[{"date_created":"2023-08-05T18:25:22Z","file_date_updated":"2023-08-07T09:48:08Z","ddc":["530"],"volume":108,"publication":"Physical Review B","article_processing_charge":"Yes (in subscription journal)","scopus_import":"1","type":"journal_article","month":"08","author":[{"last_name":"Brighi","full_name":"Brighi, Pietro","first_name":"Pietro","orcid":"0000-0002-7969-2729","id":"4115AF5C-F248-11E8-B48F-1D18A9856A87"},{"id":"F75EE9BE-5C90-11EA-905D-16643DDC885E","full_name":"Ljubotina, Marko","first_name":"Marko","last_name":"Ljubotina"},{"first_name":"Dmitry A.","full_name":"Abanin, Dmitry A.","last_name":"Abanin"},{"id":"47809E7E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2399-5827","last_name":"Serbyn","full_name":"Serbyn, Maksym","first_name":"Maksym"}],"language":[{"iso":"eng"}],"acknowledgement":"We thank A. A. Michailidis and A. Mirlin for insightful discussions. P.B., M.L., and M.S. acknowledge support by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (Grant Agreement No. 850899). D.A. was\r\nsupported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (Grant Agreement No. 864597) and by the Swiss National Science Foundation. P.B., M.L., and M.S. acknowledge PRACE for awarding us access to Joliot-Curie at GENCI@CEA, France, where the TEBD simulations were performed. The TEBD simulations were performed using the ITensor library [60].","_id":"13963","abstract":[{"lang":"eng","text":"The many-body localization (MBL) proximity effect is an intriguing phenomenon where a thermal bath localizes due to the interaction with a disordered system. The interplay of thermal and nonergodic behavior in these systems gives rise to a rich phase diagram, whose exploration is an active field of research. In this paper, we study a bosonic Hubbard model featuring two particle species representing the bath and the disordered system. Using state-of-the-art numerical techniques, we investigate the dynamics of the model in different regimes, based on which we obtain a tentative phase diagram as a function of coupling strength and bath size. When the bath is composed of a single particle, we observe clear signatures of a transition from an MBL proximity effect to a delocalized phase. Increasing the bath size, however, its thermalizing effect becomes stronger and eventually the whole system delocalizes in the range of moderate interaction strengths studied. In this regime, we characterize particle transport, revealing diffusive behavior of the originally localized bosons."}],"ec_funded":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","project":[{"name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E","call_identifier":"H2020","grant_number":"850899"}],"publisher":"American Physical Society","year":"2023","has_accepted_license":"1","issue":"5","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"title":"Many-body localization proximity effect in a two-species bosonic Hubbard model","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"day":"01","doi":"10.1103/physrevb.108.054201","article_number":"054201","date_updated":"2023-08-07T09:51:39Z","intvolume":"       108","status":"public","oa":1,"external_id":{"arxiv":["2303.16876"]},"license":"https://creativecommons.org/licenses/by/4.0/","quality_controlled":"1","arxiv":1,"citation":{"ama":"Brighi P, Ljubotina M, Abanin DA, Serbyn M. Many-body localization proximity effect in a two-species bosonic Hubbard model. <i>Physical Review B</i>. 2023;108(5). doi:<a href=\"https://doi.org/10.1103/physrevb.108.054201\">10.1103/physrevb.108.054201</a>","apa":"Brighi, P., Ljubotina, M., Abanin, D. A., &#38; Serbyn, M. (2023). Many-body localization proximity effect in a two-species bosonic Hubbard model. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevb.108.054201\">https://doi.org/10.1103/physrevb.108.054201</a>","chicago":"Brighi, Pietro, Marko Ljubotina, Dmitry A. Abanin, and Maksym Serbyn. “Many-Body Localization Proximity Effect in a Two-Species Bosonic Hubbard Model.” <i>Physical Review B</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/physrevb.108.054201\">https://doi.org/10.1103/physrevb.108.054201</a>.","ieee":"P. Brighi, M. Ljubotina, D. A. Abanin, and M. Serbyn, “Many-body localization proximity effect in a two-species bosonic Hubbard model,” <i>Physical Review B</i>, vol. 108, no. 5. American Physical Society, 2023.","short":"P. Brighi, M. Ljubotina, D.A. Abanin, M. Serbyn, Physical Review B 108 (2023).","mla":"Brighi, Pietro, et al. “Many-Body Localization Proximity Effect in a Two-Species Bosonic Hubbard Model.” <i>Physical Review B</i>, vol. 108, no. 5, 054201, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/physrevb.108.054201\">10.1103/physrevb.108.054201</a>.","ista":"Brighi P, Ljubotina M, Abanin DA, Serbyn M. 2023. Many-body localization proximity effect in a two-species bosonic Hubbard model. Physical Review B. 108(5), 054201."},"publication_status":"published","article_type":"original","date_published":"2023-08-01T00:00:00Z","department":[{"_id":"MaSe"}],"file":[{"date_updated":"2023-08-07T09:48:08Z","file_size":3051398,"checksum":"f763000339b5fd543c14377109920690","relation":"main_file","access_level":"open_access","file_name":"2023_PhysRevB_Brighi.pdf","success":1,"date_created":"2023-08-07T09:48:08Z","content_type":"application/pdf","file_id":"13981","creator":"dernst"}],"oa_version":"Published Version"},{"oa":1,"external_id":{"isi":["001047020200001"],"pmid":["37441873"]},"date_updated":"2023-12-13T12:05:31Z","status":"public","intvolume":"        81","title":"Concepts, mechanisms and implications of long-term epigenetic inheritance","has_accepted_license":"1","issue":"8","publication_identifier":{"issn":["0959-437X"],"eissn":["1879-0380"]},"isi":1,"day":"01","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"doi":"10.1016/j.gde.2023.102087","article_number":"102087","year":"2023","department":[{"_id":"DaZi"}],"oa_version":"Published Version","file":[{"date_updated":"2023-08-07T08:32:26Z","access_level":"open_access","relation":"main_file","checksum":"a294cd9506b80ed6ef218ef44ed32765","file_size":2568632,"file_name":"2023_CurrentOpinionGenetics_Hollwey.pdf","success":1,"date_created":"2023-08-07T08:32:26Z","file_id":"13980","content_type":"application/pdf","creator":"dernst"}],"date_published":"2023-08-01T00:00:00Z","article_type":"original","citation":{"ieee":"E. Hollwey, A. Briffa, M. Howard, and D. Zilberman, “Concepts, mechanisms and implications of long-term epigenetic inheritance,” <i>Current Opinion in Genetics and Development</i>, vol. 81, no. 8. Elsevier, 2023.","mla":"Hollwey, Elizabeth, et al. “Concepts, Mechanisms and Implications of Long-Term Epigenetic Inheritance.” <i>Current Opinion in Genetics and Development</i>, vol. 81, no. 8, 102087, Elsevier, 2023, doi:<a href=\"https://doi.org/10.1016/j.gde.2023.102087\">10.1016/j.gde.2023.102087</a>.","short":"E. Hollwey, A. Briffa, M. Howard, D. Zilberman, Current Opinion in Genetics and Development 81 (2023).","ista":"Hollwey E, Briffa A, Howard M, Zilberman D. 2023. Concepts, mechanisms and implications of long-term epigenetic inheritance. Current Opinion in Genetics and Development. 81(8), 102087.","ama":"Hollwey E, Briffa A, Howard M, Zilberman D. Concepts, mechanisms and implications of long-term epigenetic inheritance. <i>Current Opinion in Genetics and Development</i>. 