[{"fulldoi":"https://doi.org/10.1103/PhysRevA.109.023101","oa_version":"Preprint","corr_author":"1","_id":"15004","author":[{"last_name":"Karle","id":"D7C012AE-D7ED-11E9-95E8-1EC5E5697425","orcid":"0000-0002-6963-0129","full_name":"Karle, Volker","first_name":"Volker"},{"orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko","first_name":"Mikhail","full_name":"Lemeshko, Mikhail"}],"status":"public","quality_controlled":"1","intvolume":"       109","doi":"10.1103/PhysRevA.109.023101","scopus_import":"1","arxiv":1,"article_processing_charge":"No","article_number":"023101","external_id":{"isi":["001158043800006"],"arxiv":["2307.07256"]},"department":[{"_id":"MiLe"}],"publication_status":"published","project":[{"name":"Angulon: physics and applications of a new quasiparticle","_id":"2688CF98-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"801770"}],"day":"01","language":[{"iso":"eng"}],"month":"02","title":"Modeling laser pulses as δ kicks: Reevaluating the impulsive limit in molecular rotational dynamics","citation":{"apa":"Karle, V., &#38; Lemeshko, M. (2024). Modeling laser pulses as δ kicks: Reevaluating the impulsive limit in molecular rotational dynamics. <i>Physical Review A</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevA.109.023101\">https://doi.org/10.1103/PhysRevA.109.023101</a>","short":"V. Karle, M. Lemeshko, Physical Review A 109 (2024).","ieee":"V. Karle and M. Lemeshko, “Modeling laser pulses as δ kicks: Reevaluating the impulsive limit in molecular rotational dynamics,” <i>Physical Review A</i>, vol. 109, no. 2. American Physical Society, 2024.","ama":"Karle V, Lemeshko M. Modeling laser pulses as δ kicks: Reevaluating the impulsive limit in molecular rotational dynamics. <i>Physical Review A</i>. 2024;109(2). doi:<a href=\"https://doi.org/10.1103/PhysRevA.109.023101\">10.1103/PhysRevA.109.023101</a>","chicago":"Karle, Volker, and Mikhail Lemeshko. “Modeling Laser Pulses as δ Kicks: Reevaluating the Impulsive Limit in Molecular Rotational Dynamics.” <i>Physical Review A</i>. American Physical Society, 2024. <a href=\"https://doi.org/10.1103/PhysRevA.109.023101\">https://doi.org/10.1103/PhysRevA.109.023101</a>.","ista":"Karle V, Lemeshko M. 2024. Modeling laser pulses as δ kicks: Reevaluating the impulsive limit in molecular rotational dynamics. Physical Review A. 109(2), 023101.","mla":"Karle, Volker, and Mikhail Lemeshko. “Modeling Laser Pulses as δ Kicks: Reevaluating the Impulsive Limit in Molecular Rotational Dynamics.” <i>Physical Review A</i>, vol. 109, no. 2, 023101, American Physical Society, 2024, doi:<a href=\"https://doi.org/10.1103/PhysRevA.109.023101\">10.1103/PhysRevA.109.023101</a>."},"date_published":"2024-02-01T00:00:00Z","researchdata_availability":"no","abstract":[{"lang":"eng","text":"The impulsive limit (the “sudden approximation”) has been widely employed to describe the interaction between molecules and short, far-off-resonant laser pulses. This approximation assumes that the timescale of the laser-molecule interaction is significantly shorter than the internal rotational period of the molecule, resulting in the rotational motion being instantaneously “frozen” during the interaction. This simplified description of the laser-molecule interaction is incorporated in various theoretical models predicting rotational dynamics of molecules driven by short laser pulses. In this theoretical work, we develop an effective theory for ultrashort laser pulses by examining the full time-evolution operator and solving the time-dependent Schrödinger equation at the operator level. Our findings reveal a critical angular momentum, lcrit, at which the impulsive limit breaks down. In other words, the validity of the sudden approximation depends not only on the pulse duration but also on its intensity, since the latter determines how many angular momentum states are populated. We explore both ultrashort multicycle (Gaussian) pulses and the somewhat less studied half-cycle pulses, which produce distinct effective potentials. We discuss the limitations of the impulsive limit and propose a method that rescales the effective matrix elements, enabling an improved and more accurate description of laser-molecule interactions."}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2024","publication_identifier":{"issn":["2469-9926"],"eissn":["2469-9934"]},"isi":1,"publisher":"American Physical Society","type":"journal_article","related_material":{"record":[{"status":"public","id":"19393","relation":"dissertation_contains"}]},"date_updated":"2026-10-16T12:16:52Z","supplementarymaterial":"no","article_type":"original","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2307.07256"}],"oa":1,"acknowledgement":"We thank Bretislav Friedrich, Marjan Mirahmadi, Artem Volosniev, and Burkhard Schmidt for insightful discussions. M.L. acknowledges support by the European Research Council (ERC) under Starting Grant No. 801770 (ANGULON).","das_tickbox":"0","publication":"Physical Review A","volume":109,"ec_funded":1,"issue":"2","date_created":"2024-02-18T23:01:01Z"},{"year":"2024","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","researchdata_availability":"no","date_published":"2024-02-17T00:00:00Z","abstract":[{"lang":"eng","text":"Coupling of orbital motion to a spin degree of freedom gives rise to various transport phenomena in quantum systems that are beyond the standard paradigms of classical physics. Here, we discuss features of spin-orbit dynamics that can be visualized using a classical model with two coupled angular degrees of freedom. Specifically, we demonstrate classical ‘spin’ filtering through our model and show that the interplay between angular degrees of freedom and dissipation can lead to asymmetric ‘spin’ transport."}],"title":"Classical ‘spin’ filtering with two degrees of freedom and dissipation","month":"02","citation":{"ama":"Varshney A, Ghazaryan A, Volosniev A. Classical ‘spin’ filtering with two degrees of freedom and dissipation. <i>Few-Body Systems</i>. 2024;65. doi:<a href=\"https://doi.org/10.1007/s00601-024-01880-x\">10.1007/s00601-024-01880-x</a>","chicago":"Varshney, Atul, Areg Ghazaryan, and Artem Volosniev. “Classical ‘Spin’ Filtering with Two Degrees of Freedom and Dissipation.” <i>Few-Body Systems</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/s00601-024-01880-x\">https://doi.org/10.1007/s00601-024-01880-x</a>.","short":"A. Varshney, A. Ghazaryan, A. Volosniev, Few-Body Systems 65 (2024).","apa":"Varshney, A., Ghazaryan, A., &#38; Volosniev, A. (2024). Classical ‘spin’ filtering with two degrees of freedom and dissipation. <i>Few-Body Systems</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00601-024-01880-x\">https://doi.org/10.1007/s00601-024-01880-x</a>","ieee":"A. Varshney, A. Ghazaryan, and A. Volosniev, “Classical ‘spin’ filtering with two degrees of freedom and dissipation,” <i>Few-Body Systems</i>, vol. 65. Springer Nature, 2024.","mla":"Varshney, Atul, et al. “Classical ‘Spin’ Filtering with Two Degrees of Freedom and Dissipation.” <i>Few-Body Systems</i>, vol. 65, 12, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1007/s00601-024-01880-x\">10.1007/s00601-024-01880-x</a>.","ista":"Varshney A, Ghazaryan A, Volosniev A. 2024. Classical ‘spin’ filtering with two degrees of freedom and dissipation. Few-Body Systems. 65, 12."},"day":"17","language":[{"iso":"eng"}],"publication_status":"published","department":[{"_id":"MiLe"}],"file_date_updated":"2024-03-04T07:07:10Z","external_id":{"isi":["001163768200001"],"arxiv":["2401.08454"]},"article_number":"12","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"Yes (via OA deal)","arxiv":1,"scopus_import":"1","intvolume":"        65","doi":"10.1007/s00601-024-01880-x","_id":"15045","status":"public","quality_controlled":"1","author":[{"first_name":"Atul","full_name":"Varshney, Atul","id":"2A2006B2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3072-5999","last_name":"Varshney"},{"last_name":"Ghazaryan","orcid":"0000-0001-9666-3543","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","full_name":"Ghazaryan, Areg","first_name":"Areg"},{"orcid":"0000-0003-0393-5525","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","last_name":"Volosniev","first_name":"Artem","full_name":"Volosniev, Artem"}],"corr_author":"1","oa_version":"Published Version","ddc":["530"],"fulldoi":"https://doi.org/10.1007/s00601-024-01880-x","date_created":"2024-03-01T11:39:33Z","volume":65,"publication":"Few-Body Systems","das_tickbox":"0","acknowledgement":"We thank Mikhail Lemeshko and members of his group for many inspiring discussions; Alberto Cappellaro for comments on the manuscript.\r\nOpen access funding provided by Institute of Science and Technology (IST Austria).","has_accepted_license":"1","oa":1,"file":[{"date_created":"2024-03-04T07:07:10Z","date_updated":"2024-03-04T07:07:10Z","file_name":"2024_FewBodySys_Varshney.pdf","file_id":"15049","creator":"dernst","relation":"main_file","checksum":"c4e08cc7bc756da69b1b36fda7bb92fb","file_size":436712,"content_type":"application/pdf","access_level":"open_access","success":1}],"article_type":"original","license":"https://creativecommons.org/licenses/by/4.0/","supplementarymaterial":"no","date_updated":"2026-10-16T12:17:10Z","keyword":["Atomic and Molecular Physics","and Optics"],"type":"journal_article","publisher":"Springer Nature","publication_identifier":{"issn":["1432-5411"]},"isi":1},{"language":[{"iso":"ger"}],"day":"01","publication_status":"published","file_date_updated":"2024-01-23T12:18:07Z","department":[{"_id":"MiLe"}],"year":"2024","date_published":"2024-01-01T00:00:00Z","researchdata_availability":"no","abstract":[{"text":"Die Quantenrotation ist ein spannendes Phänomen, das in vielen verschiedenen Systemen auftritt, von Molekülen und Atomen bis hin zu subatomaren Teilchen wie Neutronen und Protonen. Durch den Einsatz von starken Laserpulsen ist es möglich, die mathematisch anspruchsvolle Topologie der Rotation von Molekülen aufzudecken und topologisch geschützte Zustände zu erzeugen, die unerwartetes Verhalten zeigen. Diese Entdeckungen könnten Auswirkungen auf die Molekülphysik und physikalische Chemie haben und die Entwicklung neuer Technologien ermöglichen. Die Verbindung von Quantenrotation und Topologie stellt ein aufregendes, interdisziplinäres Forschungsfeld dar und bietet neue Wege zur Kontrolle und Nutzung von quantenmechanischen Phänomenen.","lang":"ger"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","month":"01","title":"Die faszinierende Topologie rotierender Quanten","citation":{"mla":"Karle, Volker, and Mikhail Lemeshko. “Die faszinierende Topologie rotierender Quanten.” <i>Physik in unserer Zeit</i>, vol. 55, no. 1, Wiley, 2024, pp. 28–33, doi:<a href=\"https://doi.org/10.1002/piuz.202301690\">10.1002/piuz.202301690</a>.","ista":"Karle V, Lemeshko M. 2024. Die faszinierende Topologie rotierender Quanten. Physik in unserer Zeit. 55(1), 28–33.","ieee":"V. Karle and M. Lemeshko, “Die faszinierende Topologie rotierender Quanten,” <i>Physik in unserer Zeit</i>, vol. 55, no. 1. Wiley, pp. 28–33, 2024.","apa":"Karle, V., &#38; Lemeshko, M. (2024). Die faszinierende Topologie rotierender Quanten. <i>Physik in unserer Zeit</i>. Wiley. <a href=\"https://doi.org/10.1002/piuz.202301690\">https://doi.org/10.1002/piuz.202301690</a>","short":"V. Karle, M. Lemeshko, Physik in unserer Zeit 55 (2024) 28–33.","ama":"Karle V, Lemeshko M. Die faszinierende Topologie rotierender Quanten. <i>Physik in unserer Zeit</i>. 2024;55(1):28-33. doi:<a href=\"https://doi.org/10.1002/piuz.202301690\">10.1002/piuz.202301690</a>","chicago":"Karle, Volker, and Mikhail Lemeshko. “Die faszinierende Topologie rotierender Quanten.” <i>Physik in unserer Zeit</i>. Wiley, 2024. <a href=\"https://doi.org/10.1002/piuz.202301690\">https://doi.org/10.1002/piuz.202301690</a>."},"_id":"14851","status":"public","quality_controlled":"1","author":[{"first_name":"Volker","full_name":"Karle, Volker","orcid":"0000-0002-6963-0129","id":"D7C012AE-D7ED-11E9-95E8-1EC5E5697425","last_name":"Karle"},{"orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko","first_name":"Mikhail","full_name":"Lemeshko, Mikhail"}],"doi":"10.1002/piuz.202301690","intvolume":"        55","oa_version":"Published Version","corr_author":"1","ddc":["530"],"fulldoi":"https://doi.org/10.1002/piuz.202301690","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"Yes (via OA deal)","oa":1,"issue":"1","date_created":"2024-01-22T08:19:36Z","volume":55,"has_accepted_license":"1","publication":"Physik in unserer Zeit","das_tickbox":"0","keyword":["General Earth and Planetary Sciences","General Environmental Science"],"page":"28-33","related_material":{"record":[{"relation":"dissertation_contains","id":"19393","status":"public"}]},"publisher":"Wiley","type":"journal_article","publication_identifier":{"issn":["0031-9252"],"eissn":["1521-3943"]},"file":[{"date_updated":"2024-01-23T12:18:07Z","file_id":"14878","file_name":"2024_PhysikZeit_Karle.pdf","date_created":"2024-01-23T12:18:07Z","file_size":1155244,"content_type":"application/pdf","success":1,"access_level":"open_access","relation":"main_file","creator":"dernst","checksum":"3051dadcf9bc57da97e36b647c596ab1"}],"article_type":"original","supplementarymaterial":"no","date_updated":"2026-10-16T12:16:33Z"},{"fulldoi":"https://doi.org/10.1103/PhysRevA.110.053317","oa_version":"Preprint","intvolume":"       110","doi":"10.1103/PhysRevA.110.053317","_id":"18629","quality_controlled":"1","status":"public","author":[{"full_name":"Shukla, Neelam","first_name":"Neelam","last_name":"Shukla"},{"full_name":"Volosniev, Artem","first_name":"Artem","last_name":"Volosniev","orcid":"0000-0003-0393-5525","id":"37D278BC-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Armstrong, Jeremy R.","first_name":"Jeremy R.","last_name":"Armstrong"}],"scopus_import":"1","OA_place":"repository","article_processing_charge":"No","arxiv":1,"external_id":{"arxiv":["2406.00217"],"isi":["001362623400019"]},"article_number":"053317","department":[{"_id":"MiLe"}],"publication_status":"published","OA_type":"green","day":"18","language":[{"iso":"eng"}],"citation":{"ama":"Shukla N, Volosniev A, Armstrong JR. Anisotropic potential immersed in a dipolar Bose-Einstein condensate. <i>Physical Review A</i>. 