","id":"3F0587C8-F248-11E8-B48F-1D18A9856A87","full_name":"Renkawitz, Jörg","orcid":"0000-0003-2856-3369"}],"title":"Adaptive pathfinding by nucleokinesis during amoeboid migration","date_created":"2023-08-01T08:59:06Z","oa":1,"has_accepted_license":"1","article_type":"original","ddc":["570"],"_id":"13342","publication":"EMBO Journal","scopus_import":"1","isi":1,"publisher":"Embo Press","date_updated":"2025-09-09T12:44:04Z","article_number":"e114557","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa_version":"Published Version","article_processing_charge":"Yes (via OA deal)","publication_status":"published","department":[{"_id":"NanoFab"},{"_id":"Bio"}],"fulldoi":"https://doi.org/10.15252/embj.2023114557","external_id":{"isi":["001120971800001"],"pmid":["37987147"]},"abstract":[{"text":"Motile cells moving in multicellular organisms encounter microenvironments of locally heterogeneous mechanochemical composition. Individual compositional parameters like chemotactic signals, adhesiveness, and pore sizes are well known to be sensed by motile cells, providing individual guidance cues for cellular pathfinding. However, motile cells encounter diverse mechanochemical signals at the same time, raising the question of how cells respond to locally diverse and potentially competing signals on their migration routes. Here, we reveal that motile amoeboid cells require nuclear repositioning, termed nucleokinesis, for adaptive pathfinding in heterogeneous mechanochemical microenvironments. Using mammalian immune cells and the amoeba<jats:italic>Dictyostelium discoideum</jats:italic>, we discover that frequent, rapid and long-distance nucleokinesis is a basic component of amoeboid pathfinding, enabling cells to reorientate quickly between locally competing cues. Amoeboid nucleokinesis comprises a two-step cell polarity switch and is driven by myosin II-forces, sliding the nucleus from a ‘losing’ to the ‘winning’ leading edge to re-adjust the nuclear to the cellular path. Impaired nucleokinesis distorts fast path adaptions and causes cellular arrest in the microenvironment. Our findings establish that nucleokinesis is required for amoeboid cell navigation. Given that motile single-cell amoebae, many immune cells, and some cancer cells utilize an amoeboid migration strategy, these results suggest that amoeboid nucleokinesis underlies cellular navigation during unicellular biology, immunity, and disease.","lang":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","short":"CC BY-NC-ND (4.0)"},"status":"public","acknowledgement":"We thank Christoph Mayr and Bingzhi Wang for initial experiments on amoeboid nucleokinesis, Ana-Maria Lennon-Duménil and Aline Yatim for bone marrow from MyoIIA-Flox*CD11c-Cre mice, Michael Sixt and Aglaja Kopf for EMTB-mCherry, EB3-mCherry, Lifeact-GFP, Lfc knockout, and Myh9-GFP expressing HoxB8 cells, Malte Benjamin Braun, Mauricio Ruiz, and Madeleine T. Schmitt for critical reading of the manuscript, and the Core Facility Bioimaging, the Core Facility Flow Cytometry, and the Animal Core Facility of the Biomedical Center (BMC) for excellent support. This study was supported by the Peter Hans Hofschneider Professorship of the foundation “Stiftung Experimentelle Biomedizin” (to JR), the LMU Institutional Strategy LMU-Excellent within the framework of the German Excellence Initiative (to JR), and the Deutsche Forschungsgemeinschaft (DFG; German Research Foundation; SFB914 project A12, to JR), and the CZI grant DAF2020-225401 (https://doi.org/10.37921/120055ratwvi) from the Chan Zuckerberg Initiative DAF (to RH; an advised fund of Silicon Valley Community Foundation (funder https://doi.org/10.13039/100014989)). Open Access funding enabled and organized by Projekt DEAL.","year":"2023","doi":"10.15252/embj.2023114557","publication_identifier":{"eissn":["1460-2075"],"issn":["0261-4189"]},"month":"11","citation":{"ama":"Kroll J, Hauschild R, Kuznetcov A, et al. Adaptive pathfinding by nucleokinesis during amoeboid migration. <i>EMBO Journal</i>. 2023. doi:<a href=\"https://doi.org/10.15252/embj.2023114557\">10.15252/embj.2023114557</a>","ieee":"J. Kroll <i>et al.</i>, “Adaptive pathfinding by nucleokinesis during amoeboid migration,” <i>EMBO Journal</i>. Embo Press, 2023.","apa":"Kroll, J., Hauschild, R., Kuznetcov, A., Stefanowski, K., Hermann, M. D., Merrin, J., … Renkawitz, J. (2023). Adaptive pathfinding by nucleokinesis during amoeboid migration. <i>EMBO Journal</i>. Embo Press. <a href=\"https://doi.org/10.15252/embj.2023114557\">https://doi.org/10.15252/embj.2023114557</a>","ista":"Kroll J, Hauschild R, Kuznetcov A, Stefanowski K, Hermann MD, Merrin J, Shafeek LB, Müller-Taubenberger A, Renkawitz J. 2023. Adaptive pathfinding by nucleokinesis during amoeboid migration. EMBO Journal., e114557.","short":"J. Kroll, R. Hauschild, A. Kuznetcov, K. Stefanowski, M.D. Hermann, J. Merrin, L.B. Shafeek, A. Müller-Taubenberger, J. Renkawitz, EMBO Journal (2023).","mla":"Kroll, Janina, et al. “Adaptive Pathfinding by Nucleokinesis during Amoeboid Migration.” <i>EMBO Journal</i>, e114557, Embo Press, 2023, doi:<a href=\"https://doi.org/10.15252/embj.2023114557\">10.15252/embj.2023114557</a>.","chicago":"Kroll, Janina, Robert Hauschild, Arthur Kuznetcov, Kasia Stefanowski, Monika D. Hermann, Jack Merrin, Lubuna B Shafeek, Annette Müller-Taubenberger, and Jörg Renkawitz. “Adaptive Pathfinding by Nucleokinesis during Amoeboid Migration.” <i>EMBO Journal</i>. Embo Press, 2023. <a href=\"https://doi.org/10.15252/embj.2023114557\">https://doi.org/10.15252/embj.2023114557</a>."},"day":"21","type":"journal_article","file_date_updated":"2023-11-27T08:45:56Z","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-07-06T00:00:00Z","oa_version":"Preprint","article_processing_charge":"No","date_updated":"2023-08-02T07:36:00Z","article_number":"2307.03237","language":[{"iso":"eng"}],"arxiv":1,"title":"Asteroseismology with the Roman galactic bulge time-domain survey","fulldoi":"https://doi.org/10.48550/arXiv.2307.03237","author":[{"full_name":"Huber, Daniel","first_name":"Daniel","last_name":"Huber"},{"last_name":"Pinsonneault","first_name":"Marc","full_name":"Pinsonneault, Marc"},{"last_name":"Beck","first_name":"Paul","full_name":"Beck, Paul"},{"full_name":"Bedding, Timothy R.","last_name":"Bedding","first_name":"Timothy R."},{"first_name":"Joss Bland-Hawthorn","last_name":"Joss Bland-Hawthorn","full_name":"Joss Bland-Hawthorn, Joss Bland-Hawthorn"},{"first_name":"Sylvain N.","last_name":"Breton","full_name":"Breton, Sylvain N."},{"orcid":"0000-0003-0142-4000","full_name":"Bugnet, Lisa Annabelle","id":"d9edb345-f866-11ec-9b37-d119b5234501","last_name":"Bugnet","first_name":"Lisa Annabelle"},{"last_name":"Chaplin","first_name":"William J.","full_name":"Chaplin, William J."},{"last_name":"Garcia","first_name":"Rafael A.","full_name":"Garcia, Rafael A."},{"last_name":"Grunblatt","first_name":"Samuel K.","full_name":"Grunblatt, Samuel K."},{"full_name":"Guzik, Joyce A.","first_name":"Joyce A.","last_name":"Guzik"},{"full_name":"Hekker, Saskia","first_name":"Saskia","last_name":"Hekker"},{"full_name":"Kawaler, Steven D.","last_name":"Kawaler","first_name":"Steven D."},{"full_name":"Mathis, Stephane","last_name":"Mathis","first_name":"Stephane"},{"last_name":"Mathur","first_name":"Savita","full_name":"Mathur, Savita"},{"full_name":"Metcalfe, Travis","first_name":"Travis","last_name":"Metcalfe"},{"first_name":"Benoit","last_name":"Mosser","full_name":"Mosser, Benoit"},{"first_name":"Melissa K.","last_name":"Ness","full_name":"Ness, Melissa K."},{"full_name":"Piro, Anthony L.","last_name":"Piro","first_name":"Anthony L."},{"last_name":"Serenelli","first_name":"Aldo","full_name":"Serenelli, Aldo"},{"full_name":"Sharma, Sanjib","first_name":"Sanjib","last_name":"Sharma"},{"first_name":"David R.","last_name":"Soderblom","full_name":"Soderblom, David R."},{"last_name":"Stassun","first_name":"Keivan G.","full_name":"Stassun, Keivan G."},{"full_name":"Stello, Dennis","first_name":"Dennis","last_name":"Stello"},{"full_name":"Tayar, Jamie","last_name":"Tayar","first_name":"Jamie"},{"first_name":"Gerard T. van","last_name":"Belle","full_name":"Belle, Gerard T. van"},{"first_name":"Joel C.","last_name":"Zinn","full_name":"Zinn, Joel C."}],"external_id":{"arxiv":["2307.03237"]},"publication_status":"submitted","department":[{"_id":"LiBu"}],"status":"public","year":"2023","_id":"13447","publication":"arXiv","doi":"10.48550/arXiv.2307.03237","oa":1,"date_created":"2023-08-02T07:30:43Z","abstract":[{"text":"Asteroseismology has transformed stellar astrophysics. Red giant asteroseismology is a prime example, with oscillation periods and amplitudes that are readily detectable with time-domain space-based telescopes. These oscillations can be used to infer masses, ages and radii for large numbers of stars, providing unique constraints on stellar populations in our galaxy. The cadence, duration, and spatial resolution of the Roman galactic bulge time-domain survey (GBTDS) are well-suited for asteroseismology and will probe an important population not studied by prior missions. We identify photometric precision as a key requirement for realizing the potential of asteroseismology with Roman. A precision of 1 mmag per 15-min cadence or better for saturated stars will enable detections of the populous red clump star population in the Galactic bulge. If the survey efficiency is better than expected, we argue for repeat observations of the same fields to improve photometric precision, or covering additional fields to expand the stellar population reach if the photometric precision for saturated stars is better than 1 mmag. Asteroseismology is relatively insensitive to the timing of the observations during the mission, and the prime red clump targets can be observed in a single 70 day campaign in any given field. Complementary stellar characterization, particularly astrometry tied to the Gaia system, will also dramatically expand the diagnostic power of asteroseismology. We also highlight synergies to Roman GBTDS exoplanet science using transits and microlensing.","lang":"eng"}],"type":"preprint","day":"06","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2307.03237","open_access":"1"}],"month":"07","citation":{"short":"D. Huber, M. Pinsonneault, P. Beck, T.R. Bedding, J.B.-H. Joss Bland-Hawthorn, S.N. Breton, L.A. Bugnet, W.J. Chaplin, R.A. Garcia, S.K. Grunblatt, J.A. Guzik, S. Hekker, S.D. Kawaler, S. Mathis, S. Mathur, T. Metcalfe, B. Mosser, M.K. Ness, A.L. Piro, A. Serenelli, S. Sharma, D.R. Soderblom, K.G. Stassun, D. Stello, J. Tayar, G.T. van Belle, J.C. Zinn, ArXiv (n.d.).","mla":"Huber, Daniel, et al. “Asteroseismology with the Roman Galactic Bulge Time-Domain Survey.” <i>ArXiv</i>, 2307.03237, doi:<a href=\"https://doi.org/10.48550/arXiv.2307.03237\">10.48550/arXiv.2307.03237</a>.","chicago":"Huber, Daniel, Marc Pinsonneault, Paul Beck, Timothy R. Bedding, Joss Bland-Hawthorn Joss Bland-Hawthorn, Sylvain N. Breton, Lisa Annabelle Bugnet, et al. “Asteroseismology with the Roman Galactic Bulge Time-Domain Survey.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2307.03237\">https://doi.org/10.48550/arXiv.2307.03237</a>.","ieee":"D. Huber <i>et al.