2023;81(8). doi:<a href=\"https://doi.org/10.1016/j.gde.2023.102087\">10.1016/j.gde.2023.102087</a>","apa":"Hollwey, E., Briffa, A., Howard, M., &#38; Zilberman, D. (2023). Concepts, mechanisms and implications of long-term epigenetic inheritance. <i>Current Opinion in Genetics and Development</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.gde.2023.102087\">https://doi.org/10.1016/j.gde.2023.102087</a>","chicago":"Hollwey, Elizabeth, Amy Briffa, Martin Howard, and Daniel Zilberman. “Concepts, Mechanisms and Implications of Long-Term Epigenetic Inheritance.” <i>Current Opinion in Genetics and Development</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.gde.2023.102087\">https://doi.org/10.1016/j.gde.2023.102087</a>."},"quality_controlled":"1","month":"08","language":[{"iso":"eng"}],"author":[{"full_name":"Hollwey, Elizabeth","first_name":"Elizabeth","last_name":"Hollwey","id":"b8c4f54b-e484-11eb-8fdc-a54df64ef6dd"},{"last_name":"Briffa","full_name":"Briffa, Amy","first_name":"Amy"},{"last_name":"Howard","full_name":"Howard, Martin","first_name":"Martin"},{"id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","orcid":"0000-0002-0123-8649","last_name":"Zilberman","full_name":"Zilberman, Daniel","first_name":"Daniel"}],"type":"journal_article","article_processing_charge":"Yes (via OA deal)","publication":"Current Opinion in Genetics and Development","scopus_import":"1","volume":81,"ddc":["570"],"file_date_updated":"2023-08-07T08:32:26Z","date_created":"2023-08-06T22:01:10Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Elsevier","abstract":[{"text":"Many modes and mechanisms of epigenetic inheritance have been elucidated in eukaryotes. Most of them are relatively short-term, generally not exceeding one or a few organismal generations. However, emerging evidence indicates that one mechanism, cytosine DNA methylation, can mediate epigenetic inheritance over much longer timescales, which are mostly or completely inaccessible in the laboratory. Here we discuss the evidence for, and mechanisms and implications of, such long-term epigenetic inheritance. We argue that compelling evidence supports the long-term epigenetic inheritance of gene body methylation, at least in the model angiosperm Arabidopsis thaliana, and that variation in such methylation can therefore serve as an epigenetic basis for phenotypic variation in natural populations.","lang":"eng"}],"pmid":1,"_id":"13965"},{"abstract":[{"text":"We present a low-scaling diagrammatic Monte Carlo approach to molecular correlation energies. Using combinatorial graph theory to encode many-body Hugenholtz diagrams, we sample the Møller-Plesset (MPn) perturbation series, obtaining accurate correlation energies up to n=5, with quadratic scaling in the number of basis functions. Our technique reduces the computational complexity of the molecular many-fermion correlation problem, opening up the possibility of low-scaling, accurate stochastic computations for a wide class of many-body systems described by Hugenholtz diagrams.","lang":"eng"}],"_id":"13966","acknowledgement":"We acknowledge stimulating discussions with Sergey Varganov, Artur Izmaylov, Jacek Kłos, Piotr Żuchowski, Dominika Zgid, Nikolay Prokof'ev, Boris Svistunov, Robert Parrish, and Andreas Heßelmann. G.B. and Q.P.H. acknowledge support from the Austrian Science Fund (FWF) under Projects No. M2641-N27 and No. M2751. M.L. acknowledges support by the FWF under Project No. P29902-N27, and by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). T.V.T. was supported by the NSF CAREER award No. PHY-2045681. This work is supported by the German Research Foundation (DFG) under Germany's Excellence Strategy EXC2181/1-390900948 (the Heidelberg STRUCTURES Excellence Cluster). The authors acknowledge support by the state of Baden-Württemberg through bwHPC.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"American Physical Society","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2203.12666","open_access":"1"}],"project":[{"name":"A path-integral approach to composite impurities","_id":"26986C82-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"M02641"},{"name":"Algebro-Geometric Applications of Factorization Homology","_id":"26B96266-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"M02751"},{"name":"Quantum rotations in the presence of a many-body environment","_id":"26031614-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"P29902"},{"grant_number":"801770","call_identifier":"H2020","_id":"2688CF98-B435-11E9-9278-68D0E5697425","name":"Angulon: physics and applications of a new quasiparticle"}],"ec_funded":1,"volume":108,"date_created":"2023-08-06T22:01:10Z","month":"07","language":[{"iso":"eng"}],"author":[{"orcid":"0000-0001-8823-9777","id":"4CA96FD4-F248-11E8-B48F-1D18A9856A87","last_name":"Bighin","first_name":"Giacomo","full_name":"Bighin, Giacomo"},{"first_name":"Quoc P","full_name":"Ho, Quoc P","last_name":"Ho","id":"3DD82E3C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6889-1418"},{"orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","first_name":"Mikhail","full_name":"Lemeshko, Mikhail","last_name":"Lemeshko"},{"first_name":"T. V.","full_name":"Tscherbul, T. V.","last_name":"Tscherbul"}],"type":"journal_article","article_processing_charge":"No","publication":"Physical Review B","scopus_import":"1","citation":{"ista":"Bighin G, Ho QP, Lemeshko M, Tscherbul TV. 2023. Diagrammatic Monte Carlo for electronic correlation in molecules: High-order many-body perturbation theory with low scaling. Physical Review B. 108(4), 045115.","mla":"Bighin, Giacomo, et al. “Diagrammatic Monte Carlo for Electronic Correlation in Molecules: High-Order Many-Body Perturbation Theory with Low Scaling.” <i>Physical Review B</i>, vol. 108, no. 4, 045115, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevB.108.045115\">10.1103/PhysRevB.108.045115</a>.","short":"G. Bighin, Q.P. Ho, M. Lemeshko, T.V. Tscherbul, Physical Review B 108 (2023).","ieee":"G. Bighin, Q. P. Ho, M. Lemeshko, and T. V. Tscherbul, “Diagrammatic Monte Carlo for electronic correlation in molecules: High-order many-body perturbation theory with low scaling,” <i>Physical Review B</i>, vol. 108, no. 4. American Physical Society, 2023.","chicago":"Bighin, Giacomo, Quoc P Ho, Mikhail Lemeshko, and T. V. Tscherbul. “Diagrammatic Monte Carlo for Electronic Correlation in Molecules: High-Order Many-Body Perturbation Theory with Low Scaling.” <i>Physical Review B</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevB.108.045115\">https://doi.org/10.1103/PhysRevB.108.045115</a>.","ama":"Bighin G, Ho QP, Lemeshko M, Tscherbul TV. Diagrammatic Monte Carlo for electronic correlation in molecules: High-order many-body perturbation theory with low scaling. <i>Physical Review B</i>. 2023;108(4). doi:<a href=\"https://doi.org/10.1103/PhysRevB.108.045115\">10.1103/PhysRevB.108.045115</a>","apa":"Bighin, G., Ho, Q. P., Lemeshko, M., &#38; Tscherbul, T. V. (2023). Diagrammatic Monte Carlo for electronic correlation in molecules: High-order many-body perturbation theory with low scaling. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.108.045115\">https://doi.org/10.1103/PhysRevB.108.045115</a>"},"publication_status":"published","arxiv":1,"quality_controlled":"1","department":[{"_id":"MiLe"},{"_id":"TaHa"}],"oa_version":"Preprint","date_published":"2023-07-15T00:00:00Z","article_type":"original","title":"Diagrammatic Monte Carlo for electronic correlation in molecules: High-order many-body perturbation theory with low scaling","issue":"4","publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]},"doi":"10.1103/PhysRevB.108.045115","article_number":"045115","day":"15","year":"2023","oa":1,"external_id":{"arxiv":["2203.12666"]},"date_updated":"2024-08-07T07:16:52Z","status":"public","intvolume":"       108"},{"oa":1,"external_id":{"isi":["001036707700042"],"arxiv":["2304.09930"]},"date_updated":"2023-12-13T12:06:10Z","status":"public","intvolume":"      2023","title":"Stopping criteria for value iteration on stochastic games with quantitative objectives","publication_identifier":{"issn":["1043-6871"],"isbn":["9798350335873"]},"isi":1,"day":"01","doi":"10.1109/LICS56636.2023.10175771","year":"2023","department":[{"_id":"KrCh"}],"oa_version":"Preprint","date_published":"2023-07-01T00:00:00Z","citation":{"ieee":"J. Kretinsky, T. Meggendorfer, and M. Weininger, “Stopping criteria for value iteration on stochastic games with quantitative objectives,” in <i>38th Annual ACM/IEEE Symposium on Logic in Computer Science</i>, Boston, MA, United States, 2023, vol. 2023.","short":"J. Kretinsky, T. Meggendorfer, M. Weininger, in:, 38th Annual ACM/IEEE Symposium on Logic in Computer Science, Institute of Electrical and Electronics Engineers, 2023.","mla":"Kretinsky, Jan, et al. “Stopping Criteria for Value Iteration on Stochastic Games with Quantitative Objectives.” <i>38th Annual ACM/IEEE Symposium on Logic in Computer Science</i>, vol. 2023, Institute of Electrical and Electronics Engineers, 2023, doi:<a href=\"https://doi.org/10.1109/LICS56636.2023.10175771\">10.1109/LICS56636.2023.10175771</a>.","ista":"Kretinsky J, Meggendorfer T, Weininger M. 2023. Stopping criteria for value iteration on stochastic games with quantitative objectives. 38th Annual ACM/IEEE Symposium on Logic in Computer Science. LICS: Symposium on Logic in Computer Science vol. 2023.","ama":"Kretinsky J, Meggendorfer T, Weininger M. Stopping criteria for value iteration on stochastic games with quantitative objectives. In: <i>38th Annual ACM/IEEE Symposium on Logic in Computer Science</i>. Vol 2023. Institute of Electrical and Electronics Engineers; 2023. doi:<a href=\"https://doi.org/10.1109/LICS56636.2023.10175771\">10.1109/LICS56636.2023.10175771</a>","apa":"Kretinsky, J., Meggendorfer, T., &#38; Weininger, M. (2023). Stopping criteria for value iteration on stochastic games with quantitative objectives. In <i>38th Annual ACM/IEEE Symposium on Logic in Computer Science</i> (Vol. 2023). Boston, MA, United States: Institute of Electrical and Electronics Engineers. <a href=\"https://doi.org/10.1109/LICS56636.2023.10175771\">https://doi.org/10.1109/LICS56636.2023.10175771</a>","chicago":"Kretinsky, Jan, Tobias Meggendorfer, and Maximilian Weininger. “Stopping Criteria for Value Iteration on Stochastic Games with Quantitative Objectives.” In <i>38th Annual ACM/IEEE Symposium on Logic in Computer Science</i>, Vol. 2023. Institute of Electrical and Electronics Engineers, 2023. <a href=\"https://doi.org/10.1109/LICS56636.2023.10175771\">https://doi.org/10.1109/LICS56636.2023.10175771</a>."},"publication_status":"published","arxiv":1,"quality_controlled":"1","month":"07","author":[{"full_name":"Kretinsky, Jan","first_name":"Jan","last_name":"Kretinsky","id":"44CEF464-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8122-2881"},{"last_name":"Meggendorfer","full_name":"Meggendorfer, Tobias","first_name":"Tobias","id":"b21b0c15-30a2-11eb-80dc-f13ca25802e1","orcid":"0000-0002-1712-2165"},{"id":"02ab0197-cc70-11ed-ab61-918e71f56881","last_name":"Weininger","full_name":"Weininger, Maximilian","first_name":"Maximilian"}],"conference":{"start_date":"2023-06-26","end_date":"2023-06-29","location":"Boston, MA, United States","name":"LICS: Symposium on Logic in Computer Science"},"language":[{"iso":"eng"}],"type":"conference","article_processing_charge":"No","publication":"38th Annual ACM/IEEE Symposium on Logic in Computer Science","scopus_import":"1","volume":2023,"date_created":"2023-08-06T22:01:10Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Institute of Electrical and Electronics Engineers","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2304.09930","open_access":"1"}],"abstract":[{"lang":"eng","text":"A classic solution technique for Markov decision processes (MDP) and stochastic games (SG) is value iteration (VI). Due to its good practical performance, this approximative approach is typically preferred over exact techniques, even though no practical bounds on the imprecision of the result could be given until recently. As a consequence, even the most used model checkers could return arbitrarily wrong results. Over the past decade, different works derived stopping criteria, indicating when the precision reaches the desired level, for various settings, in particular MDP with reachability, total reward, and mean payoff, and SG with reachability.In this paper, we provide the first stopping criteria for VI on SG with total reward and mean payoff, yielding the first anytime algorithms in these settings. To this end, we provide the solution in two flavours: First through a reduction to the MDP case and second directly on SG. The former is simpler and automatically utilizes any advances on MDP. The latter allows for more local computations, heading towards better practical efficiency.Our solution unifies the previously mentioned approaches for MDP and SG and their underlying ideas. To achieve this, we isolate objective-specific subroutines as well as identify objective-independent concepts. These structural concepts, while surprisingly simple, form the very essence of the unified solution."}],"_id":"13967","acknowledgement":"This research was funded in part by DFG projects 383882557 “SUV” and 427755713 “GOPro”."},{"publisher":"Frontiers","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledged_ssus":[{"_id":"EM-Fac"}],"abstract":[{"lang":"eng","text":"The use of multimodal readout mechanisms next to label-free real-time monitoring of biomolecular interactions can provide valuable insight into surface-based reaction mechanisms. To this end, the combination of an electrolyte-gated field-effect transistor (EG-FET) with a fiber optic-coupled surface plasmon resonance (FO-SPR) probe serving as gate electrode has been investigated to deconvolute surface mass and charge density variations associated to surface reactions. However, applying an electrochemical potential on such gold-coated FO-SPR gate electrodes can induce gradual morphological changes of the thin gold film, leading to an irreversible blue-shift of the SPR wavelength and a substantial signal drift. We show that mild annealing leads to optical and electronic signal stabilization (20-fold lower signal drift than as-sputtered fiber optic gates) and improved overall analytical performance characteristics. The thermal treatment prevents morphological changes of the thin gold-film occurring during operation, hence providing reliable and stable data immediately upon gate voltage application. Thus, the readout output of both transducing principles, the optical FO-SPR and electronic EG-FET, stays constant throughout the whole sensing time-window and the long-term effect of thermal treatment is also improved, providing stable signals even after 1 year of storage. Annealing should therefore be considered a necessary modification for applying fiber optic gate electrodes in real-time multimodal investigations of surface reactions at the solid-liquid interface."}],"acknowledgement":"This project has received funding from the European Union’s Horizon 2020 Research and Innovation Programme under the Marie Skłodowska-Curie grant agreement No. 813863–BORGES. We further thank the office of the Federal Government of Lower Austria, K3-Group–Culture, Science and Education, for their financial support as part of the project “Responsive Wound Dressing”. We gratefully acknowledge the financial support from the Austrian Research Promotion Agency (FFG; 888067).