2024;110(5). doi:<a href=\"https://doi.org/10.1103/PhysRevA.110.053317\">10.1103/PhysRevA.110.053317</a>","chicago":"Shukla, Neelam, Artem Volosniev, and Jeremy R. Armstrong. “Anisotropic Potential Immersed in a Dipolar Bose-Einstein Condensate.” <i>Physical Review A</i>. American Physical Society, 2024. <a href=\"https://doi.org/10.1103/PhysRevA.110.053317\">https://doi.org/10.1103/PhysRevA.110.053317</a>.","ieee":"N. Shukla, A. Volosniev, and J. R. Armstrong, “Anisotropic potential immersed in a dipolar Bose-Einstein condensate,” <i>Physical Review A</i>, vol. 110, no. 5. American Physical Society, 2024.","short":"N. Shukla, A. Volosniev, J.R. Armstrong, Physical Review A 110 (2024).","apa":"Shukla, N., Volosniev, A., &#38; Armstrong, J. R. (2024). Anisotropic potential immersed in a dipolar Bose-Einstein condensate. <i>Physical Review A</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevA.110.053317\">https://doi.org/10.1103/PhysRevA.110.053317</a>","ista":"Shukla N, Volosniev A, Armstrong JR. 2024. Anisotropic potential immersed in a dipolar Bose-Einstein condensate. Physical Review A. 110(5), 053317.","mla":"Shukla, Neelam, et al. “Anisotropic Potential Immersed in a Dipolar Bose-Einstein Condensate.” <i>Physical Review A</i>, vol. 110, no. 5, 053317, American Physical Society, 2024, doi:<a href=\"https://doi.org/10.1103/PhysRevA.110.053317\">10.1103/PhysRevA.110.053317</a>."},"month":"11","title":"Anisotropic potential immersed in a dipolar Bose-Einstein condensate","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","abstract":[{"text":"We study a three-dimensional Gross-Pitaevskii equation that describes a static impurity in a dipolar Bose-Einstein condensate. Our focus is on the interplay between the shape of the impurity and the anisotropy of the medium manifested in the energy and the density of the system. Without external confinement, properties of the system are derived with basic analytical approaches. For a system in a harmonic trap, the model is investigated numerically, using the split-step Crank-Nicolson method. Our results demonstrate that the impurity self-energy is minimized when its shape more closely aligns with the anisotropic character of the bath; in particular a prolate deformed impurity aligned with the direction of the dipoles has the smallest self-energy for a repulsive impurity. Our work complements studies of impurities in Bose gases with zero-range interactions and paves the way for studies of dipolar polarons with a Gross-Pitaevskii equation.","lang":"eng"}],"researchdata_availability":"no","date_published":"2024-11-18T00:00:00Z","year":"2024","isi":1,"publication_identifier":{"eissn":["2469-9934"],"issn":["2469-9926"]},"type":"journal_article","publisher":"American Physical Society","date_updated":"2026-10-16T12:18:41Z","supplementarymaterial":"yes","article_type":"original","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2406.00217","open_access":"1"}],"oa":1,"das_tickbox":"0","publication":"Physical Review A","acknowledgement":"The authors acknowledge that this material is based upon work supported by the National Science Foundation/EPSCoR RII Track-1: Emergent Quantum Materials and Technologies (EQUATE), Award No. OIA-2044049.","volume":110,"date_created":"2024-12-08T23:01:55Z","issue":"5"},{"issue":"3","date_created":"2024-03-24T23:00:59Z","volume":109,"acknowledgement":"We thank Félix Werner and Kris Van Houcke for interesting discussions.","publication":"Physical Review A","das_tickbox":"0","oa":1,"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2311.14536","open_access":"1"}],"article_type":"original","supplementarymaterial":"yes","date_updated":"2026-10-16T12:18:03Z","publisher":"American Physical Society","type":"journal_article","publication_identifier":{"eissn":["2469-9934"],"issn":["2469-9926"]},"isi":1,"year":"2024","date_published":"2024-03-19T00:00:00Z","abstract":[{"text":"We perform a diagrammatic analysis of the energy of a mobile impurity immersed in a strongly interacting two-component Fermi gas to second order in the impurity-bath interaction. These corrections demonstrate divergent behavior in the limit of large impurity momentum. We show the fundamental processes responsible for these logarithmically divergent terms. We study the problem in the general case without any assumptions regarding the fermion-fermion interactions in the bath. We show that the divergent term can be summed up to all orders in the Fermi-Fermi interaction and that the resulting expression is equivalent to the one obtained in the few-body calculation. Finally, we provide a perturbative calculation to the second order in the Fermi-Fermi interaction, and we show the diagrams responsible for these terms.","lang":"eng"}],"researchdata_availability":"no","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","citation":{"chicago":"Al Hyder, Ragheed, F. Chevy, and X. Leyronas. “Exploring Beyond-Mean-Field Logarithmic Divergences in Fermi-Polaron Energy.” <i>Physical Review A</i>. American Physical Society, 2024. <a href=\"https://doi.org/10.1103/PhysRevA.109.033315\">https://doi.org/10.1103/PhysRevA.109.033315</a>.","ama":"Al Hyder R, Chevy F, Leyronas X. Exploring beyond-mean-field logarithmic divergences in Fermi-polaron energy. <i>Physical Review A</i>. 2024;109(3). doi:<a href=\"https://doi.org/10.1103/PhysRevA.109.033315\">10.1103/PhysRevA.109.033315</a>","ieee":"R. Al Hyder, F. Chevy, and X. Leyronas, “Exploring beyond-mean-field logarithmic divergences in Fermi-polaron energy,” <i>Physical Review A</i>, vol. 109, no. 3. American Physical Society, 2024.","apa":"Al Hyder, R., Chevy, F., &#38; Leyronas, X. (2024). Exploring beyond-mean-field logarithmic divergences in Fermi-polaron energy. <i>Physical Review A</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevA.109.033315\">https://doi.org/10.1103/PhysRevA.109.033315</a>","short":"R. Al Hyder, F. Chevy, X. Leyronas, Physical Review A 109 (2024).","ista":"Al Hyder R, Chevy F, Leyronas X. 2024. Exploring beyond-mean-field logarithmic divergences in Fermi-polaron energy. Physical Review A. 109(3), 033315.","mla":"Al Hyder, Ragheed, et al. “Exploring Beyond-Mean-Field Logarithmic Divergences in Fermi-Polaron Energy.” <i>Physical Review A</i>, vol. 109, no. 3, 033315, American Physical Society, 2024, doi:<a href=\"https://doi.org/10.1103/PhysRevA.109.033315\">10.1103/PhysRevA.109.033315</a>."},"title":"Exploring beyond-mean-field logarithmic divergences in Fermi-polaron energy","month":"03","language":[{"iso":"eng"}],"day":"19","publication_status":"published","department":[{"_id":"MiLe"}],"article_number":"033315","external_id":{"isi":["001198511300017"],"arxiv":["2311.14536"]},"arxiv":1,"article_processing_charge":"No","scopus_import":"1","author":[{"id":"d1c405be-ae15-11ed-8510-ccf53278162e","last_name":"Al Hyder","first_name":"Ragheed","full_name":"Al Hyder, Ragheed"},{"full_name":"Chevy, F.","first_name":"F.","last_name":"Chevy"},{"full_name":"Leyronas, X.","first_name":"X.","last_name":"Leyronas"}],"_id":"15167","status":"public","quality_controlled":"1","intvolume":"       109","doi":"10.1103/PhysRevA.109.033315","oa_version":"Preprint","corr_author":"1","fulldoi":"https://doi.org/10.1103/PhysRevA.109.033315"},{"title":"Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory","month":"05","citation":{"ista":"Watson JF, Vargas-Barroso V, Morse-Mora RJ, Navas-Olive A, Tavakoli M, Danzl JG, Tomschik M, Rössler K, Jonas PM. Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory. bioRxiv, <a href=\"https://doi.org/10.1101/2024.05.02.592169\">10.1101/2024.05.02.592169</a>.","mla":"Watson, Jake F., et al. “Human Hippocampal CA3 Uses Specific Functional Connectivity Rules for Efficient Associative Memory.” <i>BioRxiv</i>, doi:<a href=\"https://doi.org/10.1101/2024.05.02.592169\">10.1101/2024.05.02.592169</a>.","ieee":"J. F. Watson <i>et al.</i>, “Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory,” <i>bioRxiv</i>. .","short":"J.F. Watson, V. Vargas-Barroso, R.J. Morse-Mora, A. Navas-Olive, M. Tavakoli, J.G. Danzl, M. Tomschik, K. Rössler, P.M. Jonas, BioRxiv (n.d.).","apa":"Watson, J. F., Vargas-Barroso, V., Morse-Mora, R. J., Navas-Olive, A., Tavakoli, M., Danzl, J. G., … Jonas, P. M. (n.d.). Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2024.05.02.592169\">https://doi.org/10.1101/2024.05.02.592169</a>","chicago":"Watson, Jake F., Victor Vargas-Barroso, Rebecca J. Morse-Mora, Andrea Navas-Olive, Mojtaba Tavakoli, Johann G Danzl, Matthias Tomschik, Karl Rössler, and Peter M Jonas. “Human Hippocampal CA3 Uses Specific Functional Connectivity Rules for Efficient Associative Memory.” <i>BioRxiv</i>, n.d. <a href=\"https://doi.org/10.1101/2024.05.02.592169\">https://doi.org/10.1101/2024.05.02.592169</a>.","ama":"Watson JF, Vargas-Barroso V, Morse-Mora RJ, et al. Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2024.05.02.592169\">10.1101/2024.05.02.592169</a>"},"date_published":"2024-05-02T00:00:00Z","abstract":[{"lang":"eng","text":"The human brain has remarkable computational power. It generates sophisticated behavioral sequences, stores engrams over an individual’s lifetime, and produces higher cognitive functions up to the level of consciousness. However, so little of our neuroscience knowledge covers the human brain, and it remains unknown whether this organ is truly unique, or is a scaled version of the extensively studied rodent brain. To address this fundamental question, we determined the cellular, synaptic, and connectivity rules of the hippocampal CA3 recurrent circuit using multicellular patch clamp-recording. This circuit is the largest autoassociative network in the brain, and plays a key role in memory and higher-order computations such as pattern separation and pattern completion. We demonstrate that human hippocampal CA3 employs sparse connectivity, in stark contrast to neocortical recurrent networks. Connectivity sparsifies from rodents to humans, providing a circuit architecture that maximizes associational power. Unitary synaptic events at human CA3–CA3 synapses showed both distinct species-specific and circuit-dependent properties, with high reliability, unique amplitude precision, and long integration times. We also identify differential scaling rules between hippocampal pathways from rodents to humans, with a moderate increase in the convergence of CA3 inputs per cell, but a marked increase in human mossy fiber innervation. Anatomically guided full-scale modeling suggests that the human brain’s sparse connectivity, expanded neuronal number, and reliable synaptic signaling combine to enhance the associative memory storage capacity of CA3. Together, our results reveal unique rules of connectivity and synaptic signaling in the human hippocampus, demonstrating the absolute necessity of human brain research and beginning to unravel the remarkable performance of our autoassociative memory circuits."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2024","department":[{"_id":"JoDa"},{"_id":"PeJo"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"M-Shop"},{"_id":"PreCl"},{"_id":"ScienComp"}],"publication_status":"draft","project":[{"_id":"fc2be41b-9c52-11eb-aca3-faa90aa144e9","name":"Synaptic computations of the hippocampal CA3 circuitry","grant_number":"101026635","call_identifier":"H2020"},{"name":"Molecular Drug Targets","_id":"26AA4EF2-B435-11E9-9278-68D0E5697425","grant_number":"W1232-B24","call_identifier":"FWF"},{"name":"Studying Organelle Structure and Function at Nanoscale Resolution with Expansion Microscopy","_id":"6285a163-2b32-11ec-9570-8e204ca2dba5","grant_number":"26137"}],"day":"02","language":[{"iso":"eng"}],"article_processing_charge":"No","OA_place":"repository","fulldoi":"https://doi.org/10.1101/2024.05.02.592169","oa_version":"Preprint","corr_author":"1","status":"public","author":[{"last_name":"Watson","full_name":"Watson, Jake F.","first_name":"Jake F."