</i>, “Asteroseismology with the Roman galactic bulge time-domain survey,” <i>arXiv</i>. .","apa":"Huber, D., Pinsonneault, M., Beck, P., Bedding, T. R., Joss Bland-Hawthorn, J. B.-H., Breton, S. N., … Zinn, J. C. (n.d.). Asteroseismology with the Roman galactic bulge time-domain survey. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2307.03237\">https://doi.org/10.48550/arXiv.2307.03237</a>","ama":"Huber D, Pinsonneault M, Beck P, et al. Asteroseismology with the Roman galactic bulge time-domain survey. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2307.03237\">10.48550/arXiv.2307.03237</a>","ista":"Huber D, Pinsonneault M, Beck P, Bedding TR, Joss Bland-Hawthorn JB-H, Breton SN, Bugnet LA, Chaplin WJ, Garcia RA, Grunblatt SK, Guzik JA, Hekker S, Kawaler SD, Mathis S, Mathur S, Metcalfe T, Mosser B, Ness MK, Piro AL, Serenelli A, Sharma S, Soderblom DR, Stassun KG, Stello D, Tayar J, Belle GT van, Zinn JC. Asteroseismology with the Roman galactic bulge time-domain survey. arXiv, 2307.03237."}},{"file":[{"relation":"main_file","file_id":"13981","success":1,"file_size":3051398,"access_level":"open_access","checksum":"f763000339b5fd543c14377109920690","content_type":"application/pdf","creator":"dernst","file_name":"2023_PhysRevB_Brighi.pdf","date_created":"2023-08-07T09:48:08Z","date_updated":"2023-08-07T09:48:08Z"}],"date_published":"2023-08-01T00:00:00Z","corr_author":"1","arxiv":1,"language":[{"iso":"eng"}],"title":"Many-body localization proximity effect in a two-species bosonic Hubbard model","author":[{"first_name":"Pietro","last_name":"Brighi","id":"4115AF5C-F248-11E8-B48F-1D18A9856A87","full_name":"Brighi, Pietro","orcid":"0000-0002-7969-2729"},{"orcid":"0000-0003-0038-7068","full_name":"Ljubotina, Marko","id":"F75EE9BE-5C90-11EA-905D-16643DDC885E","first_name":"Marko","last_name":"Ljubotina"},{"full_name":"Abanin, Dmitry A.","last_name":"Abanin","first_name":"Dmitry A."},{"full_name":"Serbyn, Maksym","orcid":"0000-0002-2399-5827","first_name":"Maksym","last_name":"Serbyn","id":"47809E7E-F248-11E8-B48F-1D18A9856A87"}],"volume":108,"quality_controlled":"1","scopus_import":"1","intvolume":"       108","publication":"Physical Review B","_id":"13963","ddc":["530"],"project":[{"call_identifier":"H2020","name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E","grant_number":"850899"}],"article_type":"original","has_accepted_license":"1","oa":1,"date_created":"2023-08-05T18:25:22Z","publisher":"American Physical Society","article_processing_charge":"Yes (in subscription journal)","oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_number":"054201","date_updated":"2025-04-14T07:52:06Z","external_id":{"arxiv":["2303.16876"]},"fulldoi":"https://doi.org/10.1103/physrevb.108.054201","department":[{"_id":"MaSe"}],"publication_status":"published","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"doi":"10.1103/physrevb.108.054201","year":"2023","acknowledgement":"We thank A. A. Michailidis and A. Mirlin for insightful discussions. P.B., M.L., and M.S. acknowledge support by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (Grant Agreement No. 850899). D.A. was\r\nsupported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (Grant Agreement No. 864597) and by the Swiss National Science Foundation. P.B., M.L., and M.S. acknowledge PRACE for awarding us access to Joliot-Curie at GENCI@CEA, France, where the TEBD simulations were performed. The TEBD simulations were performed using the ITensor library [60].","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"abstract":[{"lang":"eng","text":"The many-body localization (MBL) proximity effect is an intriguing phenomenon where a thermal bath localizes due to the interaction with a disordered system. The interplay of thermal and nonergodic behavior in these systems gives rise to a rich phase diagram, whose exploration is an active field of research. In this paper, we study a bosonic Hubbard model featuring two particle species representing the bath and the disordered system. Using state-of-the-art numerical techniques, we investigate the dynamics of the model in different regimes, based on which we obtain a tentative phase diagram as a function of coupling strength and bath size. When the bath is composed of a single particle, we observe clear signatures of a transition from an MBL proximity effect to a delocalized phase. Increasing the bath size, however, its thermalizing effect becomes stronger and eventually the whole system delocalizes in the range of moderate interaction strengths studied. In this regime, we characterize particle transport, revealing diffusive behavior of the originally localized bosons."}],"issue":"5","ec_funded":1,"file_date_updated":"2023-08-07T09:48:08Z","type":"journal_article","day":"01","citation":{"short":"P. Brighi, M. Ljubotina, D.A. Abanin, M. Serbyn, Physical Review B 108 (2023).","mla":"Brighi, Pietro, et al. “Many-Body Localization Proximity Effect in a Two-Species Bosonic Hubbard Model.” <i>Physical Review B</i>, vol. 108, no. 5, 054201, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/physrevb.108.054201\">10.1103/physrevb.108.054201</a>.","chicago":"Brighi, Pietro, Marko Ljubotina, Dmitry A. Abanin, and Maksym Serbyn. “Many-Body Localization Proximity Effect in a Two-Species Bosonic Hubbard Model.” <i>Physical Review B</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/physrevb.108.054201\">https://doi.org/10.1103/physrevb.108.054201</a>.","ama":"Brighi P, Ljubotina M, Abanin DA, Serbyn M. Many-body localization proximity effect in a two-species bosonic Hubbard model. <i>Physical Review B</i>. 2023;108(5). doi:<a href=\"https://doi.org/10.1103/physrevb.108.054201\">10.1103/physrevb.108.054201</a>","ista":"Brighi P, Ljubotina M, Abanin DA, Serbyn M. 2023. Many-body localization proximity effect in a two-species bosonic Hubbard model. Physical Review B. 108(5), 054201.","ieee":"P. Brighi, M. Ljubotina, D. A. Abanin, and M. Serbyn, “Many-body localization proximity effect in a two-species bosonic Hubbard model,” <i>Physical Review B</i>, vol. 108, no. 5. American Physical Society, 2023.","apa":"Brighi, P., Ljubotina, M., Abanin, D. A., &#38; Serbyn, M. (2023). Many-body localization proximity effect in a two-species bosonic Hubbard model. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevb.108.054201\">https://doi.org/10.1103/physrevb.108.054201</a>"},"month":"08"},{"month":"07","citation":{"ista":"Bighin G, Ho QP, Lemeshko M, Tscherbul TV. 2023. Diagrammatic Monte Carlo for electronic correlation in molecules: High-order many-body perturbation theory with low scaling. Physical Review B. 108(4), 045115.","apa":"Bighin, G., Ho, Q. P., Lemeshko, M., &#38; Tscherbul, T. V. (2023). Diagrammatic Monte Carlo for electronic correlation in molecules: High-order many-body perturbation theory with low scaling. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.108.045115\">https://doi.org/10.1103/PhysRevB.108.045115</a>","ama":"Bighin G, Ho QP, Lemeshko M, Tscherbul TV. Diagrammatic Monte Carlo for electronic correlation in molecules: High-order many-body perturbation theory with low scaling. <i>Physical Review B</i>. 2023;108(4). doi:<a href=\"https://doi.org/10.1103/PhysRevB.108.045115\">10.1103/PhysRevB.108.045115</a>","ieee":"G. Bighin, Q. P. Ho, M. Lemeshko, and T. V. Tscherbul, “Diagrammatic Monte Carlo for electronic correlation in molecules: High-order many-body perturbation theory with low scaling,” <i>Physical Review B</i>, vol. 108, no. 4. American Physical Society, 2023.","short":"G. Bighin, Q.P. Ho, M. Lemeshko, T.V. Tscherbul, Physical Review B 108 (2023).","mla":"Bighin, Giacomo, et al. “Diagrammatic Monte Carlo for Electronic Correlation in Molecules: High-Order Many-Body Perturbation Theory with Low Scaling.” <i>Physical Review B</i>, vol. 108, no. 4, 045115, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevB.108.045115\">10.1103/PhysRevB.108.045115</a>.","chicago":"Bighin, Giacomo, Quoc P Ho, Mikhail Lemeshko, and T. V. Tscherbul. “Diagrammatic Monte Carlo for Electronic Correlation in Molecules: High-Order Many-Body Perturbation Theory with Low Scaling.” <i>Physical Review B</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevB.108.045115\">https://doi.org/10.1103/PhysRevB.108.045115</a>."},"type":"journal_article","day":"15","ec_funded":1,"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2203.12666","open_access":"1"}],"abstract":[{"text":"We present a low-scaling diagrammatic Monte Carlo approach to molecular correlation energies. Using combinatorial graph theory to encode many-body Hugenholtz diagrams, we sample the Møller-Plesset (MPn) perturbation series, obtaining accurate correlation energies up to n=5, with quadratic scaling in the number of basis functions. Our technique reduces the computational complexity of the molecular many-fermion correlation problem, opening up the possibility of low-scaling, accurate stochastic computations for a wide class of many-body systems described by Hugenholtz diagrams.","lang":"eng"}],"issue":"4","year":"2023","status":"public","acknowledgement":"We acknowledge stimulating discussions with Sergey Varganov, Artur Izmaylov, Jacek Kłos, Piotr Żuchowski, Dominika Zgid, Nikolay Prokof'ev, Boris Svistunov, Robert Parrish, and Andreas Heßelmann. G.B. and Q.P.H. acknowledge support from the Austrian Science Fund (FWF) under Projects No. M2641-N27 and No. M2751. M.L. acknowledges support by the FWF under Project No. P29902-N27, and by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). T.V.T. was supported by the NSF CAREER award No. PHY-2045681. This work is supported by the German Research Foundation (DFG) under Germany's Excellence Strategy EXC2181/1-390900948 (the Heidelberg STRUCTURES Excellence Cluster). The authors acknowledge support by the state of Baden-Württemberg through bwHPC.","doi":"10.1103/PhysRevB.108.045115","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"publication_status":"published","department":[{"_id":"MiLe"},{"_id":"TaHa"}],"fulldoi":"https://doi.org/10.1103/PhysRevB.108.045115","external_id":{"isi":["001532067800001"],"arxiv":["2203.12666"]},"article_number":"045115","date_updated":"2025-09-09T12:45:32Z","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa_version":"Preprint","article_processing_charge":"No","isi":1,"publisher":"American Physical Society","oa":1,"date_created":"2023-08-06T22:01:10Z","project":[{"_id":"26986C82-B435-11E9-9278-68D0E5697425","grant_number":"M02641","call_identifier":"FWF","name":"A path-integral approach to composite impurities"},{"call_identifier":"FWF","name":"Algebro-Geometric Applications of Factorization Homology","_id":"26B96266-B435-11E9-9278-68D0E5697425","grant_number":"M02751"},{"grant_number":"P29902","_id":"26031614-B435-11E9-9278-68D0E5697425","name":"Quantum rotations in the presence of a many-body environment","call_identifier":"FWF"},{"name":"Angulon: physics and applications of a new quasiparticle","call_identifier":"H2020","grant_number":"801770","_id":"2688CF98-B435-11E9-9278-68D0E5697425"}],"article_type":"original","_id":"13966","intvolume":"       108","scopus_import":"1","publication":"Physical Review B","volume":108,"quality_controlled":"1","title":"Diagrammatic Monte Carlo for electronic correlation in molecules: High-order many-body perturbation theory with low scaling","author":[{"full_name":"Bighin, Giacomo","orcid":"0000-0001-8823-9777","first_name":"Giacomo","last_name":"Bighin","id":"4CA96FD4-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Ho","first_name":"Quoc P","id":"3DD82E3C-F248-11E8-B48F-1D18A9856A87","full_name":"Ho, Quoc P","orcid":"0000-0001-6889-1418"},{"orcid":"0000-0002-6990-7802","full_name":"Lemeshko, Mikhail","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko","first_name":"Mikhail"},{"last_name":"Tscherbul","first_name":"T. V.","full_name":"Tscherbul, T. V."