\r\nWe thank the Electron Microscopy Facility at IST Austria for their support with sputter coating the FO tips and Bernhard Pichler from AIT for software development to facilitate data evaluation.","_id":"13968","type":"journal_article","author":[{"first_name":"Roger","full_name":"Hasler, Roger","last_name":"Hasler"},{"last_name":"Steger-Polt","full_name":"Steger-Polt, Marie Helene","first_name":"Marie Helene"},{"last_name":"Reiner-Rozman","full_name":"Reiner-Rozman, Ciril","first_name":"Ciril"},{"full_name":"Fossati, Stefan","first_name":"Stefan","last_name":"Fossati"},{"full_name":"Lee, Seungho","first_name":"Seungho","last_name":"Lee","orcid":"0000-0002-6962-8598","id":"BB243B88-D767-11E9-B658-BC13E6697425"},{"last_name":"Aspermair","full_name":"Aspermair, Patrik","first_name":"Patrik"},{"last_name":"Kleber","full_name":"Kleber, Christoph","first_name":"Christoph"},{"full_name":"Ibáñez, Maria","first_name":"Maria","last_name":"Ibáñez","id":"43C61214-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5013-2843"},{"last_name":"Dostalek","full_name":"Dostalek, Jakub","first_name":"Jakub"},{"last_name":"Knoll","full_name":"Knoll, Wolfgang","first_name":"Wolfgang"}],"language":[{"iso":"eng"}],"month":"07","scopus_import":"1","publication":"Frontiers in Physics","article_processing_charge":"Yes","file_date_updated":"2023-08-07T07:48:11Z","volume":11,"ddc":["530"],"date_created":"2023-08-06T22:01:11Z","file":[{"content_type":"application/pdf","file_id":"13978","success":1,"date_created":"2023-08-07T07:48:11Z","creator":"dernst","date_updated":"2023-08-07T07:48:11Z","file_name":"2023_FrontiersPhysics_Hasler.pdf","file_size":2421758,"checksum":"fb36dda665e57bab006a000bf0faacd5","access_level":"open_access","relation":"main_file"}],"oa_version":"Published Version","department":[{"_id":"MaIb"}],"article_type":"original","date_published":"2023-07-14T00:00:00Z","publication_status":"published","citation":{"ama":"Hasler R, Steger-Polt MH, Reiner-Rozman C, et al. Optical and electronic signal stabilization of plasmonic fiber optic gate electrodes: Towards improved real-time dual-mode biosensing. <i>Frontiers in Physics</i>. 2023;11. doi:<a href=\"https://doi.org/10.3389/fphy.2023.1202132\">10.3389/fphy.2023.1202132</a>","apa":"Hasler, R., Steger-Polt, M. H., Reiner-Rozman, C., Fossati, S., Lee, S., Aspermair, P., … Knoll, W. (2023). Optical and electronic signal stabilization of plasmonic fiber optic gate electrodes: Towards improved real-time dual-mode biosensing. <i>Frontiers in Physics</i>. Frontiers. <a href=\"https://doi.org/10.3389/fphy.2023.1202132\">https://doi.org/10.3389/fphy.2023.1202132</a>","chicago":"Hasler, Roger, Marie Helene Steger-Polt, Ciril Reiner-Rozman, Stefan Fossati, Seungho Lee, Patrik Aspermair, Christoph Kleber, Maria Ibáñez, Jakub Dostalek, and Wolfgang Knoll. “Optical and Electronic Signal Stabilization of Plasmonic Fiber Optic Gate Electrodes: Towards Improved Real-Time Dual-Mode Biosensing.” <i>Frontiers in Physics</i>. Frontiers, 2023. <a href=\"https://doi.org/10.3389/fphy.2023.1202132\">https://doi.org/10.3389/fphy.2023.1202132</a>.","ieee":"R. Hasler <i>et al.</i>, “Optical and electronic signal stabilization of plasmonic fiber optic gate electrodes: Towards improved real-time dual-mode biosensing,” <i>Frontiers in Physics</i>, vol. 11. Frontiers, 2023.","short":"R. Hasler, M.H. Steger-Polt, C. Reiner-Rozman, S. Fossati, S. Lee, P. Aspermair, C. Kleber, M. Ibáñez, J. Dostalek, W. Knoll, Frontiers in Physics 11 (2023).","mla":"Hasler, Roger, et al. “Optical and Electronic Signal Stabilization of Plasmonic Fiber Optic Gate Electrodes: Towards Improved Real-Time Dual-Mode Biosensing.” <i>Frontiers in Physics</i>, vol. 11, 1202132, Frontiers, 2023, doi:<a href=\"https://doi.org/10.3389/fphy.2023.1202132\">10.3389/fphy.2023.1202132</a>.","ista":"Hasler R, Steger-Polt MH, Reiner-Rozman C, Fossati S, Lee S, Aspermair P, Kleber C, Ibáñez M, Dostalek J, Knoll W. 2023. Optical and electronic signal stabilization of plasmonic fiber optic gate electrodes: Towards improved real-time dual-mode biosensing. Frontiers in Physics. 11, 1202132."},"quality_controlled":"1","external_id":{"isi":["001038636400001"]},"oa":1,"intvolume":"        11","status":"public","date_updated":"2023-12-13T12:04:10Z","doi":"10.3389/fphy.2023.1202132","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"article_number":"1202132","day":"14","isi":1,"has_accepted_license":"1","publication_identifier":{"eissn":["2296-424X"]},"title":"Optical and electronic signal stabilization of plasmonic fiber optic gate electrodes: Towards improved real-time dual-mode biosensing","year":"2023"},{"quality_controlled":"1","arxiv":1,"publication_status":"published","citation":{"ista":"Arroyo Guevara AM, Felsner S. 2023. Approximating the bundled crossing number. Journal of Graph Algorithms and Applications. 27(6), 433–457.","mla":"Arroyo Guevara, Alan M., and Stefan Felsner. “Approximating the Bundled Crossing Number.” <i>Journal of Graph Algorithms and Applications</i>, vol. 27, no. 6, Brown University, 2023, pp. 433–57, doi:<a href=\"https://doi.org/10.7155/jgaa.00629\">10.7155/jgaa.00629</a>.","short":"A.M. Arroyo Guevara, S. Felsner, Journal of Graph Algorithms and Applications 27 (2023) 433–457.","ieee":"A. M. Arroyo Guevara and S. Felsner, “Approximating the bundled crossing number,” <i>Journal of Graph Algorithms and Applications</i>, vol. 27, no. 6. Brown University, pp. 433–457, 2023.","chicago":"Arroyo Guevara, Alan M, and Stefan Felsner. “Approximating the Bundled Crossing Number.” <i>Journal of Graph Algorithms and Applications</i>. Brown University, 2023. <a href=\"https://doi.org/10.7155/jgaa.00629\">https://doi.org/10.7155/jgaa.00629</a>.","ama":"Arroyo Guevara AM, Felsner S. Approximating the bundled crossing number. <i>Journal of Graph Algorithms and Applications</i>. 2023;27(6):433-457. doi:<a href=\"https://doi.org/10.7155/jgaa.00629\">10.7155/jgaa.00629</a>","apa":"Arroyo Guevara, A. M., &#38; Felsner, S. (2023). Approximating the bundled crossing number. <i>Journal of Graph Algorithms and Applications</i>. Brown University. <a href=\"https://doi.org/10.7155/jgaa.00629\">https://doi.org/10.7155/jgaa.00629</a>"},"article_type":"original","date_published":"2023-07-01T00:00:00Z","department":[{"_id":"UlWa"}],"file":[{"access_level":"open_access","relation":"main_file","checksum":"9c30d2b8e324cc1c904f2aeec92013a3","file_size":865774,"file_name":"2023_JourGraphAlgorithms_Arroyo.pdf","date_updated":"2023-08-07T08:00:48Z","creator":"dernst","date_created":"2023-08-07T08:00:48Z","success":1,"file_id":"13979","content_type":"application/pdf"}],"oa_version":"Published Version","year":"2023","title":"Approximating the bundled crossing number","has_accepted_license":"1","publication_identifier":{"issn":["1526-1719"]},"issue":"6","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"day":"01","doi":"10.7155/jgaa.00629","date_updated":"2023-09-25T10:56:10Z","intvolume":"        27","status":"public","oa":1,"external_id":{"arxiv":["2109.14892"]},"acknowledgement":"This work was initiated during the Workshop on Geometric Graphs in November 2019 in Strobl, Austria. We would like to thank Oswin Aichholzer, Fabian Klute, Man-Kwun Chiu, Martin Balko, Pavel Valtr for their avid discussions during the workshop. The first author has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sk lodowska-Curie grant agreement No 754411. The second author has been supported by the German Research Foundation DFG Project FE 340/12-1. An extended abstract of this paper has been published in the proceedings of WALCOM 2022 in the Springer LNCS series, vol. 13174, pages 383–395.","_id":"13969","abstract":[{"lang":"eng","text":"Bundling crossings is a strategy which can enhance the readability\r\nof graph drawings. In this paper we consider good drawings, i.e., we require that\r\nany two edges have at most one common point which can be a common vertex or a\r\ncrossing. Our main result is that there is a polynomial-time algorithm to compute an\r\n8-approximation of the bundled crossing number of a good drawing with no toothed\r\nhole. In general the number of toothed holes has to be added to the 8-approximation.