},{"full_name":"Vargas-Barroso, Victor","first_name":"Victor","last_name":"Vargas-Barroso"},{"full_name":"Morse-Mora, Rebecca J.","first_name":"Rebecca J.","last_name":"Morse-Mora"},{"last_name":"Navas-Olive","first_name":"Andrea","full_name":"Navas-Olive, Andrea"},{"full_name":"Tavakoli, Mojtaba","first_name":"Mojtaba","last_name":"Tavakoli","orcid":"0000-0002-7667-6854","id":"3A0A06F4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Danzl, Johann G","first_name":"Johann G","last_name":"Danzl","orcid":"0000-0001-8559-3973","id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Tomschik","full_name":"Tomschik, Matthias","first_name":"Matthias"},{"last_name":"Rössler","first_name":"Karl","full_name":"Rössler, Karl"},{"first_name":"Peter M","full_name":"Jonas, Peter M","orcid":"0000-0001-5001-4804","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","last_name":"Jonas"}],"_id":"18688","doi":"10.1101/2024.05.02.592169","acknowledgement":"We thank Florian Marr for excellent technical assistance, Christina Altmutter and Julia Flor for technical support, Alois Schlögl for programming, Todor Asenov for development of the transportation box for human brain tissue, Tim Vogels for guidance on simulations, Marcus Huber for mathematical advice, and Eleftheria Kralli-Beller for manuscript editing. This research was supported by the Scientific Services Units (SSUs) of ISTA, and we are particularly grateful for assistance from Christoph Sommer and the Imaging and Optics Facility, Preclinical Facility, Life Science Facility, Miba Machine Shop, and Scientific Computing. We also acknowledge the excellent support of the Medical University of Vienna Department of Neurosurgery staff, Romana Hoeftberger and the Division of Neuropathology and Neurochemistry, and Gregor Kasprian and the Division of Neuroradiology and Musculoskeletal Radiology. The project received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Marie Skłodowska-Curie Actions Individual Fellowship no. 101026635 to J.F.W.), the Austrian Science Fund (FWF; grant PAT 4178023 to P.J.; grant DK W1232 to M.R.T. and J.G.D.) and the Austrian Academy of Sciences (DOC fellowship 26137 to M.R.T.).","publication":"bioRxiv","ec_funded":1,"date_created":"2024-12-19T11:35:08Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2024.05.02.592169"}],"oa":1,"date_updated":"2026-10-20T08:20:04Z","type":"preprint","related_material":{"record":[{"relation":"dissertation_contains","id":"18681","status":"public"},{"id":"18879","status":"public","relation":"later_version"}]}},{"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","abstract":[{"lang":"eng","text":"In this study, we analyzed the efficiency of different adeno-associated viral (AAV) injections in transfecting neurons in the salamander Pleurodeles waltl. To query sources of variation in AAV injection outcomes, we analyzed metadata and outcomes for an additional 68 intraparenchymal injections performed 39 in post-metamorphic Pleurodeles salamanders. This dataset included both quantitative variables (age, weight, viral genomes (v.g.) injected, and a cell transduction score ranging from 0 to 4, see STAR Methods) and categorical variables (here referred to as qualitative variables: serotype, promoter, reporter, single vs. dual injection, manufacturer, and injection site). To assess the associations between these variables, we performed a Factor Analysis for Mixed Data (FAMD), a principal component method that is designed to determine significant sources of variability within datasets that contain both quantitative and qualitative data types. This dataset contains the injection outcomes and metadata for AAV injections administered in the salamander Pleurodeles waltl. The RactoMineR package (https://CRAN.R-project.org/package=FactoMineR) was used to determine significant contributions of a number of variables contributing to injection outcomes. Analysis of these data revealed that, among other factors, age co-varies with injection score. Therefore, we conclude that increased animal age decreases the efficacy of this tool."}],"date_published":"2024-10-10T00:00:00Z","citation":{"mla":"Jaeger, Eliza. <i>Multivariate Analysis of Pleurodeles Waltl Injection Outcomes Using FAMD FactoMineR (RStudio 4.3.2) Used to Probe Sources of Variability during an Adeno-Associated Viral (AAV) Screen</i>. Repository, 2024, doi:<a href=\"https://doi.org/10.5061/dryad.mpg4f4r89\">10.5061/dryad.mpg4f4r89</a>.","ista":"Jaeger E. 2024. Multivariate analysis of Pleurodeles waltl injection outcomes using FAMD FactoMineR (RStudio 4.3.2) used to probe sources of variability during an Adeno-associated viral (AAV) screen, Repository, <a href=\"https://doi.org/10.5061/dryad.mpg4f4r89\">10.5061/dryad.mpg4f4r89</a>.","short":"E. Jaeger, (2024).","apa":"Jaeger, E. (2024). Multivariate analysis of Pleurodeles waltl injection outcomes using FAMD FactoMineR (RStudio 4.3.2) used to probe sources of variability during an Adeno-associated viral (AAV) screen. Repository. <a href=\"https://doi.org/10.5061/dryad.mpg4f4r89\">https://doi.org/10.5061/dryad.mpg4f4r89</a>","ieee":"E. Jaeger, “Multivariate analysis of Pleurodeles waltl injection outcomes using FAMD FactoMineR (RStudio 4.3.2) used to probe sources of variability during an Adeno-associated viral (AAV) screen.” Repository, 2024.","chicago":"Jaeger, Eliza. “Multivariate Analysis of Pleurodeles Waltl Injection Outcomes Using FAMD FactoMineR (RStudio 4.3.2) Used to Probe Sources of Variability during an Adeno-Associated Viral (AAV) Screen.” Repository, 2024. <a href=\"https://doi.org/10.5061/dryad.mpg4f4r89\">https://doi.org/10.5061/dryad.mpg4f4r89</a>.","ama":"Jaeger E. Multivariate analysis of Pleurodeles waltl injection outcomes using FAMD FactoMineR (RStudio 4.3.2) used to probe sources of variability during an Adeno-associated viral (AAV) screen. 2024. doi:<a href=\"https://doi.org/10.5061/dryad.mpg4f4r89\">10.5061/dryad.mpg4f4r89</a>"},"month":"10","title":"Multivariate analysis of Pleurodeles waltl injection outcomes using FAMD FactoMineR (RStudio 4.3.2) used to probe sources of variability during an Adeno-associated viral (AAV) screen","year":"2024","date_created":"2026-09-04T10:10:52Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.mpg4f4r89"}],"department":[{"_id":"E-Lib"}],"day":"10","oa":1,"OA_type":"green","article_processing_charge":"No","OA_place":"repository","date_updated":"2026-10-20T08:56:32Z","ddc":["570"],"fulldoi":"https://doi.org/10.5061/dryad.mpg4f4r89","doi":"10.5061/dryad.mpg4f4r89","author":[{"full_name":"Jaeger, Eliza","first_name":"Eliza","last_name":"Jaeger"}],"_id":"22803","status":"public","related_material":{"record":[{"status":"public","id":"15016","relation":"used_in_publication"}]},"type":"research_data_reference","publisher":"Repository","oa_version":"None"},{"title":"SH3Ps recruit auxilin-like vesicle uncoating factors for clathrin-mediated endocytosis","month":"05","citation":{"ama":"Adamowski M, Randuch M, Matijevic I, Narasimhan M, Friml J. SH3Ps recruit auxilin-like vesicle uncoating factors for clathrin-mediated endocytosis. <i>Cell Reports</i>. 2024;43(5). doi:<a href=\"https://doi.org/10.1016/j.celrep.2024.114195\">10.1016/j.celrep.2024.114195</a>","chicago":"Adamowski, Maciek, Marek Randuch, Ivana Matijevic, Madhumitha Narasimhan, and Jiří Friml. “SH3Ps Recruit Auxilin-like Vesicle Uncoating Factors for Clathrin-Mediated Endocytosis.” <i>Cell Reports</i>. Cell Press, 2024. <a href=\"https://doi.org/10.1016/j.celrep.2024.114195\">https://doi.org/10.1016/j.celrep.2024.114195</a>.","ieee":"M. Adamowski, M. Randuch, I. Matijevic, M. Narasimhan, and J. Friml, “SH3Ps recruit auxilin-like vesicle uncoating factors for clathrin-mediated endocytosis,” <i>Cell Reports</i>, vol. 43, no. 5. Cell Press, 2024.","apa":"Adamowski, M., Randuch, M., Matijevic, I., Narasimhan, M., &#38; Friml, J. (2024). SH3Ps recruit auxilin-like vesicle uncoating factors for clathrin-mediated endocytosis. <i>Cell Reports</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.celrep.2024.114195\">https://doi.org/10.1016/j.celrep.2024.114195</a>","short":"M. Adamowski, M. Randuch, I. Matijevic, M. Narasimhan, J. Friml, Cell Reports 43 (2024).","mla":"Adamowski, Maciek, et al. “SH3Ps Recruit Auxilin-like Vesicle Uncoating Factors for Clathrin-Mediated Endocytosis.” <i>Cell Reports</i>, vol. 43, no. 5, 114195, Cell Press, 2024, doi:<a href=\"https://doi.org/10.1016/j.celrep.2024.114195\">10.1016/j.celrep.2024.114195</a>.","ista":"Adamowski M, Randuch M, Matijevic I, Narasimhan M, Friml J. 2024. SH3Ps recruit auxilin-like vesicle uncoating factors for clathrin-mediated endocytosis. Cell Reports. 43(5), 114195."},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","date_published":"2024-05-28T00:00:00Z","abstract":[{"lang":"eng","text":"Clathrin-mediated endocytosis (CME) is an essential process of cargo uptake operating in all eukaryotes. In animals and yeast, BAR-SH3 domain proteins, endophilins and amphiphysins, function at the conclusion of CME to recruit factors for vesicle scission and uncoating. Arabidopsis thaliana contains the BAR-SH3 domain proteins SH3P1–SH3P3, but their role is poorly understood. Here, we identify SH3Ps as functional homologs of endophilin/amphiphysin. SH3P1–SH3P3 bind to discrete foci at the plasma membrane (PM), and SH3P2 recruits late to a subset of clathrin-coated pits. The SH3P2 PM recruitment pattern is nearly identical to its interactor, a putative uncoating factor, AUXILIN-LIKE1. Notably, SH3P1–SH3P3 are required for most of AUXILIN-LIKE1 recruitment to the PM. This indicates a plant-specific modification of CME, where BAR-SH3 proteins recruit auxilin-like uncoating factors rather than the uncoating phosphatases, synaptojanins. SH3P1–SH3P3 act redundantly in overall CME with the plant-specific endocytic adaptor TPLATE complex but not due to an SH3 domain in its TASH3 subunit."}],"researchdata_availability":"upon request","year":"2024","department":[{"_id":"JiFr"},{"_id":"MaLo"}],"file_date_updated":"2024-05-13T12:11:22Z","publication_status":"published","language":[{"iso":"eng"}],"day":"28","project":[{"call_identifier":"FWF","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"scopus_import":"1","article_processing_charge":"Yes","external_id":{"isi":["001240362800001"],"pmid":["38717900"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_number":"114195","fulldoi":"https://doi.org/10.1016/j.celrep.2024.114195","ddc":["580"],"corr_author":"1","oa_version":"Published Version","intvolume":"        43","doi":"10.1016/j.celrep.2024.114195","author":[{"orcid":"0000-0001-6463-5257","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","last_name":"Adamowski","first_name":"Maciek","full_name":"Adamowski, Maciek"},{"first_name":"Marek","full_name":"Randuch, Marek","id":"6ac4636d-15b2-11ec-abd3-fb8df79972ae","last_name":"Randuch"},{"last_name":"Matijevic","id":"83c17ce3-15b2-11ec-abd3-f486545870bd","full_name":"Matijevic, Ivana","first_name":"Ivana"},{"first_name":"Madhumitha","full_name":"Narasimhan, Madhumitha","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8600-0671","last_name":"Narasimhan"},{"last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří"}],"_id":"15374","quality_controlled":"1","status":"public","publication":"Cell Reports","das_tickbox":"1","has_accepted_license":"1","acknowledgement":"The authors wish to acknowledge Dr. Daniel van Damme for mRuby3/pDONRP2rP3 and Prof. Qi-Jun Chen for sharing plasmids used for CRISPR-Cas9 mutagenesis. This work was supported by the Austrian Science Fund (FWF): I 3630-B25.","volume":43,"date_created":"2024-05-12T22:01:01Z","issue":"5","dataavailabilitystatement":"All data reported in this paper will be shared by the lead contact upon request.\r\n\r\nThis paper does not report original code.\r\n\r\nAny additional information required to reanalyze the data reported in this work paper is available from the lead contact upon request.","oa":1,"date_updated":"2026-10-20T09:19:12Z","supplementarymaterial":"yes","article_type":"original","file":[{"checksum":"a06bb85be4fc765c51554d27ee2da802","creator":"dernst","relation":"main_file","access_level":"open_access","success":1,"file_size":5698598,"content_type":"application/pdf","date_created":"2024-05-13T12:11:22Z","file_name":"2024_CellReports_Adamowski.pdf","file_id":"15387","date_updated":"2024-05-13T12:11:22Z"}],"isi":1,"publication_identifier":{"eissn":["2211-1247"]},"pmid":1,"type":"journal_article","publisher":"Cell Press"},{"type":"journal_article","publisher":"Bio-Protocol","publication_identifier":{"eissn":["2331-8325"]},"pmid":1,"article_type":"original","file":[{"file_size":2896048,"content_type":"application/pdf","success":1,"access_level":"open_access","relation":"main_file","creator":"dernst","checksum":"c8671c0ad483da6407cb16cc3fef1990","date_updated":"2024-07-16T06:16:11Z","file_id":"17242","file_name":"2024_BioProtocol_Li.pdf","date_created":"2024-07-16T06:16:11Z"}],"date_updated":"2026-10-21T07:57:41Z","supplementarymaterial":"no","oa":1,"date_created":"2024-07-14T22:01:11Z","issue":"13","publication":"Bio-protocol","das_tickbox":"0","has_accepted_license":"1","acknowledgement":"This work was supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (project 772103-BRIDGING to E.M.B.).","volume":14,"oa_version":"Published Version","doi":"10.21769/BioProtoc.5029","intvolume":"        14","quality_controlled":"1","_id":"17233","author":[{"last_name":"Li","id":"922e68bb-1727-11ee-857c-966e8cc1b6c3","full_name":"Li, Ziqiang","first_name":"Ziqiang"},{"full_name":"Huard, Jennifer","first_name":"Jennifer","last_name":"Huard"},{"last_name":"Bayer","full_name":"Bayer, Emmanuelle M.","first_name":"Emmanuelle M."