}],"arxiv":1,"language":[{"iso":"eng"}],"corr_author":"1","date_published":"2023-07-15T00:00:00Z"},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"abstract":[{"text":"Bundling crossings is a strategy which can enhance the readability\r\nof graph drawings. In this paper we consider good drawings, i.e., we require that\r\nany two edges have at most one common point which can be a common vertex or a\r\ncrossing. Our main result is that there is a polynomial-time algorithm to compute an\r\n8-approximation of the bundled crossing number of a good drawing with no toothed\r\nhole. In general the number of toothed holes has to be added to the 8-approximation.\r\nIn the special case of circular drawings the approximation factor is 8, this improves\r\nupon the 10-approximation of Fink et al. [14]. Our approach also works with the same\r\napproximation factor for families of pseudosegments, i.e., curves intersecting at most\r\nonce. We also show how to compute a 9/2-approximation when the intersection graph of\r\nthe pseudosegments is bipartite and has no toothed hole.","lang":"eng"}],"issue":"6","publication_identifier":{"issn":["1526-1719"]},"doi":"10.7155/jgaa.00629","year":"2023","acknowledgement":"This work was initiated during the Workshop on Geometric Graphs in November 2019 in Strobl, Austria. We would like to thank Oswin Aichholzer, Fabian Klute, Man-Kwun Chiu, Martin Balko, Pavel Valtr for their avid discussions during the workshop. The first author has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sk lodowska-Curie grant agreement No 754411. The second author has been supported by the German Research Foundation DFG Project FE 340/12-1. An extended abstract of this paper has been published in the proceedings of WALCOM 2022 in the Springer LNCS series, vol. 13174, pages 383–395.","status":"public","citation":{"short":"A.M. Arroyo Guevara, S. Felsner, Journal of Graph Algorithms and Applications 27 (2023) 433–457.","chicago":"Arroyo Guevara, Alan M, and Stefan Felsner. “Approximating the Bundled Crossing Number.” <i>Journal of Graph Algorithms and Applications</i>. Brown University, 2023. <a href=\"https://doi.org/10.7155/jgaa.00629\">https://doi.org/10.7155/jgaa.00629</a>.","mla":"Arroyo Guevara, Alan M., and Stefan Felsner. “Approximating the Bundled Crossing Number.” <i>Journal of Graph Algorithms and Applications</i>, vol. 27, no. 6, Brown University, 2023, pp. 433–57, doi:<a href=\"https://doi.org/10.7155/jgaa.00629\">10.7155/jgaa.00629</a>.","ista":"Arroyo Guevara AM, Felsner S. 2023. Approximating the bundled crossing number. Journal of Graph Algorithms and Applications. 27(6), 433–457.","ama":"Arroyo Guevara AM, Felsner S. Approximating the bundled crossing number. <i>Journal of Graph Algorithms and Applications</i>. 2023;27(6):433-457. doi:<a href=\"https://doi.org/10.7155/jgaa.00629\">10.7155/jgaa.00629</a>","ieee":"A. M. Arroyo Guevara and S. Felsner, “Approximating the bundled crossing number,” <i>Journal of Graph Algorithms and Applications</i>, vol. 27, no. 6. Brown University, pp. 433–457, 2023.","apa":"Arroyo Guevara, A. M., &#38; Felsner, S. (2023). Approximating the bundled crossing number. <i>Journal of Graph Algorithms and Applications</i>. Brown University. <a href=\"https://doi.org/10.7155/jgaa.00629\">https://doi.org/10.7155/jgaa.00629</a>"},"month":"07","ec_funded":1,"file_date_updated":"2023-08-07T08:00:48Z","type":"journal_article","day":"01","date_updated":"2025-09-10T09:35:55Z","article_processing_charge":"Yes","oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"UlWa"}],"publication_status":"published","external_id":{"arxiv":["2109.14892"]},"fulldoi":"https://doi.org/10.7155/jgaa.00629","project":[{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"}],"article_type":"original","has_accepted_license":"1","oa":1,"date_created":"2023-08-06T22:01:11Z","intvolume":"        27","scopus_import":"1","publication":"Journal of Graph Algorithms and Applications","_id":"13969","ddc":["510"],"page":"433-457","publisher":"Brown University","arxiv":1,"language":[{"iso":"eng"}],"file":[{"date_created":"2023-08-07T08:00:48Z","date_updated":"2023-08-07T08:00:48Z","file_name":"2023_JourGraphAlgorithms_Arroyo.pdf","creator":"dernst","content_type":"application/pdf","access_level":"open_access","checksum":"9c30d2b8e324cc1c904f2aeec92013a3","file_size":865774,"success":1,"file_id":"13979","relation":"main_file"}],"date_published":"2023-07-01T00:00:00Z","corr_author":"1","related_material":{"record":[{"id":"11185","status":"public","relation":"earlier_version"}]},"volume":27,"quality_controlled":"1","title":"Approximating the bundled crossing number","author":[{"full_name":"Arroyo Guevara, Alan M","orcid":"0000-0003-2401-8670","last_name":"Arroyo Guevara","first_name":"Alan M","id":"3207FDC6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Felsner, Stefan","first_name":"Stefan","last_name":"Felsner"}]},{"date_updated":"2026-06-18T17:32:17Z","article_processing_charge":"No","oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"BaPi"}],"publication_status":"published","fulldoi":"https://doi.org/10.15227/orgsyn.100.0271","publication_identifier":{"issn":["0078-6209"],"eissn":["2333-3553"]},"doi":"10.15227/orgsyn.100.0271","year":"2023","status":"public","citation":{"mla":"Madani, Amiera, et al. “Visible-Light-Mediated Oxidative Debenzylation of 3-O-Benzyl-1,2:5,6-Di-O-Isopropylidene-α-D-Glucofuranose.” <i>Organic Syntheses</i>, vol. 100, Organic Syntheses, 2023, pp. 271–86, doi:<a href=\"https://doi.org/10.15227/orgsyn.100.0271\">10.15227/orgsyn.100.0271</a>.","chicago":"Madani, Amiera, Eric T. Sletten, Cristian Cavedon, Peter H. Seeberger, and Bartholomäus Pieber. “Visible-Light-Mediated Oxidative Debenzylation of 3-O-Benzyl-1,2:5,6-Di-O-Isopropylidene-α-D-Glucofuranose.” <i>Organic Syntheses</i>. Organic Syntheses, 2023. <a href=\"https://doi.org/10.15227/orgsyn.100.0271\">https://doi.org/10.15227/orgsyn.100.0271</a>.","short":"A. Madani, E.T. Sletten, C. Cavedon, P.H. Seeberger, B. Pieber, Organic Syntheses 100 (2023) 271–286.","ama":"Madani A, Sletten ET, Cavedon C, Seeberger PH, Pieber B. Visible-light-mediated oxidative debenzylation of 3-O-Benzyl-1,2:5,6-di-O-isopropylidene-α-D-glucofuranose. <i>Organic Syntheses</i>. 2023;100:271-286. doi:<a href=\"https://doi.org/10.15227/orgsyn.100.0271\">10.15227/orgsyn.100.0271</a>","ista":"Madani A, Sletten ET, Cavedon C, Seeberger PH, Pieber B. 2023. Visible-light-mediated oxidative debenzylation of 3-O-Benzyl-1,2:5,6-di-O-isopropylidene-α-D-glucofuranose. Organic Syntheses. 100, 271–286.","apa":"Madani, A., Sletten, E. T., Cavedon, C., Seeberger, P. H., &#38; Pieber, B. (2023). Visible-light-mediated oxidative debenzylation of 3-O-Benzyl-1,2:5,6-di-O-isopropylidene-α-D-glucofuranose. <i>Organic Syntheses</i>. Organic Syntheses. <a href=\"https://doi.org/10.15227/orgsyn.100.0271\">https://doi.org/10.15227/orgsyn.100.0271</a>","ieee":"A. Madani, E. T. Sletten, C. Cavedon, P. H. Seeberger, and B. Pieber, “Visible-light-mediated oxidative debenzylation of 3-O-Benzyl-1,2:5,6-di-O-isopropylidene-α-D-glucofuranose,” <i>Organic Syntheses</i>, vol. 100. Organic Syntheses, pp. 271–286, 2023."},"month":"07","main_file_link":[{"open_access":"1","url":"https://doi.org/10.15227/orgsyn.100.0271"}],"type":"journal_article","day":"01","language":[{"iso":"eng"}],"date_published":"2023-07-01T00:00:00Z","corr_author":"1","volume":100,"quality_controlled":"1","title":"Visible-light-mediated oxidative debenzylation of 3-O-Benzyl-1,2:5,6-di-O-isopropylidene-α-D-glucofuranose","author":[{"full_name":"Madani, Amiera","last_name":"Madani","first_name":"Amiera"},{"full_name":"Sletten, Eric T.","first_name":"Eric T.","last_name":"Sletten"},{"last_name":"Cavedon","first_name":"Cristian","full_name":"Cavedon, Cristian"},{"full_name":"Seeberger, Peter H.","last_name":"Seeberger","first_name":"Peter H."},{"id":"93e5e5b2-0da6-11ed-8a41-af589a024726","first_name":"Bartholomäus","last_name":"Pieber","orcid":"0000-0001-8689-388X","full_name":"Pieber, Bartholomäus"}],"article_type":"original","date_created":"2023-08-06T22:01:11Z","oa":1,"scopus_import":"1","intvolume":"       100","publication":"Organic Syntheses","_id":"13970","page":"271-286","ddc":["540"],"publisher":"Organic Syntheses"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"Yes","oa_version":"Published Version","date_updated":"2025-04-14T07:43:56Z","fulldoi":"https://doi.org/10.1038/s41567-023-02136-x","external_id":{"isi":["001037346400005"]},"publication_status":"published","department":[{"_id":"EdHa"},{"_id":"AnSa"},{"_id":"JePa"}],"status":"public","acknowledgement":"D.G. and J.P. thank E. Krasnopeeva, C. Guet, G. Guessous and T. Hwa for providing the E. coli strains. This material is based upon work supported by the US Department of Energy under award DE-SC0019769. I.P. acknowledges funding by the European Union’s Horizon 2020 research and innovation programme under Marie Skłodowska-Curie Grant Agreement No. 101034413. A.Š. acknowledges funding from the European Research Council under the European Union’s Horizon 2020 research and innovation programme (Grant No. 802960). M.C.U. acknowledges funding from the European Union’s Horizon 2020 research and innovation programme under Marie Skłodowska-Curie Grant Agreement No. 754411.","year":"2023","publication_identifier":{"issn":["1745-2473"],"eissn":["1745-2481"]},"doi":"10.1038/s41567-023-02136-x","abstract":[{"text":"When in equilibrium, thermal forces agitate molecules, which then diffuse, collide and bind to form materials. However, the space of accessible structures in which micron-scale particles can be organized by thermal forces is limited, owing to the slow dynamics and metastable states. Active agents in a passive fluid generate forces and flows, forming a bath with active fluctuations. Two unanswered questions are whether those active agents can drive the assembly of passive components into unconventional states and which material properties they will exhibit. Here we show that passive, sticky beads immersed in a bath of swimming Escherichia coli bacteria aggregate into unconventional clusters and gels that are controlled by the activity of the bath. We observe a slow but persistent rotation of the aggregates that originates in the chirality of the E. coli flagella and directs aggregation into structures that are not accessible thermally. We elucidate the aggregation mechanism with a numerical model of spinning, sticky beads and reproduce quantitatively the experimental results. We show that internal activity controls the phase diagram and the structure of the aggregates. Overall, our results highlight the promising role of active baths in designing the structural and mechanical properties of materials with unconventional phases.","lang":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"day":"01","type":"journal_article","file_date_updated":"2024-01-30T12:26:08Z","ec_funded":1,"month":"11","citation":{"chicago":"Grober, Daniel, Ivan Palaia, Mehmet C Ucar, Edouard B Hannezo, Anđela Šarić, and Jérémie A Palacci. “Unconventional Colloidal Aggregation in Chiral Bacterial Baths.” <i>Nature Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41567-023-02136-x\">https://doi.org/10.1038/s41567-023-02136-x</a>.","mla":"Grober, Daniel, et al. “Unconventional Colloidal Aggregation in Chiral Bacterial Baths.” <i>Nature Physics</i>, vol. 19, Springer Nature, 2023, pp. 1680–88, doi:<a href=\"https://doi.org/10.1038/s41567-023-02136-x\">10.1038/s41567-023-02136-x</a>.","short":"D. Grober, I. Palaia, M.C. Ucar, E.B. Hannezo, A. Šarić, J.A. Palacci, Nature Physics 19 (2023) 1680–1688.","ieee":"D. Grober, I. Palaia, M. C. Ucar, E. B. Hannezo, A. Šarić, and J. A. Palacci, “Unconventional colloidal aggregation in chiral bacterial baths,” <i>Nature Physics</i>, vol. 19. Springer Nature, pp. 1680–1688, 2023.","ama":"Grober D, Palaia I, Ucar MC, Hannezo EB, Šarić A, Palacci JA. Unconventional colloidal aggregation in chiral bacterial baths. <i>Nature Physics</i>. 