\r\nIn the special case of circular drawings the approximation factor is 8, this improves\r\nupon the 10-approximation of Fink et al. [14]. Our approach also works with the same\r\napproximation factor for families of pseudosegments, i.e., curves intersecting at most\r\nonce. We also show how to compute a 9/2-approximation when the intersection graph of\r\nthe pseudosegments is bipartite and has no toothed hole."}],"ec_funded":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","project":[{"grant_number":"754411","call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"}],"publisher":"Brown University","page":"433-457","date_created":"2023-08-06T22:01:11Z","file_date_updated":"2023-08-07T08:00:48Z","related_material":{"record":[{"relation":"earlier_version","id":"11185","status":"public"}]},"volume":27,"ddc":["510"],"publication":"Journal of Graph Algorithms and Applications","article_processing_charge":"Yes","scopus_import":"1","type":"journal_article","month":"07","language":[{"iso":"eng"}],"author":[{"full_name":"Arroyo Guevara, Alan M","first_name":"Alan M","last_name":"Arroyo Guevara","orcid":"0000-0003-2401-8670","id":"3207FDC6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Felsner, Stefan","first_name":"Stefan","last_name":"Felsner"}]},{"oa":1,"intvolume":"       100","status":"public","date_updated":"2023-08-07T08:21:45Z","day":"01","doi":"10.15227/orgsyn.100.0271","title":"Visible-light-mediated oxidative debenzylation of 3-O-Benzyl-1,2:5,6-di-O-isopropylidene-α-D-glucofuranose","publication_identifier":{"eissn":["2333-3553"],"issn":["0078-6209"]},"year":"2023","oa_version":"Published Version","department":[{"_id":"BaPi"}],"article_type":"original","date_published":"2023-07-01T00:00:00Z","citation":{"chicago":"Madani, Amiera, Eric T. Sletten, Cristian Cavedon, Peter H. Seeberger, and Bartholomäus Pieber. “Visible-Light-Mediated Oxidative Debenzylation of 3-O-Benzyl-1,2:5,6-Di-O-Isopropylidene-α-D-Glucofuranose.” <i>Organic Syntheses</i>. Organic Syntheses, 2023. <a href=\"https://doi.org/10.15227/orgsyn.100.0271\">https://doi.org/10.15227/orgsyn.100.0271</a>.","ama":"Madani A, Sletten ET, Cavedon C, Seeberger PH, Pieber B. Visible-light-mediated oxidative debenzylation of 3-O-Benzyl-1,2:5,6-di-O-isopropylidene-α-D-glucofuranose. <i>Organic Syntheses</i>. 2023;100:271-286. doi:<a href=\"https://doi.org/10.15227/orgsyn.100.0271\">10.15227/orgsyn.100.0271</a>","apa":"Madani, A., Sletten, E. T., Cavedon, C., Seeberger, P. H., &#38; Pieber, B. (2023). Visible-light-mediated oxidative debenzylation of 3-O-Benzyl-1,2:5,6-di-O-isopropylidene-α-D-glucofuranose. <i>Organic Syntheses</i>. Organic Syntheses. <a href=\"https://doi.org/10.15227/orgsyn.100.0271\">https://doi.org/10.15227/orgsyn.100.0271</a>","ista":"Madani A, Sletten ET, Cavedon C, Seeberger PH, Pieber B. 2023. Visible-light-mediated oxidative debenzylation of 3-O-Benzyl-1,2:5,6-di-O-isopropylidene-α-D-glucofuranose. Organic Syntheses. 100, 271–286.","mla":"Madani, Amiera, et al. “Visible-Light-Mediated Oxidative Debenzylation of 3-O-Benzyl-1,2:5,6-Di-O-Isopropylidene-α-D-Glucofuranose.” <i>Organic Syntheses</i>, vol. 100, Organic Syntheses, 2023, pp. 271–86, doi:<a href=\"https://doi.org/10.15227/orgsyn.100.0271\">10.15227/orgsyn.100.0271</a>.","short":"A. Madani, E.T. Sletten, C. Cavedon, P.H. Seeberger, B. Pieber, Organic Syntheses 100 (2023) 271–286.","ieee":"A. Madani, E. T. Sletten, C. Cavedon, P. H. Seeberger, and B. Pieber, “Visible-light-mediated oxidative debenzylation of 3-O-Benzyl-1,2:5,6-di-O-isopropylidene-α-D-glucofuranose,” <i>Organic Syntheses</i>, vol. 100. Organic Syntheses, pp. 271–286, 2023."},"publication_status":"published","quality_controlled":"1","type":"journal_article","month":"07","language":[{"iso":"eng"}],"author":[{"last_name":"Madani","full_name":"Madani, Amiera","first_name":"Amiera"},{"last_name":"Sletten","first_name":"Eric T.","full_name":"Sletten, Eric T."},{"full_name":"Cavedon, Cristian","first_name":"Cristian","last_name":"Cavedon"},{"last_name":"Seeberger","full_name":"Seeberger, Peter H.","first_name":"Peter H."},{"last_name":"Pieber","first_name":"Bartholomäus","full_name":"Pieber, Bartholomäus","orcid":"0000-0001-8689-388X","id":"93e5e5b2-0da6-11ed-8a41-af589a024726"}],"scopus_import":"1","publication":"Organic Syntheses","article_processing_charge":"No","volume":100,"date_created":"2023-08-06T22:01:11Z","page":"271-286","main_file_link":[{"url":"https://doi.org/10.15227/orgsyn.100.0271","open_access":"1"}],"publisher":"Organic Syntheses","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"13970"},{"abstract":[{"text":"When in equilibrium, thermal forces agitate molecules, which then diffuse, collide and bind to form materials. However, the space of accessible structures in which micron-scale particles can be organized by thermal forces is limited, owing to the slow dynamics and metastable states. Active agents in a passive fluid generate forces and flows, forming a bath with active fluctuations. Two unanswered questions are whether those active agents can drive the assembly of passive components into unconventional states and which material properties they will exhibit. Here we show that passive, sticky beads immersed in a bath of swimming Escherichia coli bacteria aggregate into unconventional clusters and gels that are controlled by the activity of the bath. We observe a slow but persistent rotation of the aggregates that originates in the chirality of the E. coli flagella and directs aggregation into structures that are not accessible thermally. We elucidate the aggregation mechanism with a numerical model of spinning, sticky beads and reproduce quantitatively the experimental results. We show that internal activity controls the phase diagram and the structure of the aggregates. Overall, our results highlight the promising role of active baths in designing the structural and mechanical properties of materials with unconventional phases.","lang":"eng"}],"_id":"13971","acknowledgement":"D.G. and J.P. thank E. Krasnopeeva, C. Guet, G. Guessous and T. Hwa for providing the E. coli strains. This material is based upon work supported by the US Department of Energy under award DE-SC0019769. I.P. acknowledges funding by the European Union’s Horizon 2020 research and innovation programme under Marie Skłodowska-Curie Grant Agreement No. 101034413. A.Š. acknowledges funding from the European Research Council under the European Union’s Horizon 2020 research and innovation programme (Grant No. 802960). M.C.U. acknowledges funding from the European Union’s Horizon 2020 research and innovation programme under Marie Skłodowska-Curie Grant Agreement No. 754411.