},{"first_name":"Valérie","full_name":"Wattelet-Boyer, Valérie","last_name":"Wattelet-Boyer"}],"status":"public","fulldoi":"https://doi.org/10.21769/BioProtoc.5029","ddc":["570"],"external_id":{"pmid":["39007160"]},"article_number":"e5029","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"scopus_import":"1","article_processing_charge":"Yes","day":"05","language":[{"iso":"eng"}],"file_date_updated":"2024-07-16T06:16:11Z","department":[{"_id":"MiSi"}],"publication_status":"published","year":"2024","title":"Versatile cloning strategy for efficient multigene editing in Arabidopsis","citation":{"ista":"LI Z, Huard J, Bayer EM, Wattelet-Boyer V. 2024. Versatile cloning strategy for efficient multigene editing in Arabidopsis. Bio-protocol. 14(13), e5029.","mla":"LI, ZIQIANG, et al. “Versatile Cloning Strategy for Efficient Multigene Editing in Arabidopsis.” <i>Bio-Protocol</i>, vol. 14, no. 13, e5029, Bio-Protocol, 2024, doi:<a href=\"https://doi.org/10.21769/BioProtoc.5029\">10.21769/BioProtoc.5029</a>.","ama":"LI Z, Huard J, Bayer EM, Wattelet-Boyer V. Versatile cloning strategy for efficient multigene editing in Arabidopsis. <i>Bio-protocol</i>. 2024;14(13). doi:<a href=\"https://doi.org/10.21769/BioProtoc.5029\">10.21769/BioProtoc.5029</a>","chicago":"LI, ZIQIANG, Jennifer Huard, Emmanuelle M. Bayer, and Valérie Wattelet-Boyer. “Versatile Cloning Strategy for Efficient Multigene Editing in Arabidopsis.” <i>Bio-Protocol</i>. Bio-Protocol, 2024. <a href=\"https://doi.org/10.21769/BioProtoc.5029\">https://doi.org/10.21769/BioProtoc.5029</a>.","apa":"LI, Z., Huard, J., Bayer, E. M., &#38; Wattelet-Boyer, V. (2024). Versatile cloning strategy for efficient multigene editing in Arabidopsis. <i>Bio-Protocol</i>. Bio-Protocol. <a href=\"https://doi.org/10.21769/BioProtoc.5029\">https://doi.org/10.21769/BioProtoc.5029</a>","ieee":"Z. LI, J. Huard, E. M. Bayer, and V. Wattelet-Boyer, “Versatile cloning strategy for efficient multigene editing in Arabidopsis,” <i>Bio-protocol</i>, vol. 14, no. 13. Bio-Protocol, 2024.","short":"Z. LI, J. Huard, E.M. Bayer, V. Wattelet-Boyer, Bio-Protocol 14 (2024)."},"month":"07","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","abstract":[{"lang":"eng","text":"CRISPR-Cas9 technology has become an essential tool for plant genome editing. Recent advancements have significantly improved the ability to target multiple genes simultaneously within the same genetic background through various strategies. Additionally, there has been significant progress in developing methods for inducible or tissue-specific editing. These advancements offer numerous possibilities for tailored genome modifications. Building upon existing research, we have developed an optimized and modular strategy allowing the targeting of several genes simultaneously in combination with the synchronized expression of the Cas9 endonuclease in the egg cell. This system allows significant editing efficiency while avoiding mosaicism. In addition, the versatile system we propose allows adaptation to inducible and/or tissue-specific edition according to the promoter chosen to drive the expression of the Cas9 gene. Here, we describe a step-by-step protocol for generating the binary vector necessary for establishing Arabidopsis edited lines using a versatile cloning strategy that combines Gateway® and Golden Gate technologies. We describe a versatile system that allows the cloning of as many guides as needed to target DNA, which can be multiplexed into a polycistronic gene and combined in the same construct with sequences for the expression of the Cas9 endonuclease. The expression of Cas9 is controlled by selecting from among a collection of promoters, including constitutive, inducible, ubiquitous, or tissue-specific promoters. Only one vector containing the polycistronic gene (tRNA-sgRNA) needs to be constructed. For that, sgRNA (composed of protospacers chosen to target the gene of interest and sgRNA scaffold) is cloned in tandem with the pre-tRNA sequence. Then, a single recombination reaction is required to assemble the promoter, the zCas9 coding sequence, and the tRNA-gRNA polycistronic gene. Each element is cloned in an entry vector and finally assembled according to the Multisite Gateway® Technology. Here, we detail the process to express zCas9 under the control of egg cell promoter fused to enhancer sequence (EC1.2en-EC1.1p) and to simultaneously target two multiple C2 domains and transmembrane region protein genes (MCTP3 and MCTP4, respectively at3g57880 and at1g51570), using one or two sgRNA per gene."}],"date_published":"2024-07-05T00:00:00Z","researchdata_availability":"no"},{"fulldoi":"https://doi.org/10.1038/s41590-024-01881-2","_id":"17191","author":[{"first_name":"Sergio","full_name":"Lembo, Sergio","id":"d993a7b2-292f-11ed-aaac-fb045a912e31","orcid":"0000-0002-2253-8771","last_name":"Lembo"},{"id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6620-9179","last_name":"Sixt","first_name":"Michael K","full_name":"Sixt, Michael K"}],"status":"public","quality_controlled":"1","intvolume":"        25","doi":"10.1038/s41590-024-01881-2","oa_version":"None","corr_author":"1","article_processing_charge":"No","scopus_import":"1","external_id":{"pmid":["38907047"],"isi":["001251509300001"]},"publication_status":"published","department":[{"_id":"MiSi"}],"language":[{"iso":"eng"}],"day":"21","abstract":[{"text":"Dendritic cells migrate to and from lymph nodes in response to chemokine gradients.Data now show that steady-state migration of these cells can be triggered by a mechanosensitive pathway.","lang":"eng"}],"date_published":"2024-06-21T00:00:00Z","researchdata_availability":"no","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","title":"Nuclear squeezing wakes up dendritic cells","citation":{"ista":"Lembo S, Sixt MK. 2024. Nuclear squeezing wakes up dendritic cells. Nature Immunology. 25, 1131–1132.","mla":"Lembo, Sergio, and Michael K. Sixt. “Nuclear Squeezing Wakes up Dendritic Cells.” <i>Nature Immunology</i>, vol. 25, Springer Nature, 2024, pp. 1131–1132, doi:<a href=\"https://doi.org/10.1038/s41590-024-01881-2\">10.1038/s41590-024-01881-2</a>.","ieee":"S. Lembo and M. K. Sixt, “Nuclear squeezing wakes up dendritic cells,” <i>Nature Immunology</i>, vol. 25. Springer Nature, pp. 1131–1132, 2024.","short":"S. Lembo, M.K. Sixt, Nature Immunology 25 (2024) 1131–1132.","apa":"Lembo, S., &#38; Sixt, M. K. (2024). Nuclear squeezing wakes up dendritic cells. <i>Nature Immunology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41590-024-01881-2\">https://doi.org/10.1038/s41590-024-01881-2</a>","chicago":"Lembo, Sergio, and Michael K Sixt. “Nuclear Squeezing Wakes up Dendritic Cells.” <i>Nature Immunology</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41590-024-01881-2\">https://doi.org/10.1038/s41590-024-01881-2</a>.","ama":"Lembo S, Sixt MK. Nuclear squeezing wakes up dendritic cells. <i>Nature Immunology</i>. 2024;25:1131–1132. doi:<a href=\"https://doi.org/10.1038/s41590-024-01881-2\">10.1038/s41590-024-01881-2</a>"},"month":"06","year":"2024","pmid":1,"publication_identifier":{"eissn":["1529-2916"],"issn":["1529-2908"]},"isi":1,"page":"1131–1132 ","publisher":"Springer Nature","type":"journal_article","supplementarymaterial":"no","date_updated":"2026-10-21T07:57:17Z","article_type":"letter_note","volume":25,"publication":"Nature Immunology","das_tickbox":"0","date_created":"2024-06-30T22:01:05Z"},{"_id":"18716","author":[{"last_name":"Hrast","id":"48dbb294-2a9c-11ef-905d-f56be71f0e5d","full_name":"Hrast, Mateja","first_name":"Mateja"}],"status":"public","related_material":{"record":[{"id":"18710","status":"public","relation":"used_in_publication"}]},"doi":"10.5281/ZENODO.13833474","publisher":"Zenodo","oa_version":"None","type":"research_data_reference","corr_author":"1","ddc":["530"],"fulldoi":"https://doi.org/10.5281/ZENODO.13833474","article_processing_charge":"No","date_updated":"2026-10-21T07:56:54Z","oa":1,"day":"24","department":[{"_id":"MiLe"}],"main_file_link":[{"url":"https://doi.org/10.5281/zenodo.13833474","open_access":"1"}],"year":"2024","date_created":"2025-01-02T08:21:55Z","abstract":[{"text":"Data for publication 10.1039/d4cp03727h","lang":"eng"}],"date_published":"2024-09-24T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Hrast, Mateja. “Data for: Ab Initio Auger Spectrum of the Ultrafast Dissociating 2p3/2−1σ* Resonance in HCl.” Zenodo, 2024. <a href=\"https://doi.org/10.5281/ZENODO.13833474\">https://doi.org/10.5281/ZENODO.13833474</a>.","ama":"Hrast M. Data for: Ab initio Auger spectrum of the ultrafast dissociating 2p3/2−1σ* resonance in HCl. 2024. doi:<a href=\"https://doi.org/10.5281/ZENODO.13833474\">10.5281/ZENODO.13833474</a>","short":"M. Hrast, (2024).","ieee":"M. Hrast, “Data for: Ab initio Auger spectrum of the ultrafast dissociating 2p3/2−1σ* resonance in HCl.” Zenodo, 2024.","apa":"Hrast, M. (2024). Data for: Ab initio Auger spectrum of the ultrafast dissociating 2p3/2−1σ* resonance in HCl. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.13833474\">https://doi.org/10.5281/ZENODO.13833474</a>","mla":"Hrast, Mateja. <i>Data for: Ab Initio Auger Spectrum of the Ultrafast Dissociating 2p3/2−1σ* Resonance in HCl</i>. Zenodo, 2024, doi:<a href=\"https://doi.org/10.5281/ZENODO.13833474\">10.5281/ZENODO.13833474</a>.","ista":"Hrast M. 2024. Data for: Ab initio Auger spectrum of the ultrafast dissociating 2p3/2−1σ* resonance in HCl, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.13833474\">10.5281/ZENODO.13833474</a>."},"title":"Data for: Ab initio Auger spectrum of the ultrafast dissociating 2p3/2−1σ* resonance in HCl","month":"09"},{"month":"09","citation":{"mla":"Hrast, Mateja. <i>Data for: Ab Initio Auger Spectrum of the Ultrafast Dissociating 2p3/2−1σ* Resonance in HCl</i>. Repository, 2024, doi:<a href=\"https://doi.org/10.5281/zenodo.13833474\">10.5281/zenodo.13833474</a>.","ista":"Hrast M. 2024. Data for: Ab initio Auger spectrum of the ultrafast dissociating 2p3/2−1σ* resonance in HCl, Repository, <a href=\"https://doi.org/10.5281/zenodo.13833474\">10.5281/zenodo.13833474</a>.","apa":"Hrast, M. (2024). Data for: Ab initio Auger spectrum of the ultrafast dissociating 2p3/2−1σ* resonance in HCl. Repository. <a href=\"https://doi.org/10.5281/zenodo.13833474\">https://doi.org/10.5281/zenodo.13833474</a>","ieee":"M. Hrast, “Data for: Ab initio Auger spectrum of the ultrafast dissociating 2p3/2−1σ* resonance in HCl.” Repository, 2024.","short":"M. Hrast, (2024).","chicago":"Hrast, Mateja. “Data for: Ab Initio Auger Spectrum of the Ultrafast Dissociating 2p3/2−1σ* Resonance in HCl.” Repository, 2024. <a href=\"https://doi.org/10.5281/zenodo.13833474\">https://doi.org/10.5281/zenodo.13833474</a>.","ama":"Hrast M. Data for: Ab initio Auger spectrum of the ultrafast dissociating 2p3/2−1σ* resonance in HCl. 2024. doi:<a href=\"https://doi.org/10.5281/zenodo.13833474\">10.5281/zenodo.13833474</a>"},"title":"Data for: Ab initio Auger spectrum of the ultrafast dissociating 2p3/2−1σ* resonance in HCl","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","date_published":"2024-09-24T00:00:00Z","date_created":"2026-09-09T09:20:36Z","year":"2024","main_file_link":[{"url":"https://doi.org/10.5281/zenodo.13833475","open_access":"1"}],"department":[{"_id":"MiLe"},{"_id":"MaSe"}],"OA_type":"green","day":"24","oa":1,"date_updated":"2026-10-21T07:56:55Z","OA_place":"repository","article_processing_charge":"No","fulldoi":"https://doi.org/10.5281/zenodo.13833474","ddc":["530"],"type":"research_data_reference","oa_version":"None","publisher":"Repository","doi":"10.5281/zenodo.13833474","author":[{"last_name":"Hrast","first_name":"Mateja","full_name":"Hrast, Mateja"}],"_id":"22866","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"18710"}]},"status":"public"},{"acknowledgement":"We thank Michael Carroll (Harvard Medical School, Boston) for providing Ighmtm1Che, C4−/−, and C3−/− mice; Mark Suter (University of Zurich, Zurich) for providing Aicda−/− mice; Marina Botto (Imperial College London, London) for providing C1q−/− and fB−/− mice; Craig Gerard (Harvard Medical School, Boston) for providing C3aR−/− mice; Falk Nimmerjahn (University Erlangen-Nuernberg, Erlangen) for providing Fcgr−/−Fcgr2b−/− mice; Karl Lang (University of Duisburg-Essen, Essen) for providing Fcmr−/− mice; Hans Hengartner and Rolf Zinkernagel (ETH Zurich, Zurich) for providing KL25 mice; Mark Zabel (University Hospital of Zurich, Zurich) for providing CR2−/− mice; Christie Ballantyne (Baylor College of Medicine, Houston) for providing CD11c−/− mice; and Siamon Gordon (University of Oxford, Oxford) for providing CD11b−/− mice. A.V. wishes to thank Michael Grünaug and dedicates this work to Annette, Rita, and Hans.