2023;19:1680-1688. doi:<a href=\"https://doi.org/10.1038/s41567-023-02136-x\">10.1038/s41567-023-02136-x</a>","ista":"Grober D, Palaia I, Ucar MC, Hannezo EB, Šarić A, Palacci JA. 2023. Unconventional colloidal aggregation in chiral bacterial baths. Nature Physics. 19, 1680–1688.","apa":"Grober, D., Palaia, I., Ucar, M. C., Hannezo, E. B., Šarić, A., &#38; Palacci, J. A. (2023). Unconventional colloidal aggregation in chiral bacterial baths. <i>Nature Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41567-023-02136-x\">https://doi.org/10.1038/s41567-023-02136-x</a>"},"corr_author":"1","date_published":"2023-11-01T00:00:00Z","file":[{"date_created":"2024-01-30T12:26:08Z","date_updated":"2024-01-30T12:26:08Z","file_name":"2023_NaturePhysics_Grober.pdf","creator":"dernst","content_type":"application/pdf","access_level":"open_access","checksum":"7e282c2ebc0ac82125a04f6b4742d4c1","success":1,"file_size":6365607,"relation":"main_file","file_id":"14906"}],"language":[{"iso":"eng"}],"title":"Unconventional colloidal aggregation in chiral bacterial baths","author":[{"first_name":"Daniel","last_name":"Grober","id":"abdfc56f-34fb-11ee-bd33-fd766fce5a99","full_name":"Grober, Daniel"},{"full_name":"Palaia, Ivan","orcid":" 0000-0002-8843-9485 ","first_name":"Ivan","last_name":"Palaia","id":"9c805cd2-4b75-11ec-a374-db6dd0ed57fa"},{"id":"50B2A802-6007-11E9-A42B-EB23E6697425","first_name":"Mehmet C","last_name":"Ucar","orcid":"0000-0003-0506-4217","full_name":"Ucar, Mehmet C"},{"id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo","first_name":"Edouard B","orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B"},{"orcid":"0000-0002-7854-2139","full_name":"Šarić, Anđela","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","last_name":"Šarić","first_name":"Anđela"},{"id":"8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d","last_name":"Palacci","first_name":"Jérémie A","orcid":"0000-0002-7253-9465","full_name":"Palacci, Jérémie A"}],"quality_controlled":"1","volume":19,"ddc":["530"],"page":"1680-1688","_id":"13971","publication":"Nature Physics","scopus_import":"1","intvolume":"        19","date_created":"2023-08-06T22:01:11Z","oa":1,"has_accepted_license":"1","article_type":"original","project":[{"name":"IST-BRIDGE: International postdoctoral program","call_identifier":"H2020","grant_number":"101034413","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c"},{"name":"Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines","call_identifier":"H2020","grant_number":"802960","_id":"eba2549b-77a9-11ec-83b8-a81e493eae4e"},{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"}],"publisher":"Springer Nature","isi":1},{"title":"Special Collection: Photocatalytic synthesis","author":[{"first_name":"Line","last_name":"Næsborg","full_name":"Næsborg, Line"},{"orcid":"0000-0001-8689-388X","full_name":"Pieber, Bartholomäus","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","last_name":"Pieber","first_name":"Bartholomäus"},{"full_name":"Wenger, Oliver S.","last_name":"Wenger","first_name":"Oliver S."}],"volume":15,"quality_controlled":"1","date_published":"2023-09-08T00:00:00Z","corr_author":"1","language":[{"iso":"eng"}],"isi":1,"publisher":"Wiley","scopus_import":"1","intvolume":"        15","publication":"ChemCatChem","_id":"13972","ddc":["540"],"article_type":"letter_note","oa":1,"date_created":"2023-08-06T22:01:12Z","external_id":{"isi":["001037859900001"]},"fulldoi":"https://doi.org/10.1002/cctc.202300683","department":[{"_id":"BaPi"}],"publication_status":"published","article_processing_charge":"No","oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_number":"e202300683","date_updated":"2026-06-18T17:32:51Z","main_file_link":[{"url":"https://doi.org/10.1002/cctc.202300683","open_access":"1"}],"day":"08","type":"journal_article","citation":{"ama":"Næsborg L, Pieber B, Wenger OS. Special Collection: Photocatalytic synthesis. <i>ChemCatChem</i>. 2023;15(17). doi:<a href=\"https://doi.org/10.1002/cctc.202300683\">10.1002/cctc.202300683</a>","ista":"Næsborg L, Pieber B, Wenger OS. 2023. Special Collection: Photocatalytic synthesis. ChemCatChem. 15(17), e202300683.","ieee":"L. Næsborg, B. Pieber, and O. S. Wenger, “Special Collection: Photocatalytic synthesis,” <i>ChemCatChem</i>, vol. 15, no. 17. Wiley, 2023.","apa":"Næsborg, L., Pieber, B., &#38; Wenger, O. S. (2023). Special Collection: Photocatalytic synthesis. <i>ChemCatChem</i>. Wiley. <a href=\"https://doi.org/10.1002/cctc.202300683\">https://doi.org/10.1002/cctc.202300683</a>","short":"L. Næsborg, B. Pieber, O.S. Wenger, ChemCatChem 15 (2023).","mla":"Næsborg, Line, et al. “Special Collection: Photocatalytic Synthesis.” <i>ChemCatChem</i>, vol. 15, no. 17, e202300683, Wiley, 2023, doi:<a href=\"https://doi.org/10.1002/cctc.202300683\">10.1002/cctc.202300683</a>.","chicago":"Næsborg, Line, Bartholomäus Pieber, and Oliver S. Wenger. “Special Collection: Photocatalytic Synthesis.” <i>ChemCatChem</i>. Wiley, 2023. <a href=\"https://doi.org/10.1002/cctc.202300683\">https://doi.org/10.1002/cctc.202300683</a>."},"month":"09","doi":"10.1002/cctc.202300683","publication_identifier":{"eissn":["1867-3899"],"issn":["1867-3880"]},"year":"2023","status":"public","abstract":[{"text":"This Special Collection is dedicated to the field of photocatalytic synthesis and contains a diverse selection of original research contributions. It includes studies on catalyst development, mechanistic investigations, method development and the use of enabling technologies, illustrating the many facets of state-of-the-art research in photocatalytic synthesis. Further, emerging topics are surveyed and discussed in three reviews and a concept article.","lang":"eng"}],"issue":"17"},{"citation":{"mla":"Wolfsberger, Walter, et al. “Scientists without Borders: Lessons from Ukraine.” <i>GigaScience</i>, vol. 12, giad045, Oxford University Press, 2023, doi:<a href=\"https://doi.org/10.1093/gigascience/giad045\">10.1093/gigascience/giad045</a>.","chicago":"Wolfsberger, Walter, Karishma Chhugani, Khrystyna Shchubelka, Alina Frolova, Yuriy Salyha, Oksana Zlenko, Mykhailo Arych, et al. “Scientists without Borders: Lessons from Ukraine.” <i>GigaScience</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/gigascience/giad045\">https://doi.org/10.1093/gigascience/giad045</a>.","short":"W. Wolfsberger, K. Chhugani, K. Shchubelka, A. Frolova, Y. Salyha, O. Zlenko, M. Arych, D. Dziuba, A. Parkhomenko, V. Smolanka, Z.H. Gümüş, E. Sezgin, A. Diaz-Lameiro, V.R. Toth, M. Maci, E. Bortz, F. Kondrashov, P.M. Morton, P.P. Łabaj, V. Romero, J. Hlávka, S. Mangul, T.K. Oleksyk, GigaScience 12 (2023).","ista":"Wolfsberger W, Chhugani K, Shchubelka K, Frolova A, Salyha Y, Zlenko O, Arych M, Dziuba D, Parkhomenko A, Smolanka V, Gümüş ZH, Sezgin E, Diaz-Lameiro A, Toth VR, Maci M, Bortz E, Kondrashov F, Morton PM, Łabaj PP, Romero V, Hlávka J, Mangul S, Oleksyk TK. 2023. Scientists without borders: Lessons from Ukraine. GigaScience. 12, giad045.","ama":"Wolfsberger W, Chhugani K, Shchubelka K, et al. Scientists without borders: Lessons from Ukraine. <i>GigaScience</i>. 2023;12. doi:<a href=\"https://doi.org/10.1093/gigascience/giad045\">10.1093/gigascience/giad045</a>","ieee":"W. Wolfsberger <i>et al.</i>, “Scientists without borders: Lessons from Ukraine,” <i>GigaScience</i>, vol. 12. Oxford University Press, 2023.","apa":"Wolfsberger, W., Chhugani, K., Shchubelka, K., Frolova, A., Salyha, Y., Zlenko, O., … Oleksyk, T. K. (2023). Scientists without borders: Lessons from Ukraine. <i>GigaScience</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/gigascience/giad045\">https://doi.org/10.1093/gigascience/giad045</a>"},"month":"07","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1093/gigascience/giad045"}],"type":"journal_article","day":"27","abstract":[{"lang":"eng","text":"Conflicts and natural disasters affect entire populations of the countries involved and, in addition to the thousands of lives destroyed, have a substantial negative impact on the scientific advances these countries provide. The unprovoked invasion of Ukraine by Russia, the devastating earthquake in Turkey and Syria, and the ongoing conflicts in the Middle East are just a few examples. Millions of people have been killed or displaced, their futures uncertain. These events have resulted in extensive infrastructure collapse, with loss of electricity, transportation, and access to services. Schools, universities, and research centers have been destroyed along with decades’ worth of data, samples, and findings. Scholars in disaster areas face short- and long-term problems in terms of what they can accomplish now for obtaining grants and for employment in the long run. In our interconnected world, conflicts and disasters are no longer a local problem but have wide-ranging impacts on the entire world, both now and in the future. Here, we focus on the current and ongoing impact of war on the scientific community within Ukraine and from this draw lessons that can be applied to all affected countries where scientists at risk are facing hardship. We present and classify examples of effective and feasible mechanisms used to support researchers in countries facing hardship and discuss how these can be implemented with help from the international scientific community and what more is desperately needed. Reaching out, providing accessible training opportunities, and developing collaborations should increase inclusion and connectivity, support scientific advancements within affected communities, and expedite postwar and disaster recovery."}],"doi":"10.1093/gigascience/giad045","publication_identifier":{"eissn":["2047-217X"]},"acknowledgement":"Our article is dedicated to all freedom-loving people around the world and to the people of Ukraine who fight for our freedom. Special thanks to Anita Bandrowski, Oleksandra V. Ivashchenko, and Sanita Reinsone for the helpful review, valuable criticism, and useful suggestions while preparing this manuscript, and to Tetiana Yes'kova for helping with Ukrainian translation.