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Springer Nature","project":[{"grant_number":"101034413","call_identifier":"H2020","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","name":"IST-BRIDGE: International postdoctoral program"},{"name":"Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines","_id":"eba2549b-77a9-11ec-83b8-a81e493eae4e","call_identifier":"H2020","grant_number":"802960"},{"call_identifier":"H2020","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"ec_funded":1,"volume":19,"ddc":["530"],"file_date_updated":"2024-01-30T12:26:08Z","page":"1680-1688","date_created":"2023-08-06T22:01:11Z","month":"11","author":[{"first_name":"Daniel","full_name":"Grober, Daniel","last_name":"Grober","id":"abdfc56f-34fb-11ee-bd33-fd766fce5a99"},{"orcid":" 0000-0002-8843-9485 ","id":"9c805cd2-4b75-11ec-a374-db6dd0ed57fa","full_name":"Palaia, Ivan","first_name":"Ivan","last_name":"Palaia"},{"last_name":"Ucar","first_name":"Mehmet C","full_name":"Ucar, Mehmet C","orcid":"0000-0003-0506-4217","id":"50B2A802-6007-11E9-A42B-EB23E6697425"},{"orcid":"0000-0001-6005-1561","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","full_name":"Hannezo, Edouard B","first_name":"Edouard B","last_name":"Hannezo"},{"id":"bf63d406-f056-11eb-b41d-f263a6566d8b","orcid":"0000-0002-7854-2139","full_name":"Šarić, Anđela","first_name":"Anđela","last_name":"Šarić"},{"orcid":"0000-0002-7253-9465","id":"8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d","full_name":"Palacci, Jérémie A","first_name":"Jérémie A","last_name":"Palacci"}],"language":[{"iso":"eng"}],"type":"journal_article","article_processing_charge":"Yes","publication":"Nature Physics","scopus_import":"1","publication_status":"published","citation":{"ista":"Grober D, Palaia I, Ucar MC, Hannezo EB, Šarić A, Palacci JA. 2023. Unconventional colloidal aggregation in chiral bacterial baths. Nature Physics. 19, 1680–1688.","ieee":"D. Grober, I. Palaia, M. C. Ucar, E. B. Hannezo, A. Šarić, and J. A. Palacci, “Unconventional colloidal aggregation in chiral bacterial baths,” <i>Nature Physics</i>, vol. 19. Springer Nature, pp. 1680–1688, 2023.","short":"D. Grober, I. Palaia, M.C. Ucar, E.B. Hannezo, A. Šarić, J.A. Palacci, Nature Physics 19 (2023) 1680–1688.","mla":"Grober, Daniel, et al. “Unconventional Colloidal Aggregation in Chiral Bacterial Baths.” <i>Nature Physics</i>, vol. 19, Springer Nature, 2023, pp. 1680–88, doi:<a href=\"https://doi.org/10.1038/s41567-023-02136-x\">10.1038/s41567-023-02136-x</a>.","chicago":"Grober, Daniel, Ivan Palaia, Mehmet C Ucar, Edouard B Hannezo, Anđela Šarić, and Jérémie A Palacci. “Unconventional Colloidal Aggregation in Chiral Bacterial Baths.” <i>Nature Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41567-023-02136-x\">https://doi.org/10.1038/s41567-023-02136-x</a>.","ama":"Grober D, Palaia I, Ucar MC, Hannezo EB, Šarić A, Palacci JA. Unconventional colloidal aggregation in chiral bacterial baths. <i>Nature Physics</i>. 2023;19:1680-1688. doi:<a href=\"https://doi.org/10.1038/s41567-023-02136-x\">10.1038/s41567-023-02136-x</a>","apa":"Grober, D., Palaia, I., Ucar, M. C., Hannezo, E. B., Šarić, A., &#38; Palacci, J. A. (2023). Unconventional colloidal aggregation in chiral bacterial baths. <i>Nature Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41567-023-02136-x\">https://doi.org/10.1038/s41567-023-02136-x</a>"},"quality_controlled":"1","department":[{"_id":"EdHa"},{"_id":"AnSa"},{"_id":"JePa"}],"oa_version":"Published Version","file":[{"file_name":"2023_NaturePhysics_Grober.pdf","access_level":"open_access","relation":"main_file","file_size":6365607,"checksum":"7e282c2ebc0ac82125a04f6b4742d4c1","date_updated":"2024-01-30T12:26:08Z","creator":"dernst","file_id":"14906","content_type":"application/pdf","date_created":"2024-01-30T12:26:08Z","success":1}],"date_published":"2023-11-01T00:00:00Z","article_type":"original","publication_identifier":{"issn":["1745-2473"],"eissn":["1745-2481"]},"title":"Unconventional colloidal aggregation in chiral bacterial baths","has_accepted_license":"1","isi":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"doi":"10.1038/s41567-023-02136-x","day":"01","year":"2023","oa":1,"external_id":{"isi":["001037346400005"]},"date_updated":"2024-01-30T12:26:55Z","status":"public","intvolume":"        19"},{"oa_version":"Published Version","department":[{"_id":"BaPi"}],"article_type":"letter_note","date_published":"2023-07-27T00:00:00Z","publication_status":"epub_ahead","citation":{"apa":"Næsborg, L., Pieber, B., &#38; Wenger, O. S. (2023). Special Collection: Photocatalytic synthesis. <i>ChemCatChem</i>. Wiley. <a href=\"https://doi.org/10.1002/cctc.202300683\">https://doi.org/10.1002/cctc.202300683</a>","ama":"Næsborg L, Pieber B, Wenger OS. Special Collection: Photocatalytic synthesis. <i>ChemCatChem</i>. 2023. doi:<a href=\"https://doi.org/10.1002/cctc.202300683\">10.1002/cctc.202300683</a>","chicago":"Næsborg, Line, Bartholomäus Pieber, and Oliver S. Wenger. “Special Collection: Photocatalytic Synthesis.” <i>ChemCatChem</i>. Wiley, 2023. <a href=\"https://doi.org/10.1002/cctc.202300683\">https://doi.org/10.1002/cctc.202300683</a>.","mla":"Næsborg, Line, et al. “Special Collection: Photocatalytic Synthesis.” <i>ChemCatChem</i>, e202300683, Wiley, 2023, doi:<a href=\"https://doi.org/10.1002/cctc.202300683\">10.1002/cctc.202300683</a>.","short":"L. Næsborg, B. Pieber, O.S. Wenger, ChemCatChem (2023).","ieee":"L. Næsborg, B. Pieber, and O. S. Wenger, “Special Collection: Photocatalytic synthesis,” <i>ChemCatChem</i>. Wiley, 2023.","ista":"Næsborg L, Pieber B, Wenger OS. 2023. Special Collection: Photocatalytic synthesis. ChemCatChem., e202300683."},"quality_controlled":"1","external_id":{"isi":["001037859900001"]},"oa":1,"status":"public","date_updated":"2023-12-13T12:02:26Z","doi":"10.1002/cctc.202300683","day":"27","article_number":"e202300683","isi":1,"publication_identifier":{"eissn":["1867-3899"],"issn":["1867-3880"]},"title":"Special Collection: Photocatalytic synthesis","year":"2023","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/cctc.202300683"}],"publisher":"Wiley","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"This Special Collection is dedicated to the field of photocatalytic synthesis and contains a diverse selection of original research contributions. It includes studies on catalyst development, mechanistic investigations, method development and the use of enabling technologies, illustrating the many facets of state-of-the-art research in photocatalytic synthesis. Further, emerging topics are surveyed and discussed in three reviews and a concept article."}],"_id":"13972","type":"journal_article","month":"07","author":[{"last_name":"Næsborg","full_name":"Næsborg, Line","first_name":"Line"},{"orcid":"0000-0001-8689-388X","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","last_name":"Pieber","first_name":"Bartholomäus","full_name":"Pieber, Bartholomäus"},{"full_name":"Wenger, Oliver S.","first_name":"Oliver S.","last_name":"Wenger"}],"language":[{"iso":"eng"}],"scopus_import":"1","publication":"ChemCatChem","article_processing_charge":"No","date_created":"2023-08-06T22:01:12Z"},{"page":"447-478","date_created":"2023-08-06T22:01:12Z","ddc":["510"],"volume":73,"file_date_updated":"2023-08-07T07:19:42Z","article_processing_charge":"Yes (in subscription journal)","publication":"Annales de l'Institut Fourier","scopus_import":"1","language":[{"iso":"eng"}],"author":[{"id":"3572849A-F248-11E8-B48F-1D18A9856A87","first_name":"Julian","full_name":"Lyczak, Julian","last_name":"Lyczak"}],"month":"05","type":"journal_article","_id":"13973","acknowledgement":"This paper was completed as part of a project which received funding from the\r\nEuropean Union’s Horizon 2020 research and innovation programme under the Marie\r\nSkłodowska-Curie grant agreement No. 754411.","abstract":[{"lang":"eng","text":"We construct families of log K3 surfaces and study the arithmetic of their members. We use this to produce explicit surfaces with an order 5 Brauer–Manin obstruction to the integral Hasse principle."