\r\nThis project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement no. \r\n947611) (K.S.). This study was supported by the Deutsche Forschungsgemeinschaft through the collaborative research center 914 project B02 (K.S. and S.M.), project B04 (A.V.), project A01 (M.M.), project B01 (M.S.), the collaborative research center 1123 project B07 (K.S. and S.M.), the collaborative research center 359 (project A03 [K.S.] and B02 [M.S.]), the international research training group 1911 project B09 (A.V.), the clinical research unit 303 project 7 (A.V.), cluster of excellence 2167 (A.V.), collaborative research center 1526 project 05 (A.V.), the ANR-DFG project JAKPOT (K.S.), LMUexcellent (K.S.), and the Deutsche Zentrum für Herz-Kreislauf-Forschung (PostDoc Grant and partner site project [K.S. and S.M.]). M.I. is supported by the European Research Council (ERC) Advanced Grant 101141363, ERC Proof of Concept Grant 101138728, Italian Association for Cancer Research (AIRC) Grants 19891 and \r\n22737, Italian Ministry for University and Research Grants PE00000007 (INF-ACT) and PRIN \r\n2022FMESXL, Funded Research Agreement from Asher Biotherapeutics, VIR Biotechnology, and BlueJay Therapeutics. V.F. is supported by the Italian Ministry for University and Research Grants PE00000007 (INF-ACT) and Fondazione Prossimo Mio.","has_accepted_license":"1","das_tickbox":"1","publication":"Immunity","volume":57,"issue":"9","date_created":"2024-09-22T22:01:42Z","dataavailabilitystatement":"All data reported in this paper will be shared by the lead contact upon request. This paper does not report original codes. Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.","oa":1,"date_updated":"2026-10-21T08:01:09Z","supplementarymaterial":"yes","article_type":"original","file":[{"file_size":6892750,"content_type":"application/pdf","access_level":"open_access","success":1,"creator":"dernst","relation":"main_file","checksum":"4683de43d06a8fd8e3fc91af4ddc1ba2","date_updated":"2024-09-30T09:16:03Z","file_name":"2024_Immunity_Stark.pdf","file_id":"18162","date_created":"2024-09-30T09:16:03Z"}],"isi":1,"publication_identifier":{"eissn":["1097-4180"]},"pmid":1,"publisher":"Elsevier","type":"journal_article","page":"2140-2156","title":"Antibodies and complement are key drivers of thrombosis","month":"09","citation":{"mla":"Stark, Konstantin, et al. “Antibodies and Complement Are Key Drivers of Thrombosis.” <i>Immunity</i>, vol. 57, no. 9, Elsevier, 2024, pp. 2140–56, doi:<a href=\"https://doi.org/10.1016/j.immuni.2024.08.007\">10.1016/j.immuni.2024.08.007</a>.","ista":"Stark K, Kilani B, Stockhausen S, Busse J, Schubert I, Tran TD, Gärtner FR, Leunig A, Pekayvaz K, Nicolai L, Fumagalli V, Stermann J, Stephan F, David C, Müller MB, Heyman B, Lux A, Da Palma Guerreiro A, Frenzel LP, Schmidt CQ, Dopler A, Moser M, Chandraratne S, Von Brühl ML, Lorenz M, Korff T, Rudelius M, Popp O, Kirchner M, Mertins P, Nimmerjahn F, Iannacone M, Sperandio M, Engelmann B, Verschoor A, Massberg S. 2024. Antibodies and complement are key drivers of thrombosis. Immunity. 57(9), 2140–2156.","chicago":"Stark, Konstantin, Badr Kilani, Sven Stockhausen, Johanna Busse, Irene Schubert, Thuy Duong Tran, Florian R Gärtner, et al. “Antibodies and Complement Are Key Drivers of Thrombosis.” <i>Immunity</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.immuni.2024.08.007\">https://doi.org/10.1016/j.immuni.2024.08.007</a>.","ama":"Stark K, Kilani B, Stockhausen S, et al. Antibodies and complement are key drivers of thrombosis. <i>Immunity</i>. 2024;57(9):2140-2156. doi:<a href=\"https://doi.org/10.1016/j.immuni.2024.08.007\">10.1016/j.immuni.2024.08.007</a>","apa":"Stark, K., Kilani, B., Stockhausen, S., Busse, J., Schubert, I., Tran, T. D., … Massberg, S. (2024). Antibodies and complement are key drivers of thrombosis. <i>Immunity</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.immuni.2024.08.007\">https://doi.org/10.1016/j.immuni.2024.08.007</a>","short":"K. Stark, B. Kilani, S. Stockhausen, J. Busse, I. Schubert, T.D. Tran, F.R. Gärtner, A. Leunig, K. Pekayvaz, L. Nicolai, V. Fumagalli, J. Stermann, F. Stephan, C. David, M.B. Müller, B. Heyman, A. Lux, A. Da Palma Guerreiro, L.P. Frenzel, C.Q. Schmidt, A. Dopler, M. Moser, S. Chandraratne, M.L. Von Brühl, M. Lorenz, T. Korff, M. Rudelius, O. Popp, M. Kirchner, P. Mertins, F. Nimmerjahn, M. Iannacone, M. Sperandio, B. Engelmann, A. Verschoor, S. Massberg, Immunity 57 (2024) 2140–2156.","ieee":"K. Stark <i>et al.</i>, “Antibodies and complement are key drivers of thrombosis,” <i>Immunity</i>, vol. 57, no. 9. Elsevier, pp. 2140–2156, 2024."},"researchdata_availability":"upon request","date_published":"2024-09-10T00:00:00Z","abstract":[{"text":"Venous thromboembolism (VTE) is a common, deadly disease with an increasing incidence despite preventive efforts. Clinical observations have associated elevated antibody concentrations or antibody-based therapies with thrombotic events. However, how antibodies contribute to thrombosis is unknown. Here, we show that reduced blood flow enabled immunoglobulin M (IgM) to bind to FcμR and the polymeric immunoglobulin receptor (pIgR), initiating endothelial activation and platelet recruitment. Subsequently, the procoagulant surface of activated platelets accommodated antigen- and FcγR-independent IgG deposition. This leads to classical complement activation, setting in motion a prothrombotic vicious circle. Key elements of this mechanism were present in humans in the setting of venous stasis as well as in the dysregulated immunothrombosis of COVID-19. This antibody-driven thrombosis can be prevented by pharmacologically targeting complement. Hence, our results uncover antibodies as previously unrecognized central regulators of thrombosis. These findings carry relevance for therapeutic application of antibodies and open innovative avenues to target thrombosis without compromising hemostasis.","lang":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2024","file_date_updated":"2024-09-30T09:16:03Z","department":[{"_id":"MiSi"}],"publication_status":"published","day":"10","language":[{"iso":"eng"}],"scopus_import":"1","article_processing_charge":"Yes (in subscription journal)","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"external_id":{"pmid":["39226900"],"isi":["001317438500001"]},"fulldoi":"https://doi.org/10.1016/j.immuni.2024.08.007","ddc":["570"],"oa_version":"Published Version","quality_controlled":"1","_id":"18109","author":[{"last_name":"Stark","first_name":"Konstantin","full_name":"Stark, Konstantin"},{"last_name":"Kilani","full_name":"Kilani, Badr","first_name":"Badr"},{"first_name":"Sven","full_name":"Stockhausen, Sven","last_name":"Stockhausen"},{"full_name":"Busse, Johanna","first_name":"Johanna","last_name":"Busse"},{"full_name":"Schubert, Irene","first_name":"Irene","last_name":"Schubert"},{"full_name":"Tran, Thuy Duong","first_name":"Thuy Duong","last_name":"Tran"},{"full_name":"Gärtner, Florian R","first_name":"Florian R","last_name":"Gärtner","orcid":"0000-0001-6120-3723","id":"397A88EE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Leunig, Alexander","first_name":"Alexander","last_name":"Leunig"},{"full_name":"Pekayvaz, Kami","first_name":"Kami","last_name":"Pekayvaz"},{"full_name":"Nicolai, Leo","first_name":"Leo","last_name":"Nicolai"},{"first_name":"Valeria","full_name":"Fumagalli, Valeria","last_name":"Fumagalli"},{"last_name":"Stermann","first_name":"Julia","full_name":"Stermann, Julia"},{"full_name":"Stephan, Felix","first_name":"Felix","last_name":"Stephan"},{"first_name":"Christian","full_name":"David, Christian","last_name":"David"},{"last_name":"Müller","full_name":"Müller, Martin B.","first_name":"Martin B."},{"full_name":"Heyman, Birgitta","first_name":"Birgitta","last_name":"Heyman"},{"last_name":"Lux","first_name":"Anja","full_name":"Lux, Anja"},{"full_name":"Da Palma Guerreiro, Alexandra","first_name":"Alexandra","last_name":"Da Palma Guerreiro"},{"first_name":"Lukas P.","full_name":"Frenzel, Lukas P.","last_name":"Frenzel"},{"last_name":"Schmidt","full_name":"Schmidt, Christoph Q.","first_name":"Christoph Q."},{"last_name":"Dopler","full_name":"Dopler, Arthur","first_name":"Arthur"},{"last_name":"Moser","first_name":"Markus","full_name":"Moser, Markus"},{"full_name":"Chandraratne, Sue","first_name":"Sue","last_name":"Chandraratne"},{"last_name":"Von Brühl","full_name":"Von Brühl, Marie Luise","first_name":"Marie Luise"},{"full_name":"Lorenz, Michael","first_name":"Michael","last_name":"Lorenz"},{"first_name":"Thomas","full_name":"Korff, Thomas","last_name":"Korff"},{"first_name":"Martina","full_name":"Rudelius, Martina","last_name":"Rudelius"},{"full_name":"Popp, Oliver","first_name":"Oliver","last_name":"Popp"},{"first_name":"Marieluise","full_name":"Kirchner, Marieluise","last_name":"Kirchner"},{"last_name":"Mertins","full_name":"Mertins, Philipp","first_name":"Philipp"},{"first_name":"Falk","full_name":"Nimmerjahn, Falk","last_name":"Nimmerjahn"},{"last_name":"Iannacone","full_name":"Iannacone, Matteo","first_name":"Matteo"},{"first_name":"Markus","full_name":"Sperandio, Markus","last_name":"Sperandio"},{"first_name":"Bernd","full_name":"Engelmann, Bernd","last_name":"Engelmann"},{"first_name":"Admar","full_name":"Verschoor, Admar","last_name":"Verschoor"},{"last_name":"Massberg","first_name":"Steffen","full_name":"Massberg, Steffen"}],"status":"public","doi":"10.1016/j.immuni.2024.08.007","intvolume":"        57"},{"isi":1,"publication_identifier":{"isbn":["9783959773096"],"issn":["1868-8969"]},"type":"conference","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","date_updated":"2026-10-21T08:02:42Z","supplementarymaterial":"no","file":[{"checksum":"b89716aae6a5599f187897e39de1e53a","creator":"dernst","relation":"main_file","access_level":"open_access","success":1,"content_type":"application/pdf","file_size":1054754,"date_created":"2024-02-26T10:10:48Z","file_name":"2024_LIPICs_Goranci.pdf","file_id":"15030","date_updated":"2024-02-26T10:10:48Z"}],"oa":1,"das_tickbox":"0","publication":"15th Innovations in Theoretical Computer Science Conference","acknowledgement":"Monika Henzinger and A. R. Sricharan: This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation\r\nprogramme (Grant agreement No. 101019564) and the Austrian Science Fund (FWF) project Z\r\n422-N, project I 5982-N, and project P 33775-N, with additional funding from the netidee SCIENCE Stiftung, 2020–2024.\r\nHarald Räcke: Research supported by German Research Foundation (DFG), grant 470029389\r\n(FlexNets), 2021-2024.\r\nSushant Sachdeva: SS’s work is supported by an Natural Sciences and Engineering Research Council of Canada (NSERC) Discovery Grant RGPIN-2018-06398 and a Sloan Research Fellowship.","has_accepted_license":"1","ec_funded":1,"alternative_title":["LIPIcs"],"volume":287,"date_created":"2024-02-18T23:01:02Z","fulldoi":"https://doi.org/10.4230/LIPIcs.ITCS.2024.55","ddc":["000"],"corr_author":"1","oa_version":"Published Version","doi":"10.4230/LIPIcs.ITCS.2024.55","intvolume":"       287","_id":"15008","quality_controlled":"1","status":"public","author":[{"first_name":"Gramoz","full_name":"Goranci, Gramoz","last_name":"Goranci"},{"full_name":"Henzinger, Monika H","first_name":"Monika H","last_name":"Henzinger","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","orcid":"0000-0002-5008-6530"},{"last_name":"Räcke","full_name":"Räcke, Harald","first_name":"Harald"},{"last_name":"Sachdeva","full_name":"Sachdeva, Sushant","first_name":"Sushant"},{"last_name":"Sricharan","full_name":"Sricharan, A. R.","first_name":"A. R."}],"scopus_import":"1","article_processing_charge":"No","arxiv":1,"external_id":{"arxiv":["2303.02491"],"isi":["001300389400055"]},"article_number":"55","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"conference":{"end_date":"2024-02-02","location":"Berkeley, CA, United States","start_date":"2024-01-30","name":"ITCS: Innovations in Theoretical Computer Science"},"department":[{"_id":"MoHe"}],"file_date_updated":"2024-02-26T10:10:48Z","publication_status":"published","day":"24","language":[{"iso":"eng"}],"project":[{"grant_number":"101019564","call_identifier":"H2020","_id":"bd9ca328-d553-11ed-ba76-dc4f890cfe62","name":"The design and evaluation of modern fully dynamic data structures"},{"grant_number":"Z00422","_id":"34def286-11ca-11ed-8bc3-da5948e1613c","name":"Efficient algorithms"},{"_id":"bda196b2-d553-11ed-ba76-8e8ee6c21103","name":"Static and Dynamic Hierarchical Graph Decompositions","grant_number":"I05982"},{"grant_number":"P33775","_id":"bd9e3a2e-d553-11ed-ba76-8aa684ce17fe","name":"Fast Algorithms for a Reactive Network Layer"}],"citation":{"ama":"Goranci G, Henzinger M, Räcke H, Sachdeva S, Sricharan AR. Electrical flows for polylogarithmic competitive oblivious routing. In: <i>15th Innovations in Theoretical Computer Science Conference</i>. Vol 287. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2024. doi:<a href=\"https://doi.org/10.4230/LIPIcs.ITCS.2024.55\">10.4230/LIPIcs.ITCS.2024.55</a>","chicago":"Goranci, Gramoz, Monika Henzinger, Harald Räcke, Sushant Sachdeva, and A. R. Sricharan. “Electrical Flows for Polylogarithmic Competitive Oblivious Routing.” In <i>15th Innovations in Theoretical Computer Science Conference</i>, Vol. 287. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. <a href=\"https://doi.org/10.4230/LIPIcs.ITCS.2024.55\">https://doi.org/10.4230/LIPIcs.ITCS.2024.55</a>.","apa":"Goranci, G., Henzinger, M., Räcke, H., Sachdeva, S., &#38; Sricharan, A. R. (2024). Electrical flows for polylogarithmic competitive oblivious routing. In <i>15th Innovations in Theoretical Computer Science Conference</i> (Vol. 287). Berkeley, CA, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.ITCS.2024.55\">https://doi.org/10.4230/LIPIcs.ITCS.2024.55</a>","short":"G. Goranci, M. Henzinger, H. Räcke, S. Sachdeva, A.R. Sricharan, in:, 15th Innovations in Theoretical Computer Science Conference, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024.","ieee":"G. Goranci, M. Henzinger, H. Räcke, S. Sachdeva, and A. R. Sricharan, “Electrical flows for polylogarithmic competitive oblivious routing,” in <i>15th Innovations in Theoretical Computer Science Conference</i>, Berkeley, CA, United States, 2024, vol. 287.","ista":"Goranci G, Henzinger M, Räcke H, Sachdeva S, Sricharan AR. 2024. Electrical flows for polylogarithmic competitive oblivious routing. 