\r\nAll authors volunteered their time. No funding supported work on this article.","status":"public","year":"2023","department":[{"_id":"FyKo"}],"publication_status":"published","external_id":{"isi":["001081086100001"],"pmid":["37496156"]},"fulldoi":"https://doi.org/10.1093/gigascience/giad045","date_updated":"2026-06-18T17:33:34Z","article_number":"giad045","article_processing_charge":"Yes","oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","isi":1,"publisher":"Oxford University Press","article_type":"review","oa":1,"date_created":"2023-08-06T22:01:13Z","publication":"GigaScience","intvolume":"        12","scopus_import":"1","ddc":["000"],"_id":"13976","quality_controlled":"1","pmid":1,"volume":12,"title":"Scientists without borders: Lessons from Ukraine","author":[{"full_name":"Wolfsberger, Walter","first_name":"Walter","last_name":"Wolfsberger"},{"last_name":"Chhugani","first_name":"Karishma","full_name":"Chhugani, Karishma"},{"last_name":"Shchubelka","first_name":"Khrystyna","full_name":"Shchubelka, Khrystyna"},{"last_name":"Frolova","first_name":"Alina","full_name":"Frolova, Alina"},{"last_name":"Salyha","first_name":"Yuriy","full_name":"Salyha, Yuriy"},{"first_name":"Oksana","last_name":"Zlenko","full_name":"Zlenko, Oksana"},{"last_name":"Arych","first_name":"Mykhailo","full_name":"Arych, Mykhailo"},{"full_name":"Dziuba, Dmytro","last_name":"Dziuba","first_name":"Dmytro"},{"full_name":"Parkhomenko, Andrii","first_name":"Andrii","last_name":"Parkhomenko"},{"first_name":"Volodymyr","last_name":"Smolanka","full_name":"Smolanka, Volodymyr"},{"full_name":"Gümüş, Zeynep H.","first_name":"Zeynep H.","last_name":"Gümüş"},{"last_name":"Sezgin","first_name":"Efe","full_name":"Sezgin, Efe"},{"first_name":"Alondra","last_name":"Diaz-Lameiro","full_name":"Diaz-Lameiro, Alondra"},{"last_name":"Toth","first_name":"Viktor R.","full_name":"Toth, Viktor R."},{"last_name":"Maci","first_name":"Megi","full_name":"Maci, Megi"},{"full_name":"Bortz, Eric","first_name":"Eric","last_name":"Bortz"},{"first_name":"Fyodor","last_name":"Kondrashov","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","full_name":"Kondrashov, Fyodor","orcid":"0000-0001-8243-4694"},{"last_name":"Morton","first_name":"Patricia M.","full_name":"Morton, Patricia M."},{"first_name":"Paweł P.","last_name":"Łabaj","full_name":"Łabaj, Paweł P."},{"last_name":"Romero","first_name":"Veronika","full_name":"Romero, Veronika"},{"first_name":"Jakub","last_name":"Hlávka","full_name":"Hlávka, Jakub"},{"last_name":"Mangul","first_name":"Serghei","full_name":"Mangul, Serghei"},{"last_name":"Oleksyk","first_name":"Taras K.","full_name":"Oleksyk, Taras K."}],"language":[{"iso":"eng"}],"date_published":"2023-07-27T00:00:00Z","related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1093/gigascience/giad066"}]}},{"file_date_updated":"2023-08-14T07:43:45Z","day":"31","type":"journal_article","ec_funded":1,"month":"07","citation":{"ista":"Vardi O, Maroudas-Sklare N, Kolodny Y, Volosniev A, Saragovi A, Galili N, Ferrera S, Ghazaryan A, Yuran N, Affek HP, Luz B, Goldsmith Y, Keren N, Yochelis S, Halevy I, Lemeshko M, Paltiel Y. 2023. Nuclear spin effects in biological processes. Proceedings of the National Academy of Sciences of the United States of America. 120(32), e2300828120.","ama":"Vardi O, Maroudas-Sklare N, Kolodny Y, et al. Nuclear spin effects in biological processes. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2023;120(32). doi:<a href=\"https://doi.org/10.1073/pnas.2300828120\">10.1073/pnas.2300828120</a>","ieee":"O. Vardi <i>et al.</i>, “Nuclear spin effects in biological processes,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 120, no. 32. National Academy of Sciences, 2023.","apa":"Vardi, O., Maroudas-Sklare, N., Kolodny, Y., Volosniev, A., Saragovi, A., Galili, N., … Paltiel, Y. (2023). Nuclear spin effects in biological processes. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2300828120\">https://doi.org/10.1073/pnas.2300828120</a>","short":"O. Vardi, N. Maroudas-Sklare, Y. Kolodny, A. Volosniev, A. Saragovi, N. Galili, S. Ferrera, A. Ghazaryan, N. Yuran, H.P. Affek, B. Luz, Y. Goldsmith, N. Keren, S. Yochelis, I. Halevy, M. Lemeshko, Y. Paltiel, Proceedings of the National Academy of Sciences of the United States of America 120 (2023).","chicago":"Vardi, Ofek, Naama Maroudas-Sklare, Yuval Kolodny, Artem Volosniev, Amijai Saragovi, Nir Galili, Stav Ferrera, et al. “Nuclear Spin Effects in Biological Processes.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2023. <a href=\"https://doi.org/10.1073/pnas.2300828120\">https://doi.org/10.1073/pnas.2300828120</a>.","mla":"Vardi, Ofek, et al. “Nuclear Spin Effects in Biological Processes.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 120, no. 32, e2300828120, National Academy of Sciences, 2023, doi:<a href=\"https://doi.org/10.1073/pnas.2300828120\">10.1073/pnas.2300828120</a>."},"year":"2023","acknowledgement":"N.M.-S. acknowledges the support of the Ministry of Energy, Israel, as part of the scholarship program for graduate students in the fields of energy. M.L. acknowledges support by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). Y.P. acknowledges the support of the Ministry of Innovation, Science and Technology, Israel Grant No. 1001593872. Y.P acknowledges the support of the BSF-NSF 094 Grant No. 2022503.","status":"public","publication_identifier":{"eissn":["1091-6490"]},"doi":"10.1073/pnas.2300828120","abstract":[{"text":"Traditionally, nuclear spin is not considered to affect biological processes. Recently, this has changed as isotopic fractionation that deviates from classical mass dependence was reported both in vitro and in vivo. In these cases, the isotopic effect correlates with the nuclear magnetic spin. Here, we show nuclear spin effects using stable oxygen isotopes (16O, 17O, and 18O) in two separate setups: an artificial dioxygen production system and biological aquaporin channels in cells. We observe that oxygen dynamics in chiral environments (in particular its transport) depend on nuclear spin, suggesting future applications for controlled isotope separation to be used, for instance, in NMR. To demonstrate the mechanism behind our findings, we formulate theoretical models based on a nuclear-spin-enhanced switch between electronic spin states. Accounting for the role of nuclear spin in biology can provide insights into the role of quantum effects in living systems and help inspire the development of future biotechnology solutions.","lang":"eng"}],"issue":"32","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","short":"CC BY-NC-ND (4.0)"},"fulldoi":"https://doi.org/10.1073/pnas.2300828120","external_id":{"isi":["001121663600001"],"pmid":["37523549"]},"publication_status":"published","department":[{"_id":"MiLe"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa_version":"Published Version","article_processing_charge":"Yes (in subscription journal)","article_number":"e2300828120","date_updated":"2025-09-09T12:47:53Z","publisher":"National Academy of Sciences","isi":1,"_id":"14037","ddc":["530"],"scopus_import":"1","intvolume":"       120","publication":"Proceedings of the National Academy of Sciences of the United States of America","date_created":"2023-08-13T22:01:12Z","oa":1,"article_type":"original","project":[{"grant_number":"801770","_id":"2688CF98-B435-11E9-9278-68D0E5697425","name":"Angulon: physics and applications of a new quasiparticle","call_identifier":"H2020"}],"has_accepted_license":"1","author":[{"first_name":"Ofek","last_name":"Vardi","full_name":"Vardi, Ofek"},{"last_name":"Maroudas-Sklare","first_name":"Naama","full_name":"Maroudas-Sklare, Naama"},{"first_name":"Yuval","last_name":"Kolodny","full_name":"Kolodny, Yuval"},{"orcid":"0000-0003-0393-5525","full_name":"Volosniev, Artem","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","first_name":"Artem","last_name":"Volosniev"},{"first_name":"Amijai","last_name":"Saragovi","full_name":"Saragovi, Amijai"},{"first_name":"Nir","last_name":"Galili","full_name":"Galili, Nir"},{"full_name":"Ferrera, Stav","last_name":"Ferrera","first_name":"Stav"},{"last_name":"Ghazaryan","first_name":"Areg","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","full_name":"Ghazaryan, Areg","orcid":"0000-0001-9666-3543"},{"last_name":"Yuran","first_name":"Nir","full_name":"Yuran, Nir"},{"last_name":"Affek","first_name":"Hagit P.","full_name":"Affek, Hagit P."},{"last_name":"Luz","first_name":"Boaz","full_name":"Luz, Boaz"},{"full_name":"Goldsmith, Yonaton","last_name":"Goldsmith","first_name":"Yonaton"},{"full_name":"Keren, Nir","first_name":"Nir","last_name":"Keren"},{"last_name":"Yochelis","first_name":"Shira","full_name":"Yochelis, Shira"},{"full_name":"Halevy, Itay","last_name":"Halevy","first_name":"Itay"},{"first_name":"Mikhail","last_name":"Lemeshko","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","full_name":"Lemeshko, Mikhail","orcid":"0000-0002-6990-7802"},{"last_name":"Paltiel","first_name":"Yossi","full_name":"Paltiel, Yossi"}],"title":"Nuclear spin effects in biological processes","volume":120,"quality_controlled":"1","pmid":1,"file":[{"date_updated":"2023-08-14T07:43:45Z","date_created":"2023-08-14T07:43:45Z","file_name":"2023_PNAS_Vardi.pdf","creator":"dernst","content_type":"application/pdf","access_level":"open_access","checksum":"a5ed64788a5acef9b9a300a26fa5a177","file_size":1003092,"success":1,"relation":"main_file","file_id":"14047"}],"date_published":"2023-07-31T00:00:00Z","language":[{"iso":"eng"}]},{"date_created":"2023-08-13T22:01:12Z","oa":1,"project":[{"name":"In vitro reconstitution of bacterial cell division","_id":"fc38323b-9c52-11eb-aca3-ff8afb4a011d","grant_number":"P34607"},{"grant_number":"101045340","_id":"bd6ae2ca-d553-11ed-ba76-a4aa239da5ee","name":"Synthetic and structural biology of Rab GTPase networks"}],"article_type":"original","has_accepted_license":"1","_id":"14039","ddc":["570"],"page":"1315-1332","scopus_import":"1","intvolume":"        58","publication":"Developmental Cell","isi":1,"publisher":"Elsevier","language":[{"iso":"eng"}],"file":[{"file_name":"2023_DevelopmentalCell_Leonard.pdf","creator":"dernst","content_type":"application/pdf","date_updated":"2023-08-14T07:57:55Z","date_created":"2023-08-14T07:57:55Z","file_size":3184217,"success":1,"relation":"main_file","file_id":"14049","checksum":"d8c5dc97cd40c26da2ec98ae723ab368","access_level":"open_access"}],"date_published":"2023-08-07T00:00:00Z","corr_author":"1","volume":58,"quality_controlled":"1","pmid":1,"title":"The membrane surface as a platform that organizes cellular and biochemical processes","author":[{"full_name":"Leonard, Thomas A.","last_name":"Leonard","first_name":"Thomas A."