}],"ec_funded":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Association des Annales de l'Institut Fourier","project":[{"grant_number":"754411","call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"}],"year":"2023","has_accepted_license":"1","issue":"2","title":"Order 5 Brauer–Manin obstructions to the integral Hasse principle on log K3 surfaces","publication_identifier":{"issn":["0373-0956"]},"isi":1,"tmp":{"name":"Creative Commons Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0)","short":"CC BY-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nd/4.0/legalcode","image":"/image/cc_by_nd.png"},"doi":"10.5802/aif.3529","day":"12","date_updated":"2023-12-13T12:03:04Z","status":"public","intvolume":"        73","oa":1,"license":"https://creativecommons.org/licenses/by-nd/4.0/","external_id":{"isi":["001000279500001"],"arxiv":["2005.14013"]},"arxiv":1,"quality_controlled":"1","citation":{"chicago":"Lyczak, Julian. “Order 5 Brauer–Manin Obstructions to the Integral Hasse Principle on Log K3 Surfaces.” <i>Annales de l’Institut Fourier</i>. Association des Annales de l’Institut Fourier, 2023. <a href=\"https://doi.org/10.5802/aif.3529\">https://doi.org/10.5802/aif.3529</a>.","apa":"Lyczak, J. (2023). Order 5 Brauer–Manin obstructions to the integral Hasse principle on log K3 surfaces. <i>Annales de l’Institut Fourier</i>. Association des Annales de l’Institut Fourier. <a href=\"https://doi.org/10.5802/aif.3529\">https://doi.org/10.5802/aif.3529</a>","ama":"Lyczak J. Order 5 Brauer–Manin obstructions to the integral Hasse principle on log K3 surfaces. <i>Annales de l’Institut Fourier</i>. 2023;73(2):447-478. doi:<a href=\"https://doi.org/10.5802/aif.3529\">10.5802/aif.3529</a>","ista":"Lyczak J. 2023. Order 5 Brauer–Manin obstructions to the integral Hasse principle on log K3 surfaces. Annales de l’Institut Fourier. 73(2), 447–478.","ieee":"J. Lyczak, “Order 5 Brauer–Manin obstructions to the integral Hasse principle on log K3 surfaces,” <i>Annales de l’Institut Fourier</i>, vol. 73, no. 2. Association des Annales de l’Institut Fourier, pp. 447–478, 2023.","short":"J. Lyczak, Annales de l’Institut Fourier 73 (2023) 447–478.","mla":"Lyczak, Julian. “Order 5 Brauer–Manin Obstructions to the Integral Hasse Principle on Log K3 Surfaces.” <i>Annales de l’Institut Fourier</i>, vol. 73, no. 2, Association des Annales de l’Institut Fourier, 2023, pp. 447–78, doi:<a href=\"https://doi.org/10.5802/aif.3529\">10.5802/aif.3529</a>."},"publication_status":"published","date_published":"2023-05-12T00:00:00Z","article_type":"original","department":[{"_id":"TiBr"}],"file":[{"success":1,"date_created":"2023-08-07T07:19:42Z","file_id":"13977","content_type":"application/pdf","creator":"dernst","date_updated":"2023-08-07T07:19:42Z","relation":"main_file","access_level":"open_access","file_size":1529821,"checksum":"daf53fc614c894422e4c0fb3d2a2ae3e","file_name":"2023_AnnalesFourier_Lyczak.pdf"}],"oa_version":"Published Version"},{"oa_version":"Preprint","department":[{"_id":"UlWa"}],"date_published":"2023-07-27T00:00:00Z","article_type":"original","citation":{"ama":"Fulek R, Gärtner B, Kupavskii A, Valtr P, Wagner U. The crossing Tverberg theorem. <i>Discrete and Computational Geometry</i>. 2023. doi:<a href=\"https://doi.org/10.1007/s00454-023-00532-x\">10.1007/s00454-023-00532-x</a>","apa":"Fulek, R., Gärtner, B., Kupavskii, A., Valtr, P., &#38; Wagner, U. (2023). The crossing Tverberg theorem. <i>Discrete and Computational Geometry</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00454-023-00532-x\">https://doi.org/10.1007/s00454-023-00532-x</a>","chicago":"Fulek, Radoslav, Bernd Gärtner, Andrey Kupavskii, Pavel Valtr, and Uli Wagner. “The Crossing Tverberg Theorem.” <i>Discrete and Computational Geometry</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00454-023-00532-x\">https://doi.org/10.1007/s00454-023-00532-x</a>.","mla":"Fulek, Radoslav, et al. “The Crossing Tverberg Theorem.” <i>Discrete and Computational Geometry</i>, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s00454-023-00532-x\">10.1007/s00454-023-00532-x</a>.","short":"R. Fulek, B. Gärtner, A. Kupavskii, P. Valtr, U. Wagner, Discrete and Computational Geometry (2023).","ieee":"R. Fulek, B. Gärtner, A. Kupavskii, P. Valtr, and U. Wagner, “The crossing Tverberg theorem,” <i>Discrete and Computational Geometry</i>. Springer Nature, 2023.","ista":"Fulek R, Gärtner B, Kupavskii A, Valtr P, Wagner U. 2023. The crossing Tverberg theorem. Discrete and Computational Geometry."},"publication_status":"epub_ahead","arxiv":1,"quality_controlled":"1","external_id":{"isi":["001038546500001"],"arxiv":["1812.04911"]},"oa":1,"status":"public","date_updated":"2023-12-13T12:03:35Z","isi":1,"doi":"10.1007/s00454-023-00532-x","day":"27","publication_identifier":{"eissn":["1432-0444"],"issn":["0179-5376"]},"title":"The crossing Tverberg theorem","year":"2023","publisher":"Springer Nature","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.1812.04911","open_access":"1"}],"project":[{"name":"Eliminating intersections in drawings of graphs","_id":"261FA626-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"M02281"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"The Tverberg theorem is one of the cornerstones of discrete geometry. It states that, given a set X of at least (d+1)(r−1)+1 points in Rd, one can find a partition X=X1∪⋯∪Xr of X, such that the convex hulls of the Xi, i=1,…,r, all share a common point. In this paper, we prove a trengthening of this theorem that guarantees a partition which, in addition to the above, has the property that the boundaries of full-dimensional convex hulls have pairwise nonempty intersections. Possible generalizations and algorithmic aspects are also discussed. As a concrete application, we show that any n points in the plane in general position span ⌊n/3⌋ vertex-disjoint triangles that are pairwise crossing, meaning that their boundaries have pairwise nonempty intersections; this number is clearly best possible. A previous result of Álvarez-Rebollar et al. guarantees ⌊n/6⌋pairwise crossing triangles. Our result generalizes to a result about simplices in Rd, d≥2.","lang":"eng"}],"_id":"13974","acknowledgement":"Part of the research leading to this paper was done during the 16th Gremo Workshop on Open Problems (GWOP), Waltensburg, Switzerland, June 12–16, 2018. We thank Patrick Schnider for suggesting the problem, and Stefan Felsner, Malte Milatz, and Emo Welzl for fruitful discussions during the workshop. We also thank Stefan Felsner and Manfred Scheucher for finding, communicating the example from Sect. 3.3, and the kind permission to include their visualization of the point set. We thank Dömötör Pálvölgyi, the SoCG reviewers, and DCG reviewers for various helpful comments.\r\nR. Fulek gratefully acknowledges support from Austrian Science Fund (FWF), Project  M2281-N35. A. Kupavskii was supported by the Advanced Postdoc.Mobility Grant no. P300P2_177839 of the Swiss National Science Foundation. Research by P. Valtr was supported by the Grant no. 18-19158 S of the Czech Science Foundation (GAČR).","author":[{"last_name":"Fulek","full_name":"Fulek, Radoslav","first_name":"Radoslav","orcid":"0000-0001-8485-1774","id":"39F3FFE4-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Gärtner","full_name":"Gärtner, Bernd","first_name":"Bernd"},{"last_name":"Kupavskii","first_name":"Andrey","full_name":"Kupavskii, Andrey"},{"last_name":"Valtr","first_name":"Pavel","full_name":"Valtr, Pavel"},{"first_name":"Uli","full_name":"Wagner, Uli","last_name":"Wagner","id":"36690CA2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1494-0568"}],"language":[{"iso":"eng"}],"month":"07","type":"journal_article","scopus_import":"1","article_processing_charge":"No","publication":"Discrete and Computational Geometry","related_material":{"record":[{"status":"public","relation":"earlier_version","id":"6647"}]},"date_created":"2023-08-06T22:01:12Z"},{"has_accepted_license":"1","title":"Spectrum of Lévy–Khintchine random laplacian matrices","publication_identifier":{"issn":["0894-9840"],"eissn":["1572-9230"]},"day":"26","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"doi":"10.1007/s10959-023-01275-4","isi":1,"year":"2023","oa":1,"external_id":{"arxiv":["2210.07927"],"isi":["001038341000001"]},"date_updated":"2023-12-13T12:00:50Z","status":"public","citation":{"chicago":"Campbell, Andrew J, and Sean O’Rourke. “Spectrum of Lévy–Khintchine Random Laplacian Matrices.” <i>Journal of Theoretical Probability</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s10959-023-01275-4\">https://doi.org/10.1007/s10959-023-01275-4</a>.","apa":"Campbell, A. J., &#38; O’Rourke, S. (2023). Spectrum of Lévy–Khintchine random laplacian matrices. <i>Journal of Theoretical Probability</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10959-023-01275-4\">https://doi.org/10.1007/s10959-023-01275-4</a>","ama":"Campbell AJ, O’Rourke S. Spectrum of Lévy–Khintchine random laplacian matrices. <i>Journal of Theoretical Probability</i>. 