15th Innovations in Theoretical Computer Science Conference. ITCS: Innovations in Theoretical Computer Science, LIPIcs, vol. 287, 55.","mla":"Goranci, Gramoz, et al. “Electrical Flows for Polylogarithmic Competitive Oblivious Routing.” <i>15th Innovations in Theoretical Computer Science Conference</i>, vol. 287, 55, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024, doi:<a href=\"https://doi.org/10.4230/LIPIcs.ITCS.2024.55\">10.4230/LIPIcs.ITCS.2024.55</a>."},"month":"01","title":"Electrical flows for polylogarithmic competitive oblivious routing","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","researchdata_availability":"no","date_published":"2024-01-24T00:00:00Z","abstract":[{"lang":"eng","text":"Oblivious routing is a well-studied paradigm that uses static precomputed routing tables for selecting routing paths within a network. Existing oblivious routing schemes with polylogarithmic competitive ratio for general networks are tree-based, in the sense that routing is performed according to a convex combination of trees. However, this restriction to trees leads to a construction that has time quadratic in the size of the network and does not parallelize well. \r\nIn this paper we study oblivious routing schemes based on electrical routing. In particular, we show that general networks with n vertices and m edges admit a routing scheme that has competitive ratio O(log² n) and consists of a convex combination of only O(√m) electrical routings. This immediately leads to an improved construction algorithm with time Õ(m^{3/2}) that can also be implemented in parallel with Õ(√m) depth."}],"year":"2024"},{"article_type":"original","file":[{"date_created":"2025-01-13T10:55:28Z","file_name":"2024_JourAllergyClinicalImm_Link.pdf","file_id":"18840","date_updated":"2025-01-13T10:55:28Z","checksum":"6a5af05082e1869d7cad6406fa4eb76c","creator":"dernst","relation":"main_file","access_level":"open_access","success":1,"file_size":1792425,"content_type":"application/pdf"}],"date_updated":"2026-10-21T08:01:51Z","supplementarymaterial":"yes","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","publisher":"Elsevier","type":"journal_article","page":"745-753","publication_identifier":{"issn":["0091-6749"],"eissn":["1097-6825"]},"isi":1,"pmid":1,"issue":"3","date_created":"2024-05-19T22:01:13Z","has_accepted_license":"1","acknowledgement":"This work was funded by Deutsche Forschungsgemeinschaft, Germany, grants RO2133/ 9-1 and RO2133/ 9-2 in the setting of FOR2599 and TR156 project C11 (Project-ID 246807620–TRR 156) to A. Roers and Springboard-to-Postdoc grant of the Dresden International Graduate School for Biomedicine and Bioengineering (DIGS-BB), Dresden, Germany, and Fond zur Förderung der Wissenschaftlichen Forschung (FWF), Austria, Hertha Firnberg grant (project number T-1219) to A. Polikarpova.\r\nWe thank Dr Michael Gerlach, Core Facility Cellular Imaging, Faculty of Medicine Carl Gustav Carus, TU Dresden, for expert support of in vivo imaging experiments; Grace Wurigamule for help with 2-photon imaging and flow cytometric analysis of mouse skin; and Christina Hiller, Livia Schulze, Madelaine Rickauer, and Christa Haase for providing expert technical assistance.","publication":"Journal of Allergy and Clinical Immunology","das_tickbox":"0","volume":154,"oa":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"external_id":{"isi":["001308886700001"],"pmid":["38636606"]},"scopus_import":"1","OA_place":"publisher","article_processing_charge":"Yes (in subscription journal)","oa_version":"Published Version","author":[{"full_name":"Link, Kristina","first_name":"Kristina","last_name":"Link"},{"full_name":"Muhandes, Lina","first_name":"Lina","last_name":"Muhandes"},{"last_name":"Polikarpova","full_name":"Polikarpova, Anastasia","first_name":"Anastasia"},{"full_name":"Lämmermann, Tim","first_name":"Tim","last_name":"Lämmermann"},{"orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","first_name":"Michael K","full_name":"Sixt, Michael K"},{"full_name":"Fässler, Reinhard","first_name":"Reinhard","last_name":"Fässler"},{"first_name":"Axel","full_name":"Roers, Axel","last_name":"Roers"}],"_id":"15408","status":"public","quality_controlled":"1","intvolume":"       154","doi":"10.1016/j.jaci.2024.03.022","fulldoi":"https://doi.org/10.1016/j.jaci.2024.03.022","ddc":["570"],"year":"2024","title":"Integrin β1–mediated mast cell immune-surveillance of blood vessel content","citation":{"ista":"Link K, Muhandes L, Polikarpova A, Lämmermann T, Sixt MK, Fässler R, Roers A. 2024. Integrin β1–mediated mast cell immune-surveillance of blood vessel content. Journal of Allergy and Clinical Immunology. 154(3), 745–753.","mla":"Link, Kristina, et al. “Integrin Β1–Mediated Mast Cell Immune-Surveillance of Blood Vessel Content.” <i>Journal of Allergy and Clinical Immunology</i>, vol. 154, no. 3, Elsevier, 2024, pp. 745–53, doi:<a href=\"https://doi.org/10.1016/j.jaci.2024.03.022\">10.1016/j.jaci.2024.03.022</a>.","ieee":"K. Link <i>et al.</i>, “Integrin β1–mediated mast cell immune-surveillance of blood vessel content,” <i>Journal of Allergy and Clinical Immunology</i>, vol. 154, no. 3. Elsevier, pp. 745–753, 2024.","apa":"Link, K., Muhandes, L., Polikarpova, A., Lämmermann, T., Sixt, M. K., Fässler, R., &#38; Roers, A. (2024). Integrin β1–mediated mast cell immune-surveillance of blood vessel content. <i>Journal of Allergy and Clinical Immunology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jaci.2024.03.022\">https://doi.org/10.1016/j.jaci.2024.03.022</a>","short":"K. Link, L. Muhandes, A. Polikarpova, T. Lämmermann, M.K. Sixt, R. Fässler, A. Roers, Journal of Allergy and Clinical Immunology 154 (2024) 745–753.","chicago":"Link, Kristina, Lina Muhandes, Anastasia Polikarpova, Tim Lämmermann, Michael K Sixt, Reinhard Fässler, and Axel Roers. “Integrin Β1–Mediated Mast Cell Immune-Surveillance of Blood Vessel Content.” <i>Journal of Allergy and Clinical Immunology</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.jaci.2024.03.022\">https://doi.org/10.1016/j.jaci.2024.03.022</a>.","ama":"Link K, Muhandes L, Polikarpova A, et al. Integrin β1–mediated mast cell immune-surveillance of blood vessel content. <i>Journal of Allergy and Clinical Immunology</i>. 2024;154(3):745-753. doi:<a href=\"https://doi.org/10.1016/j.jaci.2024.03.022\">10.1016/j.jaci.2024.03.022</a>"},"month":"09","abstract":[{"lang":"eng","text":"Background: IgE-mediated degranulation of mast cells (MCs) provides rapid protection against environmental hazards, including animal venoms. A fraction of tissue-resident MCs intimately associates with blood vessels. These perivascular MCs were reported to extend projections into the vessel lumen and to be the first MCs to acquire intravenously injected IgE, suggesting that IgE loading of MCs depends on their vascular association.\r\nObjective: We sought to elucidate the molecular basis of the MC–blood vessel interaction and to determine its relevance for IgE-mediated immune responses.\r\nMethods: We selectively inactivated the Itgb1 gene, encoding the β1 chain of integrin adhesion molecules (ITGB1), in MCs by conditional gene targeting in mice. We analyzed skin MCs for blood vessel association, surface IgE density, and capability to bind circulating antibody specific for MC surface molecules, as well as in vivo responses to antigen administered via different routes.\r\nResults: Lack of ITGB1 expression severely compromised MC–blood vessel association. ITGB1-deficient MCs showed normal densities of surface IgE but reduced binding of intravenously injected antibodies. While their capacity to degranulate in response to IgE ligation in vivo was unimpaired, anaphylactic responses to antigen circulating in the vasculature were largely abolished.\r\nConclusions: ITGB1-mediated association of MCs with blood vessels is key for MC immune surveillance of blood vessel content, but is dispensable for slow steady-state loading of endogenous IgE onto tissue-resident MCs."}],"date_published":"2024-09-01T00:00:00Z","researchdata_availability":"no","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","OA_type":"hybrid","language":[{"iso":"eng"}],"day":"01","department":[{"_id":"MiSi"}],"file_date_updated":"2025-01-13T10:55:28Z","publication_status":"published"},{"oa_version":"Published Version","_id":"14933","author":[{"full_name":"Pimenta-Marques, Ana","first_name":"Ana","last_name":"Pimenta-Marques"},{"full_name":"Perestrelo, Tania","first_name":"Tania","last_name":"Perestrelo"},{"full_name":"Dos Reis Rodrigues, Patricia","first_name":"Patricia","last_name":"Dos Reis Rodrigues","id":"26E95904-5160-11E9-9C0B-C5B0DC97E90F","orcid":"0000-0003-1681-508X"},{"first_name":"Paulo","full_name":"Duarte, Paulo","last_name":"Duarte"},{"last_name":"Ferreira-Silva","first_name":"Ana","full_name":"Ferreira-Silva, Ana"},{"last_name":"Lince-Faria","full_name":"Lince-Faria, Mariana","first_name":"Mariana"},{"full_name":"Bettencourt-Dias, Mónica","first_name":"Mónica","last_name":"Bettencourt-Dias"}],"quality_controlled":"1","status":"public","intvolume":"        25","doi":"10.1038/s44319-023-00020-6","fulldoi":"https://doi.org/10.1038/s44319-023-00020-6","ddc":["570"],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"external_id":{"pmid":["38200359"]},"scopus_import":"1","article_processing_charge":"Yes (in subscription journal)","language":[{"iso":"eng"}],"day":"10","file_date_updated":"2024-02-05T12:35:03Z","department":[{"_id":"MiSi"}],"publication_status":"published","year":"2024","citation":{"chicago":"Pimenta-Marques, Ana, Tania Perestrelo, Patricia Dos Reis Rodrigues, Paulo Duarte, Ana Ferreira-Silva, Mariana Lince-Faria, and Mónica Bettencourt-Dias. “Ana1/CEP295 Is an Essential Player in the Centrosome Maintenance Program Regulated by Polo Kinase and the PCM.” <i>EMBO Reports</i>. Embo Press, 2024. <a href=\"https://doi.org/10.1038/s44319-023-00020-6\">https://doi.org/10.1038/s44319-023-00020-6</a>.","ama":"Pimenta-Marques A, Perestrelo T, Dos Reis Rodrigues P, et al. Ana1/CEP295 is an essential player in the centrosome maintenance program regulated by Polo kinase and the PCM. <i>EMBO Reports</i>. 2024;25(1):102-127. doi:<a href=\"https://doi.org/10.1038/s44319-023-00020-6\">10.1038/s44319-023-00020-6</a>","apa":"Pimenta-Marques, A., Perestrelo, T., Dos Reis Rodrigues, P., Duarte, P., Ferreira-Silva, A., Lince-Faria, M., &#38; Bettencourt-Dias, M. (2024). Ana1/CEP295 is an essential player in the centrosome maintenance program regulated by Polo kinase and the PCM. <i>EMBO Reports</i>. Embo Press. <a href=\"https://doi.org/10.1038/s44319-023-00020-6\">https://doi.org/10.1038/s44319-023-00020-6</a>","short":"A. Pimenta-Marques, T. Perestrelo, P. Dos Reis Rodrigues, P. Duarte, A. Ferreira-Silva, M. Lince-Faria, M. Bettencourt-Dias, EMBO Reports 25 (2024) 102–127.","ieee":"A. Pimenta-Marques <i>et al.</i>, “Ana1/CEP295 is an essential player in the centrosome maintenance program regulated by Polo kinase and the PCM,” <i>EMBO Reports</i>, vol. 25, no. 1. Embo Press, pp. 102–127, 2024.","mla":"Pimenta-Marques, Ana, et al. “Ana1/CEP295 Is an Essential Player in the Centrosome Maintenance Program Regulated by Polo Kinase and the PCM.” <i>EMBO Reports</i>, vol. 25, no. 1, Embo Press, 2024, pp. 102–27, doi:<a href=\"https://doi.org/10.1038/s44319-023-00020-6\">10.1038/s44319-023-00020-6</a>.","ista":"Pimenta-Marques A, Perestrelo T, Dos Reis Rodrigues P, Duarte P, Ferreira-Silva A, Lince-Faria M, Bettencourt-Dias M. 2024. Ana1/CEP295 is an essential player in the centrosome maintenance program regulated by Polo kinase and the PCM. EMBO Reports. 25(1), 102–127."