},{"orcid":"0000-0001-7309-9724","full_name":"Loose, Martin","id":"462D4284-F248-11E8-B48F-1D18A9856A87","last_name":"Loose","first_name":"Martin"},{"full_name":"Martens, Sascha","first_name":"Sascha","last_name":"Martens"}],"abstract":[{"text":"Membranes are essential for life. They act as semi-permeable boundaries that define cells and organelles. In addition, their surfaces actively participate in biochemical reaction networks, where they confine proteins, align reaction partners, and directly control enzymatic activities. Membrane-localized reactions shape cellular membranes, define the identity of organelles, compartmentalize biochemical processes, and can even be the source of signaling gradients that originate at the plasma membrane and reach into the cytoplasm and nucleus. The membrane surface is, therefore, an essential platform upon which myriad cellular processes are scaffolded. In this review, we summarize our current understanding of the biophysics and biochemistry of membrane-localized reactions with particular focus on insights derived from reconstituted and cellular systems. We discuss how the interplay of cellular factors results in their self-organization, condensation, assembly, and activity, and the emergent properties derived from them.","lang":"eng"}],"issue":"15","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"year":"2023","acknowledgement":"We acknowledge funding from the Austrian Science Fund (FWF F79, P32814-B, and P35061-B to S.M.; P34607-B to M.L.; and P30584-B and P33066-B to T.A.L.) and the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 101045340 to M.L.). We are grateful for comments on the manuscript by Justyna Sawa-Makarska, Verena Baumann, Marko Kojic, Philipp Radler, Ronja Reinhardt, and Sumire Antonioli.","status":"public","publication_identifier":{"issn":["1534-5807"],"eissn":["1878-1551"]},"doi":"10.1016/j.devcel.2023.06.001","month":"08","citation":{"ama":"Leonard TA, Loose M, Martens S. The membrane surface as a platform that organizes cellular and biochemical processes. <i>Developmental Cell</i>. 2023;58(15):1315-1332. doi:<a href=\"https://doi.org/10.1016/j.devcel.2023.06.001\">10.1016/j.devcel.2023.06.001</a>","ista":"Leonard TA, Loose M, Martens S. 2023. The membrane surface as a platform that organizes cellular and biochemical processes. Developmental Cell. 58(15), 1315–1332.","ieee":"T. A. Leonard, M. Loose, and S. Martens, “The membrane surface as a platform that organizes cellular and biochemical processes,” <i>Developmental Cell</i>, vol. 58, no. 15. Elsevier, pp. 1315–1332, 2023.","apa":"Leonard, T. A., Loose, M., &#38; Martens, S. (2023). The membrane surface as a platform that organizes cellular and biochemical processes. <i>Developmental Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.devcel.2023.06.001\">https://doi.org/10.1016/j.devcel.2023.06.001</a>","chicago":"Leonard, Thomas A., Martin Loose, and Sascha Martens. “The Membrane Surface as a Platform That Organizes Cellular and Biochemical Processes.” <i>Developmental Cell</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.devcel.2023.06.001\">https://doi.org/10.1016/j.devcel.2023.06.001</a>.","mla":"Leonard, Thomas A., et al. “The Membrane Surface as a Platform That Organizes Cellular and Biochemical Processes.” <i>Developmental Cell</i>, vol. 58, no. 15, Elsevier, 2023, pp. 1315–32, doi:<a href=\"https://doi.org/10.1016/j.devcel.2023.06.001\">10.1016/j.devcel.2023.06.001</a>.","short":"T.A. Leonard, M. Loose, S. Martens, Developmental Cell 58 (2023) 1315–1332."},"file_date_updated":"2023-08-14T07:57:55Z","type":"journal_article","day":"07","date_updated":"2024-10-22T11:40:18Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","article_processing_charge":"Yes (via OA deal)","publication_status":"published","department":[{"_id":"MaLo"}],"fulldoi":"https://doi.org/10.1016/j.devcel.2023.06.001","external_id":{"pmid":["37419118"],"isi":["001059110400001"]}},{"year":"2023","acknowledgement":"P.J.N. and J.W.M. are grateful for the support of the Biotechnology & Biological Sciences Research Council (awards BB/L003260/1 and BB/P00931X/1). J. Knoppová, R.S. and J. Komenda were supported by the Czech Science Foundation (project 19-29225X) and by ERC project Photoredesign (no. 854126) and L.A.S. was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by the Electron Microscopy Facility (EMF), the Life Science Facility (LSF) and the IST high-performance computing cluster.","status":"public","publication_identifier":{"eissn":["2041-1723"]},"doi":"10.1038/s41467-023-40388-6","abstract":[{"lang":"eng","text":"Robust oxygenic photosynthesis requires a suite of accessory factors to ensure efficient assembly and repair of the oxygen-evolving photosystem two (PSII) complex. The highly conserved Ycf48 assembly factor binds to the newly synthesized D1 reaction center polypeptide and promotes the initial steps of PSII assembly, but its binding site is unclear. Here we use cryo-electron microscopy to determine the structure of a cyanobacterial PSII D1/D2 reaction center assembly complex with Ycf48 attached. Ycf48, a 7-bladed beta propeller, binds to the amino-acid residues of D1 that ultimately ligate the water-oxidising Mn4CaO5 cluster, thereby preventing the premature binding of Mn2+ and Ca2+ ions and protecting the site from damage. Interactions with D2 help explain how Ycf48 promotes assembly of the D1/D2 complex. Overall, our work provides valuable insights into the early stages of PSII assembly and the structural changes that create the binding site for the Mn4CaO5 cluster."}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"file_date_updated":"2023-08-14T07:01:12Z","day":"04","type":"journal_article","month":"08","citation":{"short":"Z. Zhao, I. Vercellino, J. Knoppová, R. Sobotka, J.W. Murray, P.J. Nixon, L.A. Sazanov, J. Komenda, Nature Communications 14 (2023).","chicago":"Zhao, Ziyu, Irene Vercellino, Jana Knoppová, Roman Sobotka, James W. Murray, Peter J. Nixon, Leonid A Sazanov, and Josef Komenda. “The Ycf48 Accessory Factor Occupies the Site of the Oxygen-Evolving Manganese Cluster during Photosystem II Biogenesis.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-40388-6\">https://doi.org/10.1038/s41467-023-40388-6</a>.","mla":"Zhao, Ziyu, et al. “The Ycf48 Accessory Factor Occupies the Site of the Oxygen-Evolving Manganese Cluster during Photosystem II Biogenesis.” <i>Nature Communications</i>, vol. 14, 4681, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-40388-6\">10.1038/s41467-023-40388-6</a>.","ama":"Zhao Z, Vercellino I, Knoppová J, et al. The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-40388-6\">10.1038/s41467-023-40388-6</a>","ista":"Zhao Z, Vercellino I, Knoppová J, Sobotka R, Murray JW, Nixon PJ, Sazanov LA, Komenda J. 2023. The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis. Nature Communications. 14, 4681.","ieee":"Z. Zhao <i>et al.</i>, “The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","apa":"Zhao, Z., Vercellino, I., Knoppová, J., Sobotka, R., Murray, J. W., Nixon, P. J., … Komenda, J. (2023). The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-40388-6\">https://doi.org/10.1038/s41467-023-40388-6</a>"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","article_processing_charge":"Yes","article_number":"4681","date_updated":"2025-04-23T13:05:33Z","fulldoi":"https://doi.org/10.1038/s41467-023-40388-6","external_id":{"pmid":["37542031"],"isi":["001042606700004"]},"publication_status":"published","department":[{"_id":"LeSa"}],"_id":"14040","ddc":["570"],"scopus_import":"1","intvolume":"        14","publication":"Nature Communications","oa":1,"date_created":"2023-08-13T22:01:13Z","article_type":"original","has_accepted_license":"1","isi":1,"publisher":"Springer Nature","file":[{"creator":"dernst","file_name":"2023_NatureComm_Zhao.pdf","content_type":"application/pdf","date_updated":"2023-08-14T07:01:12Z","date_created":"2023-08-14T07:01:12Z","file_size":2315325,"success":1,"relation":"main_file","file_id":"14044","access_level":"open_access","checksum":"3b9043df3d51c300f9be95eac3ff9d0b"}],"date_published":"2023-08-04T00:00:00Z","corr_author":"1","language":[{"iso":"eng"}],"title":"The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis","author":[{"last_name":"Zhao","first_name":"Ziyu","full_name":"Zhao, Ziyu"},{"full_name":"Vercellino, Irene","orcid":"0000-0001-5618-3449","first_name":"Irene","last_name":"Vercellino","id":"3ED6AF16-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Knoppová, Jana","first_name":"Jana","last_name":"Knoppová"},{"full_name":"Sobotka, Roman","last_name":"Sobotka","first_name":"Roman"},{"full_name":"Murray, James W.","last_name":"Murray","first_name":"James W."},{"full_name":"Nixon, Peter J.","last_name":"Nixon","first_name":"Peter J."},{"last_name":"Sazanov","first_name":"Leonid A","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","full_name":"Sazanov, Leonid A","orcid":"0000-0002-0977-7989"},{"full_name":"Komenda, Josef","last_name":"Komenda","first_name":"Josef"}],"acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"LifeSc"},{"_id":"ScienComp"}],"volume":14,"quality_controlled":"1","pmid":1},{"month":"08","citation":{"short":"E. Méhes, E. Mones, M. Varga, Á. Zsigmond, B. Biri-Kovács, L. Nyitray, V. Barone, G. Krens, C.-P.J. Heisenberg, T. Vicsek, Communications Biology 6 (2023).","mla":"Méhes, Elod, et al. “3D Cell Segregation Geometry and Dynamics Are Governed by Tissue Surface Tension Regulation.” <i>Communications Biology</i>, vol. 6, 817, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s42003-023-05181-7\">10.1038/s42003-023-05181-7</a>.","chicago":"Méhes, Elod, Enys Mones, Máté Varga, Áron Zsigmond, Beáta Biri-Kovács, László Nyitray, Vanessa Barone, Gabriel Krens, Carl-Philipp J Heisenberg, and Tamás Vicsek. “3D Cell Segregation Geometry and Dynamics Are Governed by Tissue Surface Tension Regulation.” <i>Communications Biology</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s42003-023-05181-7\">https://doi.org/10.1038/s42003-023-05181-7</a>.","apa":"Méhes, E., Mones, E., Varga, M., Zsigmond, Á., Biri-Kovács, B., Nyitray, L., … Vicsek, T. (2023). 3D cell segregation geometry and dynamics are governed by tissue surface tension regulation. <i>Communications Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s42003-023-05181-7\">https://doi.org/10.1038/s42003-023-05181-7</a>","ieee":"E. Méhes <i>et al.</i>, “3D cell segregation geometry and dynamics are governed by tissue surface tension regulation,” <i>Communications Biology</i>, vol. 6. Springer Nature, 2023.","ama":"Méhes E, Mones E, Varga M, et al. 3D cell segregation geometry and dynamics are governed by tissue surface tension regulation. <i>Communications Biology</i>. 2023;6. doi:<a href=\"https://doi.org/10.1038/s42003-023-05181-7\">10.1038/s42003-023-05181-7</a>","ista":"Méhes E, Mones E, Varga M, Zsigmond Á, Biri-Kovács B, Nyitray L, Barone V, Krens G, Heisenberg C-PJ, Vicsek T. 2023. 3D cell segregation geometry and dynamics are governed by tissue surface tension regulation. Communications Biology. 6, 817."