},"month":"01","title":"Ana1/CEP295 is an essential player in the centrosome maintenance program regulated by Polo kinase and the PCM","date_published":"2024-01-10T00:00:00Z","researchdata_availability":"not applicable","abstract":[{"text":"Centrioles are part of centrosomes and cilia, which are microtubule organising centres (MTOC) with diverse functions. Despite their stability, centrioles can disappear during differentiation, such as in oocytes, but little is known about the regulation of their structural integrity. Our previous research revealed that the pericentriolar material (PCM) that surrounds centrioles and its recruiter, Polo kinase, are downregulated in oogenesis and sufficient for maintaining both centrosome structural integrity and MTOC activity. We now show that the expression of specific components of the centriole cartwheel and wall, including ANA1/CEP295, is essential for maintaining centrosome integrity. We find that Polo kinase requires ANA1 to promote centriole stability in cultured cells and eggs. In addition, ANA1 expression prevents the loss of centrioles observed upon PCM-downregulation. However, the centrioles maintained by overexpressing and tethering ANA1 are inactive, unlike the MTOCs observed upon tethering Polo kinase. These findings demonstrate that several centriole components are needed to maintain centrosome structure. Our study also highlights that centrioles are more dynamic than previously believed, with their structural stability relying on the continuous expression of multiple components.","lang":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publisher":"Embo Press","type":"journal_article","page":"102-127","publication_identifier":{"eissn":["1469-3178"]},"pmid":1,"article_type":"original","file":[{"date_created":"2024-02-05T12:35:03Z","file_name":"2023_EmboReports_PimentaMarques.pdf","file_id":"14941","date_updated":"2024-02-05T12:35:03Z","checksum":"53c3ef43d9bd6d7bff3ffcf57d763cac","creator":"dernst","relation":"main_file","access_level":"open_access","success":1,"content_type":"application/pdf","file_size":9645056}],"date_updated":"2026-10-21T08:00:18Z","supplementarymaterial":"yes","dataavailabilitystatement":"This study includes no data deposited in external repositories.","oa":1,"issue":"1","date_created":"2024-02-04T23:00:53Z","acknowledgement":"We thank all members of the Cell Cycle and Regulation Lab for the discussions and for the critical reading of the manuscript. We thank Tomer Avidor-Reiss (University of Toledo, Toledo, OH), Daniel St. Johnston (The Gurdon Institute, Cambridge, UK), David Glover (University of Cambridge, Cambridge, UK), Jingyan Fu (Agricultural University, Beijing, China) Jordan Raff (University of Oxford, Oxford, UK) and Timothy Megraw (Florida State University, Tallahassee, FL) for sharing tools. We acknowledge the technical support of Instituto Gulbenkian de Ciência (IGC)‘s Advanced Imaging Facility, in particular Gabriel Martins, Nuno Pimpão Martins and José Marques. We also thank Tiago Paixão from the IGC’s Quantitative & Digital Science Unit and Marco Louro from the CCR lab for the support provided on statistical analysis. IGC’s Advanced Imaging Facility (AIF-UIC) is supported by the national Portuguese funding ref# PPBI-POCI-01-0145-FEDER -022122. We thank the IGC’s Fly Facility, supported by CONGENTO (LISBOA-01-0145-FEDER-022170). This work was supported by an ERC grant (ERC-2015-CoG-683258) awarded to MBD and a grant from the Portuguese Research Council (FCT) awarded to APM (PTDC/BIA-BID/32225/2017).","has_accepted_license":"1","publication":"EMBO Reports","das_tickbox":"1","volume":25},{"language":[{"iso":"eng"}],"day":"04","project":[{"grant_number":"101019564","call_identifier":"H2020","name":"The design and evaluation of modern fully dynamic data structures","_id":"bd9ca328-d553-11ed-ba76-dc4f890cfe62"},{"grant_number":"Z00422","_id":"34def286-11ca-11ed-8bc3-da5948e1613c","name":"Efficient algorithms"},{"_id":"bda196b2-d553-11ed-ba76-8e8ee6c21103","name":"Static and Dynamic Hierarchical Graph Decompositions","grant_number":"I05982"},{"name":"Fast Algorithms for a Reactive Network Layer","_id":"bd9e3a2e-d553-11ed-ba76-8aa684ce17fe","grant_number":"P33775"},{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","name":"IST-BRIDGE: International postdoctoral program","call_identifier":"H2020","grant_number":"101034413"}],"publication_status":"published","department":[{"_id":"MoHe"}],"year":"2024","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","abstract":[{"lang":"eng","text":"For a set of points in Rd, the Euclidean k-means problems consists of finding k centers such that the sum of distances squared from each data point to its closest center is minimized. Coresets are one the main tools developed recently to solve this problem in a big data context. They allow to compress the initial dataset while preserving its structure: running any algorithm on the coreset provides a guarantee almost equivalent to running it on the full data. In this work, we study coresets in a fully-dynamic setting: points are added and deleted with the goal to efficiently maintain a coreset with which a k-means solution can be computed. Based on an algorithm from Henzinger and Kale [ESA'20], we present an efficient and practical implementation of a fully dynamic coreset algorithm, that improves the running time by up to a factor of 20 compared to our non-optimized implementation of the algorithm by Henzinger and Kale, without sacrificing more than 7% on the quality of the k-means solution."}],"date_published":"2024-01-04T00:00:00Z","researchdata_availability":"no","citation":{"mla":"Henzinger, Monika, et al. “Experimental Evaluation of Fully Dynamic K-Means via Coresets.” <i>2024 Proceedings of the Symposium on Algorithm Engineering and Experiments</i>, Society for Industrial and Applied Mathematics, 2024, pp. 220–33, doi:<a href=\"https://doi.org/10.1137/1.9781611977929.17\">10.1137/1.9781611977929.17</a>.","ista":"Henzinger M, Saulpic D, Sidl L. 2024. Experimental evaluation of fully dynamic k-means via coresets. 2024 Proceedings of the Symposium on Algorithm Engineering and Experiments. ALENEX: Workshop on Algorithm Engineering and Experiments, 220–233.","ama":"Henzinger M, Saulpic D, Sidl L. Experimental evaluation of fully dynamic k-means via coresets. In: <i>2024 Proceedings of the Symposium on Algorithm Engineering and Experiments</i>. Society for Industrial and Applied Mathematics; 2024:220-233. doi:<a href=\"https://doi.org/10.1137/1.9781611977929.17\">10.1137/1.9781611977929.17</a>","chicago":"Henzinger, Monika, David Saulpic, and Leonhard Sidl. “Experimental Evaluation of Fully Dynamic K-Means via Coresets.” In <i>2024 Proceedings of the Symposium on Algorithm Engineering and Experiments</i>, 220–33. Society for Industrial and Applied Mathematics, 2024. <a href=\"https://doi.org/10.1137/1.9781611977929.17\">https://doi.org/10.1137/1.9781611977929.17</a>.","short":"M. Henzinger, D. Saulpic, L. Sidl, in:, 2024 Proceedings of the Symposium on Algorithm Engineering and Experiments, Society for Industrial and Applied Mathematics, 2024, pp. 220–233.","ieee":"M. Henzinger, D. Saulpic, and L. Sidl, “Experimental evaluation of fully dynamic k-means via coresets,” in <i>2024 Proceedings of the Symposium on Algorithm Engineering and Experiments</i>, Alexandria, VA, United States, 2024, pp. 220–233.","apa":"Henzinger, M., Saulpic, D., &#38; Sidl, L. (2024). Experimental evaluation of fully dynamic k-means via coresets. In <i>2024 Proceedings of the Symposium on Algorithm Engineering and Experiments</i> (pp. 220–233). Alexandria, VA, United States: Society for Industrial and Applied Mathematics. <a href=\"https://doi.org/10.1137/1.9781611977929.17\">https://doi.org/10.1137/1.9781611977929.17</a>"},"title":"Experimental evaluation of fully dynamic k-means via coresets","month":"01","doi":"10.1137/1.9781611977929.17","_id":"14769","author":[{"last_name":"Henzinger","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","orcid":"0000-0002-5008-6530","full_name":"Henzinger, Monika H","first_name":"Monika H"},{"last_name":"Saulpic","id":"f8e48cf0-b0ff-11ed-b0e9-b4c35598f964","full_name":"Saulpic, David","first_name":"David"},{"first_name":"Leonhard","full_name":"Sidl, Leonhard","id":"8b563fd0-b441-11ee-9101-a3891c61efa6","last_name":"Sidl"}],"quality_controlled":"1","status":"public","corr_author":"1","oa_version":"Preprint","fulldoi":"https://doi.org/10.1137/1.9781611977929.17","conference":{"end_date":"2024-01-08","location":"Alexandria, VA, United States","name":"ALENEX: Workshop on Algorithm Engineering and Experiments","start_date":"2024-01-07"},"external_id":{"arxiv":["2310.18034"]},"article_processing_charge":"No","arxiv":1,"scopus_import":"1","oa":1,"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2310.18034","open_access":"1"}],"date_created":"2024-01-09T16:22:47Z","ec_funded":1,"publication":"2024 Proceedings of the Symposium on Algorithm Engineering and Experiments","das_tickbox":"0","acknowledgement":"This   project   has   received   funding   from   the   Euro-pean  Research  Council  (ERC)  under  the  EuropeanUnion’s  Horizon  2020  research  and  innovation  programme  (Grant  agreement  No.   101019564  “The  De-sign  of  Modern  Fully  Dynamic  Data  Structures  (Mo-DynStruct)”  and  the  Austrian  Science  Fund  (FWF)project Z 422-N, project “Static and Dynamic Hierar-chical  Graph  Decompositions”,  I  5982-N,  and  project“Fast  Algorithms  for  a  Reactive  Network  Layer  (Re-actNet)”, P 33775-N, with additional funding from thenetidee SCIENCE Stiftung, 2020–2024.D.  Sauplic  has  received  funding  from  the  Euro-pean  Union’s  Horizon  2020  research  and  innovation programme under the Marie Sklodowska-Curie    grant    agreementNo 101034413.","page":"220-233","type":"conference","publisher":"Society for Industrial and Applied Mathematics","publication_identifier":{"eisbn":["9781611977929"]},"supplementarymaterial":"no","date_updated":"2026-10-21T08:02:15Z"},{"language":[{"iso":"eng"}],"day":"18","department":[{"_id":"MiSi"}],"publication_status":"published","year":"2024","citation":{"short":"M. Avellaneda Sarrió, M.K. Sixt, Cell Chemical Biology 31 (2024) 1242–1243.","apa":"Avellaneda Sarrió, M., &#38; Sixt, M. K. (2024). Rescuing T cells from stiff tumors. <i>Cell Chemical Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.chembiol.2024.06.011\">https://doi.org/10.1016/j.chembiol.2024.06.011</a>","ieee":"M. Avellaneda Sarrió and M. K. Sixt, “Rescuing T cells from stiff tumors,” <i>Cell Chemical Biology</i>, vol. 31, no. 7. Elsevier, pp. 1242–1243, 2024.","chicago":"Avellaneda Sarrió, Mario, and Michael K Sixt. “Rescuing T Cells from Stiff Tumors.” <i>Cell Chemical Biology</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.chembiol.2024.06.011\">https://doi.org/10.1016/j.chembiol.2024.06.011</a>.","ama":"Avellaneda Sarrió M, Sixt MK. Rescuing T cells from stiff tumors. <i>Cell Chemical Biology</i>. 2024;31(7):1242-1243. doi:<a href=\"https://doi.org/10.1016/j.chembiol.2024.06.011\">10.1016/j.chembiol.2024.06.011</a>","ista":"Avellaneda Sarrió M, Sixt MK. 2024. Rescuing T cells from stiff tumors. Cell Chemical Biology. 31(7), 1242–1243.","mla":"Avellaneda Sarrió, Mario, and Michael K. Sixt. “Rescuing T Cells from Stiff Tumors.” <i>Cell Chemical Biology</i>, vol. 31, no. 7, Elsevier, 2024, pp. 1242–43, doi:<a href=\"https://doi.org/10.1016/j.chembiol.2024.06.011\">10.1016/j.chembiol.2024.06.011</a>."},"month":"07","title":"Rescuing T cells from stiff tumors","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","date_published":"2024-07-18T00:00:00Z","abstract":[{"text":"In a recent issue of Cell, Zhang et al.1 demonstrate that mechanical features of a solid tumor can drive T cells into dysfunctionality and identify pathways that revert this “exhausted” state.","lang":"eng"}],"researchdata_availability":"no","corr_author":"1","oa_version":"None","doi":"10.1016/j.chembiol.2024.06.011","intvolume":"        31","_id":"17279","status":"public","quality_controlled":"1","author":[{"last_name":"Avellaneda Sarrió","orcid":"0000-0001-6406-524X","id":"DC4BA84C-56E6-11EA-AD5D-348C3DDC885E","full_name":"Avellaneda Sarrió, Mario","first_name":"Mario"},{"orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","first_name":"Michael K","full_name":"Sixt, Michael K"}],"fulldoi":"https://doi.org/10.1016/j.chembiol.2024.06.011","external_id":{"pmid":["39029454"],"isi":["001275725000001"]},"scopus_import":"1","article_processing_charge":"No","date_created":"2024-07-21T22:01:00Z","issue":"7","das_tickbox":"0","publication":"Cell Chemical Biology","volume":31,"type":"journal_article","publisher":"Elsevier","page":"1242-1243","isi":1,"publication_identifier":{"issn":["2451-9456"],"eissn":["2451-9448"]},"pmid":1,"article_type":"review","date_updated":"2026-10-21T07:58:00Z","supplementarymaterial":"no"},{"oa":1,"alternative_title":["LIPIcs"],"volume":319,"ec_funded":1,"has_accepted_license":"1","acknowledgement":"Antoine El-Hayek: This project has received funding from the Austrian Science Fund\r\n(FWF) grant DOI 10.55776/P33775 with additional funding from the netidee SCIENCE Stiftung,\r\n2020–2024.\r\nMonika Henzinger: This project has received funding from the European Research Council (ERC)\r\nunder the European Union’s Horizon 2020 research and innovation programme (MoDynStruct,\r\nNo. 101019564) and the Austrian Science Fund (FWF) grant DOI 10.55776/Z422, grant DOI\r\n10.55776/I5982, and grant DOI 10.55776/P33775 with additional funding from the netidee SCIENCE\r\nStiftung, 2020–2024.