},"type":"journal_article","day":"04","file_date_updated":"2023-08-14T07:17:36Z","abstract":[{"lang":"eng","text":"Tissue morphogenesis and patterning during development involve the segregation of cell types. Segregation is driven by differential tissue surface tensions generated by cell types through controlling cell-cell contact formation by regulating adhesion and actomyosin contractility-based cellular cortical tensions. We use vertebrate tissue cell types and zebrafish germ layer progenitors as in vitro models of 3-dimensional heterotypic segregation and developed a quantitative analysis of their dynamics based on 3D time-lapse microscopy. We show that general inhibition of actomyosin contractility by the Rho kinase inhibitor Y27632 delays segregation. Cell type-specific inhibition of non-muscle myosin2 activity by overexpression of myosin assembly inhibitor S100A4 reduces tissue surface tension, manifested in decreased compaction during aggregation and inverted geometry observed during segregation. The same is observed when we express a constitutively active Rho kinase isoform to ubiquitously keep actomyosin contractility high at cell-cell and cell-medium interfaces and thus overriding the interface-specific regulation of cortical tensions. Tissue surface tension regulation can become an effective tool in tissue engineering."}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"acknowledgement":"We thank Marton Gulyas (ELTE Eötvös University) for development of videomicroscopy experiment manager and image analysis software. Authors are grateful to Gabor Forgacs (University of Missouri) for critical reading of earlier versions of this manuscript as well as to Zsuzsa Akos and Andras Czirok (ELTE Eötvös University) for fruitful discussions. This work was supported by EU FP7, ERC COLLMOT Project No 227878 to TV, the National Research Development and Innovation Fund of Hungary, K119359 and also Project No 2018-1.2.1-NKP-2018-00005 to LN. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No 955576. MV was supported by the Ja´nos Bolyai Fellowship of the Hungarian Academy of Sciences.\r\nOpen access funding provided by Eötvös Loránd University.","status":"public","year":"2023","doi":"10.1038/s42003-023-05181-7","publication_identifier":{"eissn":["2399-3642"]},"publication_status":"published","department":[{"_id":"CaHe"},{"_id":"Bio"}],"fulldoi":"https://doi.org/10.1038/s42003-023-05181-7","external_id":{"pmid":["37542157"],"isi":["001042544100001"]},"date_updated":"2023-12-13T12:07:33Z","article_number":"817","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"Yes","oa_version":"Published Version","publisher":"Springer Nature","isi":1,"date_created":"2023-08-13T22:01:13Z","oa":1,"has_accepted_license":"1","article_type":"original","ddc":["570"],"_id":"14041","publication":"Communications Biology","scopus_import":"1","intvolume":"         6","pmid":1,"quality_controlled":"1","volume":6,"title":"3D cell segregation geometry and dynamics are governed by tissue surface tension regulation","author":[{"last_name":"Méhes","first_name":"Elod","full_name":"Méhes, Elod"},{"full_name":"Mones, Enys","last_name":"Mones","first_name":"Enys"},{"last_name":"Varga","first_name":"Máté","full_name":"Varga, Máté"},{"first_name":"Áron","last_name":"Zsigmond","full_name":"Zsigmond, Áron"},{"last_name":"Biri-Kovács","first_name":"Beáta","full_name":"Biri-Kovács, Beáta"},{"full_name":"Nyitray, László","first_name":"László","last_name":"Nyitray"},{"id":"419EECCC-F248-11E8-B48F-1D18A9856A87","first_name":"Vanessa","last_name":"Barone","orcid":"0000-0003-2676-3367","full_name":"Barone, Vanessa"},{"full_name":"Krens, Gabriel","orcid":"0000-0003-4761-5996","last_name":"Krens","first_name":"Gabriel","id":"2B819732-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-0912-4566","full_name":"Heisenberg, Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87","first_name":"Carl-Philipp J","last_name":"Heisenberg"},{"full_name":"Vicsek, Tamás","first_name":"Tamás","last_name":"Vicsek"}],"language":[{"iso":"eng"}],"date_published":"2023-08-04T00:00:00Z","file":[{"access_level":"open_access","checksum":"1f9324f736bdbb76426b07736651c4cd","relation":"main_file","file_id":"14045","success":1,"file_size":10181997,"date_created":"2023-08-14T07:17:36Z","date_updated":"2023-08-14T07:17:36Z","content_type":"application/pdf","creator":"dernst","file_name":"2023_CommBiology_Mehes.pdf"}]},{"date_updated":"2025-04-15T06:24:05Z","oa_version":"Preprint","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"MoHe"}],"publication_status":"published","external_id":{"isi":["001041254900002"],"arxiv":["2010.16316"]},"fulldoi":"https://doi.org/10.1007/s00453-023-01154-8","abstract":[{"lang":"eng","text":"Over the last two decades, a significant line of work in theoretical algorithms has made progress in solving linear systems of the form Lx=b, where L is the Laplacian matrix of a weighted graph with weights w(i,j)>0 on the edges. The solution x of the linear system can be interpreted as the potentials of an electrical flow in which the resistance on edge (i, j) is 1/w(i, j). Kelner et al. (in: Proceedings of the 45th Annual ACM Symposium on the Theory of Computing, pp 911–920, 2013. https://doi.org/10.1145/2488608.2488724) give a combinatorial, near-linear time algorithm that maintains the Kirchoff Current Law, and gradually enforces the Kirchoff Potential Law by updating flows around cycles (cycle toggling). In this paper, we consider a dual version of the algorithm that maintains the Kirchoff Potential Law, and gradually enforces the Kirchoff Current Law by cut toggling: each iteration updates all potentials on one side of a fundamental cut of a spanning tree by the same amount. We prove that this dual algorithm also runs in a near-linear number of iterations. We show, however, that if we abstract cut toggling as a natural data structure problem, this problem can be reduced to the online vector–matrix-vector problem, which has been conjectured to be difficult for dynamic algorithms (Henzinger et al., in: Proceedings of the 47th Annual ACM Symposium on the Theory of Computing, pp 21–30, 2015. https://doi.org/10.1145/2746539.2746609). The conjecture implies that the data structure does not have an O(n1−ϵ) time algorithm for any ϵ>0, and thus a straightforward implementation of the cut-toggling algorithm requires essentially linear time per iteration. To circumvent the lower bound, we batch update steps, and perform them simultaneously instead of sequentially. An appropriate choice of batching leads to an O˜(m1.5) time cut-toggling algorithm for solving Laplacian systems. Furthermore, we show that if we sparsify the graph and call our algorithm recursively on the Laplacian system implied by batching and sparsifying, we can reduce the running time to O(m1+ϵ) for any ϵ>0. Thus, the dual cut-toggling algorithm can achieve (almost) the same running time as its primal cycle-toggling counterpart."}],"publication_identifier":{"eissn":["1432-0541"],"issn":["0178-4617"]},"doi":"10.1007/s00453-023-01154-8","acknowledgement":"Monika Henzinger was supported by funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme Grant agreement No. 101019564 “The Design of Modern Fully Dynamic Data Structures (MoDynStruct)” and from the Austrian Science Fund (FWF) project “Fast Algorithms for a Reactive Network Layer (ReactNet)”, P 33775-N, with additional funding from the netidee SCIENCE Stiftung, 2020–2024. Billy Jin was Supported in part by NSERC fellowship PGSD3-532673-2019 and NSF grant CCF-2007009. Richard Peng was supported in part by an NSERC Discovery Grant and NSF grant CCF-1846218. David P. Williamson was supported in part by NSF grant CCF-2007009.","status":"public","year":"2023","citation":{"mla":"Henzinger, Monika, et al. “A Combinatorial Cut-Toggling Algorithm for Solving Laplacian Linear Systems.” <i>Algorithmica</i>, vol. 85, Springer Nature, 2023, pp. 2680–3716, doi:<a href=\"https://doi.org/10.1007/s00453-023-01154-8\">10.1007/s00453-023-01154-8</a>.","chicago":"Henzinger, Monika, Billy Jin, Richard Peng, and David P. Williamson. “A Combinatorial Cut-Toggling Algorithm for Solving Laplacian Linear Systems.” <i>Algorithmica</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00453-023-01154-8\">https://doi.org/10.1007/s00453-023-01154-8</a>.","short":"M. Henzinger, B. Jin, R. Peng, D.P. Williamson, Algorithmica 85 (2023) 2680–3716.","ista":"Henzinger M, Jin B, Peng R, Williamson DP. 2023. A combinatorial cut-toggling algorithm for solving Laplacian linear systems. Algorithmica. 85, 2680–3716.","apa":"Henzinger, M., Jin, B., Peng, R., &#38; Williamson, D. P. (2023). A combinatorial cut-toggling algorithm for solving Laplacian linear systems. <i>Algorithmica</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00453-023-01154-8\">https://doi.org/10.1007/s00453-023-01154-8</a>","ama":"Henzinger M, Jin B, Peng R, Williamson DP. A combinatorial cut-toggling algorithm for solving Laplacian linear systems. <i>Algorithmica</i>. 2023;85:2680-3716. doi:<a href=\"https://doi.org/10.1007/s00453-023-01154-8\">10.1007/s00453-023-01154-8</a>","ieee":"M. Henzinger, B. Jin, R. Peng, and D. P. Williamson, “A combinatorial cut-toggling algorithm for solving Laplacian linear systems,” <i>Algorithmica</i>, vol. 85. Springer Nature, pp. 2680–3716, 2023."},"month":"12","ec_funded":1,"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2010.16316","open_access":"1"}],"type":"journal_article","day":"01","language":[{"iso":"eng"}],"arxiv":1,"date_published":"2023-12-01T00:00:00Z","quality_controlled":"1","volume":85,"author":[{"last_name":"Henzinger","first_name":"Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","full_name":"Henzinger, Monika H","orcid":"0000-0002-5008-6530"},{"last_name":"Jin","first_name":"Billy","full_name":"Jin, Billy"},{"full_name":"Peng, Richard","last_name":"Peng","first_name":"Richard"},{"first_name":"David P.","last_name":"Williamson","full_name":"Williamson, David P."}],"title":"A combinatorial cut-toggling algorithm for solving Laplacian linear systems","project":[{"grant_number":"101019564","_id":"bd9ca328-d553-11ed-ba76-dc4f890cfe62","name":"The design and evaluation of modern fully dynamic data structures","call_identifier":"H2020"},{"name":"Fast Algorithms for a Reactive Network Layer","_id":"bd9e3a2e-d553-11ed-ba76-8aa684ce17fe","grant_number":"P33775"}],"article_type":"original","oa":1,"date_created":"2023-08-13T22:01:13Z","publication":"Algorithmica","scopus_import":"1","intvolume":"        85","page":"2680-3716","_id":"14043","isi":1,"publisher":"Springer Nature"},{"supervisor":[{"orcid":"0000-0002-4579-8306","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","last_name":"Vicoso"},{"full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","first_name":"Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"OA_place":"publisher","title":"The molecular basis of sexual dimorphism: Experimental and theoretical characterization of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation","author":[{"orcid":"0000-0001-8330-1754","full_name":"Puixeu Sala, Gemma","id":"33AB266C-F248-11E8-B48F-1D18A9856A87","last_name":"Puixeu Sala","first_name":"Gemma"}],"language":[{"iso":"eng"}],"related_material":{"record":[{"id":"9803","status":"public","relation":"research_data"},{"relation":"research_data","status":"public","id":"12933"},{"id":"6831","status":"public","relation":"part_of_dissertation"},{"id":"14077","status":"public","relation":"part_of_dissertation"}]},"file":[{"file_size":10891454,"relation":"source_file","file_id":"14075","checksum":"4e44e169f2724ee8c9324cd60bcc2b71","access_level":"closed","file_name":"Thesis_latex_forpdfa.zip","creator":"gpuixeus","content_type":"application/zip","date_created":"2023-08-16T18:15:17Z","date_updated":"2023-08-17T06:55:24Z"},{"checksum":"e10b04cd8f3fecc0d9ef6e6868b6e1e8","access_level":"open_access","file_size":19856686,"success":1,"relation":"main_file","file_id":"14079","date_created":"2023-08-18T10:47:55Z","date_updated":"2023-08-18T10:47:55Z","file_name":"PhDThesis_PuixeuG.pdf","creator":"gpuixeus","content_type":"application/pdf"}],"corr_author":"1","date_published":"2023-08-15T00:00:00Z","alternative_title":["ISTA Thesis"],"publisher":"Institute of Science and Technology Austria","oa":1,"date_created":"2023-08-15T10:20:40Z","project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","call_identifier":"H2020","name":"International IST Doctoral Program"},{"name":"Sexual conflict: resolution, constraints and biomedical implications","grant_number":"25817","_id":"9B9DFC9E-BA93-11EA-9121-9846C619BF3A"}],"degree_awarded":"PhD","has_accepted_license":"1","_id":"14058","page":"230","ddc":["576"],"publication_status":"published","department":[{"_id":"GradSch"},{"_id":"NiBa"},{"_id":"BeVi"}],"fulldoi":"https://doi.org/10.15479/at:ista:14058","date_updated":"2026-04-07T13:25:34Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","oa_version":"Published Version","article_processing_charge":"No","month":"08","citation":{"short":"G. Puixeu Sala, The Molecular Basis of Sexual Dimorphism: Experimental and Theoretical Characterization of Phenotypic, Transcriptomic and Genetic Patterns of Sex-Specific Adaptation, Institute of Science and Technology Austria, 2023.","chicago":"Puixeu Sala, Gemma. “The Molecular Basis of Sexual Dimorphism: Experimental and Theoretical Characterization of Phenotypic, Transcriptomic and Genetic Patterns of Sex-Specific Adaptation.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:14058\">https://doi.org/10.15479/at:ista:14058</a>.","mla":"Puixeu Sala, Gemma. <i>The Molecular Basis of Sexual Dimorphism: Experimental and Theoretical Characterization of Phenotypic, Transcriptomic and Genetic Patterns of Sex-Specific Adaptation</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:14058\">10.15479/at:ista:14058</a>.","ieee":"G. Puixeu Sala, “The molecular basis of sexual dimorphism: Experimental and theoretical characterization of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation,” Institute of Science and Technology Austria, 2023.","ista":"Puixeu Sala G. 2023. The molecular basis of sexual dimorphism: Experimental and theoretical characterization of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation. Institute of Science and Technology Austria.","apa":"Puixeu Sala, G. (2023). <i>The molecular basis of sexual dimorphism: Experimental and theoretical characterization of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14058\">https://doi.org/10.15479/at:ista:14058</a>","ama":"Puixeu Sala G. The molecular basis of sexual dimorphism: Experimental and theoretical characterization of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:14058\">10.15479/at:ista:14058</a>"},"file_date_updated":"2023-08-18T10:47:55Z","day":"15","type":"dissertation","ec_funded":1,"abstract":[{"lang":"eng","text":"Females and males across species are subject to divergent selective pressures arising\r\nfrom di↵erent reproductive interests and ecological niches. This often translates into a\r\nintricate array of sex-specific natural and sexual selection on traits that have a shared\r\ngenetic basis between both sexes, causing a genetic sexual conflict. The resolution of\r\nthis conflict mostly relies on the evolution of sex-specific expression of the shared genes,\r\nleading to phenotypic sexual dimorphism. Such sex-specific gene expression is thought\r\nto evolve via modifications of the genetic networks ultimately linked to sex-determining\r\ntranscription factors. Although much empirical and theoretical evidence supports this\r\nstandard picture of the molecular basis of sexual conflict resolution, there still are a\r\nfew open questions regarding the complex array of selective forces driving phenotypic\r\ndi↵erentiation between the sexes, as well as the molecular mechanisms underlying sexspecific adaptation. I address some of these open questions in my PhD thesis.\r\nFirst, how do patterns of phenotypic sexual dimorphism vary within populations,\r\nas a response to the temporal and spatial changes in sex-specific selective forces? To\r\ntackle this question, I analyze the patterns of sex-specific phenotypic variation along\r\nthree life stages and across populations spanning the whole geographical range of Rumex\r\nhastatulus, a wind-pollinated angiosperm, in the first Chapter of the thesis.\r\nSecond, how do gene expression patterns lead to phenotypic dimorphism, and what\r\nare the molecular mechanisms underlying the observed transcriptomic variation? I\r\naddress this question by examining the sex- and tissue-specific expression variation in\r\nnewly-generated datasets of sex-specific expression in heads and gonads of Drosophila\r\nmelanogaster. I additionally used two complementary approaches for the study of the\r\ngenetic basis of sex di↵erences in gene expression in the second and third Chapters of\r\nthe thesis.\r\nThird, how does intersex correlation, thought to be one of the main aspects constraining the ability for the two sexes to decouple, interact with the evolution of sexual\r\ndimorphism? I develop models of sex-specific stabilizing selection, mutation and drift\r\nto formalize common intuition regarding the patterns of covariation between intersex\r\ncorrelation and sexual dimorphism in the fourth Chapter of the thesis.\r\nAlltogether, the work described in this PhD thesis provides useful insights into the\r\nlinks between genetic, transcriptomic and phenotypic layers of sex-specific variation,\r\nand contributes to our general understanding of the dynamics of sexual dimorphism\r\nevolution."}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"year":"2023","status":"public","doi":"10.15479/at:ista:14058","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-035-0"]}},{"department":[{"_id":"ToHe"}],"publication_status":"published","fulldoi":"https://doi.org/10.1007/978-3-031-44267-4_9","date_updated":"2025-04-14T09:42:55Z","oa_version":"Published Version","article_processing_charge":"Yes (in subscription journal)","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"apa":"Chalupa, M., &#38; Henzinger, T. A. (2023). Monitoring hyperproperties with prefix transducers. In <i>23nd International Conference on Runtime Verification</i> (Vol. 14245, pp. 168–190). Thessaloniki, Greek: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-031-44267-4_9\">https://doi.org/10.1007/978-3-031-44267-4_9</a>","ieee":"M. Chalupa and T. A. Henzinger, “Monitoring hyperproperties with prefix transducers,” in <i>23nd International Conference on Runtime Verification</i>, Thessaloniki, Greek, 2023, vol. 14245, pp. 168–190.","ama":"Chalupa M, Henzinger TA. Monitoring hyperproperties with prefix transducers. In: <i>23nd International Conference on Runtime Verification</i>. Vol 14245. Springer Nature; 2023:168-190. doi:<a href=\"https://doi.org/10.1007/978-3-031-44267-4_9\">10.1007/978-3-031-44267-4_9</a>","ista":"Chalupa M, Henzinger TA. 2023. Monitoring hyperproperties with prefix transducers. 23nd International Conference on Runtime Verification. RV: Conference on Runtime Verification, LNCS, vol. 14245, 168–190.","mla":"Chalupa, Marek, and Thomas A. Henzinger. “Monitoring Hyperproperties with Prefix Transducers.” <i>23nd International Conference on Runtime Verification</i>, vol. 14245, Springer Nature, 2023, pp. 168–90, doi:<a href=\"https://doi.org/10.1007/978-3-031-44267-4_9\">10.1007/978-3-031-44267-4_9</a>.","chicago":"Chalupa, Marek, and Thomas A Henzinger. “Monitoring Hyperproperties with Prefix Transducers.” In <i>23nd International Conference on Runtime Verification</i>, 14245:168–90. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/978-3-031-44267-4_9\">https://doi.org/10.1007/978-3-031-44267-4_9</a>.","short":"M. Chalupa, T.A. Henzinger, in:, 23nd International Conference on Runtime Verification, Springer Nature, 2023, pp. 168–190."},"month":"10","ec_funded":1,"type":"conference","day":"01","file_date_updated":"2023-10-16T07:15:11Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"abstract":[{"text":"Hyperproperties are properties that relate multiple execution traces. Previous work on monitoring hyperproperties focused on synchronous hyperproperties, usually specified in HyperLTL. When monitoring synchronous hyperproperties, all traces are assumed to proceed at the same speed. We introduce (multi-trace) prefix transducers and show how to use them for monitoring synchronous as well as, for the first time, asynchronous hyperproperties. Prefix transducers map multiple input traces into one or more output traces by incrementally matching prefixes of the input traces against expressions similar to regular expressions. The prefixes of different traces which are consumed by a single matching step of the monitor may have different lengths. The deterministic and executable nature of prefix transducers makes them more suitable as an intermediate formalism for runtime verification than logical specifications, which tend to be highly non-deterministic, especially in the case of asynchronous hyperproperties. We report on a set of experiments about monitoring asynchronous version of observational determinism.","lang":"eng"}],"publication_identifier":{"eisbn":["978-3-031-44267-4"],"isbn":["978-3-031-44266-7"]},"doi":"10.1007/978-3-031-44267-4_9","acknowledgement":"This work was supported in part by the ERC-2020-AdG 101020093. The authors would like to thank Ana Oliveira da Costa for commenting on a draft of the paper.","status":"public","year":"2023","quality_controlled":"1","volume":14245,"author":[{"full_name":"Chalupa, Marek","id":"87e34708-d6c6-11ec-9f5b-9391e7be2463","first_name":"Marek","last_name":"Chalupa"},{"first_name":"Thomas A","last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","full_name":"Henzinger, Thomas A","orcid":"0000-0002-2985-7724"}],"title":"Monitoring hyperproperties with prefix transducers","language":[{"iso":"eng"}],"date_published":"2023-10-01T00:00:00Z","corr_author":"1","file":[{"access_level":"open_access","checksum":"ee33bd6f1a26f4dae7a8192584869fd8","file_size":867256,"success":1,"relation":"main_file","file_id":"14430","date_created":"2023-10-16T07:15:11Z","date_updated":"2023-10-16T07:15:11Z","creator":"dernst","file_name":"2023_LNCS_RV_Chalupa.pdf","content_type":"application/pdf"}],"related_material":{"record":[{"id":"15035","relation":"research_data","status":"public"}]},"conference":{"name":"RV: Conference on Runtime Verification","location":"Thessaloniki, Greek","start_date":"2023-10-04","end_date":"2023-10-07"},"alternative_title":["LNCS"],"publisher":"Springer Nature","has_accepted_license":"1","project":[{"name":"Vigilant Algorithmic Monitoring of Software","call_identifier":"H2020","grant_number":"101020093","_id":"62781420-2b32-11ec-9570-8d9b63373d4d"}],"date_created":"2023-08-16T20:46:08Z","oa":1,"publication":"23nd International Conference on Runtime Verification","intvolume":"     14245","scopus_import":"1","page":"168-190","ddc":["000"],"_id":"14076"}]