\r\nStefan Schmid: This project has received funding from the German Research Foundation (DFG),\r\nSPP 2378 (project ReNO), 2023-2027.","das_tickbox":"0","publication":"38th International Symposium on Distributed Computing","date_created":"2024-11-17T23:01:47Z","isi":1,"publication_identifier":{"issn":["1868-8969"],"isbn":["9783959773522"]},"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"22281"}]},"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","type":"conference","supplementarymaterial":"no","date_updated":"2026-10-21T08:05:36Z","file":[{"file_name":"2024_LIPIcs_ElHayek.pdf","file_id":"18561","date_updated":"2024-11-18T08:02:45Z","date_created":"2024-11-18T08:02:45Z","success":1,"access_level":"open_access","content_type":"application/pdf","file_size":809666,"checksum":"d6c8277331cafa188c33ba1717206cf4","relation":"main_file","creator":"dernst"}],"publication_status":"published","department":[{"_id":"MoHe"}],"file_date_updated":"2024-11-18T08:02:45Z","project":[{"grant_number":"P33775","_id":"bd9e3a2e-d553-11ed-ba76-8aa684ce17fe","name":"Fast Algorithms for a Reactive Network Layer"},{"_id":"bd9ca328-d553-11ed-ba76-dc4f890cfe62","name":"The design and evaluation of modern fully dynamic data structures","call_identifier":"H2020","grant_number":"101019564"},{"_id":"34def286-11ca-11ed-8bc3-da5948e1613c","name":"Efficient algorithms","grant_number":"Z00422"},{"name":"Static and Dynamic Hierarchical Graph Decompositions","_id":"bda196b2-d553-11ed-ba76-8e8ee6c21103","grant_number":"I05982"}],"day":"24","language":[{"iso":"eng"}],"OA_type":"gold","researchdata_availability":"no","date_published":"2024-10-24T00:00:00Z","abstract":[{"text":"Broadcast and Consensus are most fundamental tasks in distributed computing. These tasks are particularly challenging in dynamic networks where communication across the network links may be unreliable, e.g., due to mobility or failures. Over the last years, researchers have derived several impossibility results and high time complexity lower bounds for these tasks. Specifically for the setting where in each round of communication the adversary is allowed to choose one rooted tree along which the information is disseminated, there is a lower as well as an upper bound that is linear in the number n of nodes for Broadcast and for n ≥ 3 the adversary can guarantee that Consensus never happens. This setting is called the oblivious message adversary for rooted trees. Also note that if the adversary is allowed to choose a graph that does not contain a rooted tree, then it can guarantee that Broadcast and Consensus will never happen. However, such deterministic adversarial models may be overly pessimistic, as many processes in real-world settings are stochastic in nature rather than worst-case. This paper studies Broadcast on stochastic dynamic networks and shows that the situation is very different to the deterministic case. In particular, we show that if information dissemination occurs along random rooted trees and directed Erdős–Rényi graphs, Broadcast completes in O(log n) rounds of communication with high probability. The fundamental insight in our analysis is that key variables are mutually independent. We then study two adversarial models, (a) one with Byzantine nodes and (b) one where an adversary controls the edges. (a) Our techniques without Byzantine nodes are general enough so that they can be extended to Byzantine nodes. (b) In the spirit of smoothed analysis, we introduce the notion of randomized oblivious message adversary, where in each round, an adversary picks k ≤ 2n/3 edges to appear in the communication network, and then a graph (e.g. rooted tree or directed Erdős–Rényi graph) is chosen uniformly at random among the set of all such graphs that include these edges. We show that Broadcast completes in a finite number of rounds, which is, e.g., O(k+log n) rounds in rooted trees. We then extend these results to All-to-All Broadcast, and Consensus, and give lower bounds that show that most of our upper bounds are tight.","lang":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","month":"10","citation":{"chicago":"El-Hayek, Antoine, Monika Henzinger, and Stefan Schmid. “Broadcast and Consensus in Stochastic Dynamic Networks with Byzantine Nodes and Adversarial Edges.” In <i>38th International Symposium on Distributed Computing</i>, Vol. 319. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. <a href=\"https://doi.org/10.4230/LIPIcs.DISC.2024.21\">https://doi.org/10.4230/LIPIcs.DISC.2024.21</a>.","ama":"El-Hayek A, Henzinger M, Schmid S. Broadcast and Consensus in stochastic dynamic networks with Byzantine nodes and adversarial edges. In: <i>38th International Symposium on Distributed Computing</i>. Vol 319. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2024. doi:<a href=\"https://doi.org/10.4230/LIPIcs.DISC.2024.21\">10.4230/LIPIcs.DISC.2024.21</a>","short":"A. El-Hayek, M. Henzinger, S. Schmid, in:, 38th International Symposium on Distributed Computing, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024.","apa":"El-Hayek, A., Henzinger, M., &#38; Schmid, S. (2024). Broadcast and Consensus in stochastic dynamic networks with Byzantine nodes and adversarial edges. In <i>38th International Symposium on Distributed Computing</i> (Vol. 319). Madrid, Spain: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.DISC.2024.21\">https://doi.org/10.4230/LIPIcs.DISC.2024.21</a>","ieee":"A. El-Hayek, M. Henzinger, and S. Schmid, “Broadcast and Consensus in stochastic dynamic networks with Byzantine nodes and adversarial edges,” in <i>38th International Symposium on Distributed Computing</i>, Madrid, Spain, 2024, vol. 319.","ista":"El-Hayek A, Henzinger M, Schmid S. 2024. Broadcast and Consensus in stochastic dynamic networks with Byzantine nodes and adversarial edges. 38th International Symposium on Distributed Computing. DISC: Symposium on Distributed Computing, LIPIcs, vol. 319, 21.","mla":"El-Hayek, Antoine, et al. “Broadcast and Consensus in Stochastic Dynamic Networks with Byzantine Nodes and Adversarial Edges.” <i>38th International Symposium on Distributed Computing</i>, vol. 319, 21, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024, doi:<a href=\"https://doi.org/10.4230/LIPIcs.DISC.2024.21\">10.4230/LIPIcs.DISC.2024.21</a>."},"title":"Broadcast and Consensus in stochastic dynamic networks with Byzantine nodes and adversarial edges","year":"2024","ddc":["000"],"fulldoi":"https://doi.org/10.4230/LIPIcs.DISC.2024.21","_id":"18557","quality_controlled":"1","author":[{"last_name":"El-Hayek","orcid":"0000-0003-4268-7368","id":"888a098e-fcac-11ee-aff7-d347be57b725","full_name":"El-Hayek, Antoine","first_name":"Antoine"},{"last_name":"Henzinger","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","orcid":"0000-0002-5008-6530","full_name":"Henzinger, Monika H","first_name":"Monika H"},{"first_name":"Stefan","full_name":"Schmid, Stefan","last_name":"Schmid"}],"status":"public","intvolume":"       319","doi":"10.4230/LIPIcs.DISC.2024.21","oa_version":"Published Version","corr_author":"1","arxiv":1,"article_processing_charge":"Yes","OA_place":"publisher","scopus_import":"1","conference":{"end_date":"2024-11-01","location":"Madrid, Spain","name":"DISC: Symposium on Distributed Computing","start_date":"2024-10-28"},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_number":"21","external_id":{"arxiv":["2302.11988"],"isi":["001542467600021"]}},{"oa":1,"date_created":"2024-09-29T22:01:38Z","publication":"International Conference on Approximation Algorithms for Combinatorial Optimization Problems ","das_tickbox":"0","has_accepted_license":"1","acknowledgement":"Monika Henzinger: This project has received funding from the European Research Council\r\n(ERC) under the European Union’s Horizon 2020 research and innovation programme (MoDynStruct,No. 101019564) and the Austrian Science Fund (FWF) grant DOI 10.55776/Z422, grant DOI 10.55776/I5982, and grant DOI 10.55776/P33775 with additional funding from the netidee SCIENCE Stiftung, 2020–2024.\r\nTeresa Anna Steiner: Supported by a research grant (VIL51463) from VILLUM FONDEN.","ec_funded":1,"volume":317,"alternative_title":["LIPIcs"],"type":"conference","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","publication_identifier":{"issn":["1868-8969"],"isbn":["9783959773485"]},"isi":1,"file":[{"date_updated":"2024-10-01T10:07:14Z","file_name":"2024_LIPICs_HenzingerM.pdf","file_id":"18166","date_created":"2024-10-01T10:07:14Z","content_type":"application/pdf","file_size":973917,"access_level":"open_access","success":1,"creator":"dernst","relation":"main_file","checksum":"c08b41c896e4d8c69570044808b40e0b"}],"date_updated":"2026-10-21T08:04:23Z","supplementarymaterial":"no","language":[{"iso":"eng"}],"day":"16","project":[{"name":"The design and evaluation of modern fully dynamic data structures","_id":"bd9ca328-d553-11ed-ba76-dc4f890cfe62","call_identifier":"H2020","grant_number":"101019564"},{"_id":"34def286-11ca-11ed-8bc3-da5948e1613c","name":"Efficient algorithms","grant_number":"Z00422"},{"grant_number":"I05982","name":"Static and Dynamic Hierarchical Graph Decompositions","_id":"bda196b2-d553-11ed-ba76-8e8ee6c21103"},{"name":"Fast Algorithms for a Reactive Network Layer","_id":"bd9e3a2e-d553-11ed-ba76-8aa684ce17fe","grant_number":"P33775"}],"file_date_updated":"2024-10-01T10:07:14Z","department":[{"_id":"MoHe"}],"publication_status":"published","year":"2024","title":"Private counting of distinct elements in the turnstile model and extensions","month":"09","citation":{"mla":"Henzinger, Monika, et al. “Private Counting of Distinct Elements in the Turnstile Model and Extensions.” <i>International Conference on Approximation Algorithms for Combinatorial Optimization Problems </i>, vol. 317, 40, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024, doi:<a href=\"https://doi.org/10.4230/LIPIcs.APPROX/RANDOM.2024.40\">10.4230/LIPIcs.APPROX/RANDOM.2024.40</a>.","ista":"Henzinger M, Sricharan AR, Steiner TA. 2024. Private counting of distinct elements in the turnstile model and extensions. International Conference on Approximation Algorithms for Combinatorial Optimization Problems . APPROX: Conference on Approximation Algorithms for Combinatorial Optimization Problems, LIPIcs, vol. 317, 40.","chicago":"Henzinger, Monika, A. R. Sricharan, and Teresa Anna Steiner. “Private Counting of Distinct Elements in the Turnstile Model and Extensions.” In <i>International Conference on Approximation Algorithms for Combinatorial Optimization Problems </i>, Vol. 317. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. <a href=\"https://doi.org/10.4230/LIPIcs.APPROX/RANDOM.2024.40\">https://doi.org/10.4230/LIPIcs.APPROX/RANDOM.2024.40</a>.","ama":"Henzinger M, Sricharan AR, Steiner TA. Private counting of distinct elements in the turnstile model and extensions. In: <i>International Conference on Approximation Algorithms for Combinatorial Optimization Problems </i>. Vol 317. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2024. doi:<a href=\"https://doi.org/10.4230/LIPIcs.APPROX/RANDOM.2024.40\">10.4230/LIPIcs.APPROX/RANDOM.2024.40</a>","ieee":"M. Henzinger, A. R. Sricharan, and T. A. Steiner, “Private counting of distinct elements in the turnstile model and extensions,” in <i>International Conference on Approximation Algorithms for Combinatorial Optimization Problems </i>, London, United Kingdom, 2024, vol. 317.","short":"M. Henzinger, A.R. Sricharan, T.A. Steiner, in:, International Conference on Approximation Algorithms for Combinatorial Optimization Problems , Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024.","apa":"Henzinger, M., Sricharan, A. R., &#38; Steiner, T. A. (2024). Private counting of distinct elements in the turnstile model and extensions. In <i>International Conference on Approximation Algorithms for Combinatorial Optimization Problems </i> (Vol. 317). London, United Kingdom: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.APPROX/RANDOM.2024.40\">https://doi.org/10.4230/LIPIcs.APPROX/RANDOM.2024.40</a>"},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","date_published":"2024-09-16T00:00:00Z","researchdata_availability":"no","abstract":[{"lang":"eng","text":"Privately counting distinct elements in a stream is a fundamental data analysis problem with many applications in machine learning. In the turnstile model, Jain et al. [NeurIPS2023] initiated the study of this problem parameterized by the maximum flippancy of any element, i.e., the number of times that the count of an element changes from 0 to above 0 or vice versa. They give an item-level (ε,δ)-differentially private algorithm whose additive error is tight with respect to that parameterization. In this work, we show that a very simple algorithm based on the sparse vector technique achieves a tight additive error for item-level (ε,δ)-differential privacy and item-level ε-differential privacy with regards to a different parameterization, namely the sum of all flippancies. Our second result is a bound which shows that for a large class of algorithms, including all existing differentially private algorithms for this problem, the lower bound from item-level differential privacy extends to event-level differential privacy. This partially answers an open question by Jain et al. [NeurIPS2023]."}],"corr_author":"1","oa_version":"Published Version","doi":"10.4230/LIPIcs.APPROX/RANDOM.2024.40","intvolume":"       317","_id":"18156","quality_controlled":"1","status":"public","author":[{"full_name":"Henzinger, Monika H","first_name":"Monika H","last_name":"Henzinger","orcid":"0000-0002-5008-6530","id":"540c9bbd-f2de-11ec-812d-d04a5be85630"},{"last_name":"Sricharan","full_name":"Sricharan, A. R.","first_name":"A. R."},{"last_name":"Steiner","full_name":"Steiner, Teresa Anna","first_name":"Teresa Anna"}],"fulldoi":"https://doi.org/10.4230/LIPIcs.APPROX/RANDOM.2024.40","ddc":["000"],"external_id":{"isi":["001545634500040"],"arxiv":["2408.11637"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_number":"40","conference":{"location":"London, United Kingdom","end_date":"2024-08-30","name":"APPROX: Conference on Approximation Algorithms for Combinatorial Optimization Problems","start_date":"2024-08-27"},"scopus_import":"1","article_processing_charge":"No","arxiv":1}]