2023. doi:<a href=\"https://doi.org/10.1007/s10959-023-01275-4\">10.1007/s10959-023-01275-4</a>","ista":"Campbell AJ, O’Rourke S. 2023. Spectrum of Lévy–Khintchine random laplacian matrices. Journal of Theoretical Probability.","ieee":"A. J. Campbell and S. O’Rourke, “Spectrum of Lévy–Khintchine random laplacian matrices,” <i>Journal of Theoretical Probability</i>. Springer Nature, 2023.","short":"A.J. Campbell, S. O’Rourke, Journal of Theoretical Probability (2023).","mla":"Campbell, Andrew J., and Sean O’Rourke. “Spectrum of Lévy–Khintchine Random Laplacian Matrices.” <i>Journal of Theoretical Probability</i>, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s10959-023-01275-4\">10.1007/s10959-023-01275-4</a>."},"publication_status":"epub_ahead","quality_controlled":"1","arxiv":1,"department":[{"_id":"LaEr"}],"oa_version":"Published Version","article_type":"original","date_published":"2023-07-26T00:00:00Z","ddc":["510"],"date_created":"2023-08-06T22:01:13Z","type":"journal_article","language":[{"iso":"eng"}],"month":"07","author":[{"id":"582b06a9-1f1c-11ee-b076-82ffce00dde4","full_name":"Campbell, Andrew J","first_name":"Andrew J","last_name":"Campbell"},{"last_name":"O’Rourke","first_name":"Sean","full_name":"O’Rourke, Sean"}],"publication":"Journal of Theoretical Probability","article_processing_charge":"Yes (via OA deal)","scopus_import":"1","abstract":[{"text":"We consider the spectrum of random Laplacian matrices of the form Ln=An−Dn where An\r\n is a real symmetric random matrix and Dn is a diagonal matrix whose entries are equal to the corresponding row sums of An. If An is a Wigner matrix with entries in the domain of attraction of a Gaussian distribution, the empirical spectral measure of Ln is known to converge to the free convolution of a semicircle distribution and a standard real Gaussian distribution. We consider real symmetric random matrices An with independent entries (up to symmetry) whose row sums converge to a purely non-Gaussian infinitely divisible distribution, which fall into the class of Lévy–Khintchine random matrices first introduced by Jung [Trans Am Math Soc, 370, (2018)]. Our main result shows that the empirical spectral measure of Ln  converges almost surely to a deterministic limit. A key step in the proof is to use the purely non-Gaussian nature of the row sums to build a random operator to which Ln converges in an appropriate sense. This operator leads to a recursive distributional equation uniquely describing the Stieltjes transform of the limiting empirical spectral measure.","lang":"eng"}],"acknowledgement":"The first author thanks Yizhe Zhu for pointing out reference [30]. We thank David Renfrew for comments on an earlier draft. We thank the anonymous referee for a careful reading and helpful comments.\r\nOpen access funding provided by Institute of Science and Technology (IST Austria).","_id":"13975","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"url":"https://doi.org/10.1007/s10959-023-01275-4","open_access":"1"}],"publisher":"Springer Nature"},{"oa":1,"external_id":{"pmid":["37496156"],"isi":["001081086100001"]},"date_updated":"2023-12-13T12:01:46Z","status":"public","intvolume":"        12","title":"Scientists without borders: Lessons from Ukraine","publication_identifier":{"eissn":["2047-217X"]},"isi":1,"day":"27","doi":"10.1093/gigascience/giad045","year":"2023","department":[{"_id":"FyKo"}],"oa_version":"Published Version","date_published":"2023-07-27T00:00:00Z","article_type":"original","citation":{"apa":"Wolfsberger, W., Chhugani, K., Shchubelka, K., Frolova, A., Salyha, Y., Zlenko, O., … Oleksyk, T. K. (2023). Scientists without borders: Lessons from Ukraine. <i>GigaScience</i>. Oxford Academic. <a href=\"https://doi.org/10.1093/gigascience/giad045\">https://doi.org/10.1093/gigascience/giad045</a>","ama":"Wolfsberger W, Chhugani K, Shchubelka K, et al. Scientists without borders: Lessons from Ukraine. <i>GigaScience</i>. 2023;12. doi:<a href=\"https://doi.org/10.1093/gigascience/giad045\">10.1093/gigascience/giad045</a>","chicago":"Wolfsberger, Walter, Karishma Chhugani, Khrystyna Shchubelka, Alina Frolova, Yuriy Salyha, Oksana Zlenko, Mykhailo Arych, et al. “Scientists without Borders: Lessons from Ukraine.” <i>GigaScience</i>. Oxford Academic, 2023. <a href=\"https://doi.org/10.1093/gigascience/giad045\">https://doi.org/10.1093/gigascience/giad045</a>.","short":"W. Wolfsberger, K. Chhugani, K. Shchubelka, A. Frolova, Y. Salyha, O. Zlenko, M. Arych, D. Dziuba, A. Parkhomenko, V. Smolanka, Z.H. Gümüş, E. Sezgin, A. Diaz-Lameiro, V.R. Toth, M. Maci, E. Bortz, F. Kondrashov, P.M. Morton, P.P. Łabaj, V. Romero, J. Hlávka, S. Mangul, T.K. Oleksyk, GigaScience 12 (2023).","mla":"Wolfsberger, Walter, et al. “Scientists without Borders: Lessons from Ukraine.” <i>GigaScience</i>, vol. 12, Oxford Academic, 2023, doi:<a href=\"https://doi.org/10.1093/gigascience/giad045\">10.1093/gigascience/giad045</a>.","ieee":"W. Wolfsberger <i>et al.</i>, “Scientists without borders: Lessons from Ukraine,” <i>GigaScience</i>, vol. 12. Oxford Academic, 2023.","ista":"Wolfsberger W, Chhugani K, Shchubelka K, Frolova A, Salyha Y, Zlenko O, Arych M, Dziuba D, Parkhomenko A, Smolanka V, Gümüş ZH, Sezgin E, Diaz-Lameiro A, Toth VR, Maci M, Bortz E, Kondrashov F, Morton PM, Łabaj PP, Romero V, Hlávka J, Mangul S, Oleksyk TK. 2023. Scientists without borders: Lessons from Ukraine. GigaScience. 12."},"publication_status":"epub_ahead","quality_controlled":"1","author":[{"full_name":"Wolfsberger, Walter","first_name":"Walter","last_name":"Wolfsberger"},{"full_name":"Chhugani, Karishma","first_name":"Karishma","last_name":"Chhugani"},{"first_name":"Khrystyna","full_name":"Shchubelka, Khrystyna","last_name":"Shchubelka"},{"full_name":"Frolova, Alina","first_name":"Alina","last_name":"Frolova"},{"first_name":"Yuriy","full_name":"Salyha, Yuriy","last_name":"Salyha"},{"last_name":"Zlenko","first_name":"Oksana","full_name":"Zlenko, Oksana"},{"last_name":"Arych","full_name":"Arych, Mykhailo","first_name":"Mykhailo"},{"first_name":"Dmytro","full_name":"Dziuba, Dmytro","last_name":"Dziuba"},{"full_name":"Parkhomenko, Andrii","first_name":"Andrii","last_name":"Parkhomenko"},{"last_name":"Smolanka","first_name":"Volodymyr","full_name":"Smolanka, Volodymyr"},{"first_name":"Zeynep H.","full_name":"Gümüş, Zeynep H.","last_name":"Gümüş"},{"full_name":"Sezgin, Efe","first_name":"Efe","last_name":"Sezgin"},{"last_name":"Diaz-Lameiro","full_name":"Diaz-Lameiro, Alondra","first_name":"Alondra"},{"last_name":"Toth","first_name":"Viktor R.","full_name":"Toth, Viktor R."},{"last_name":"Maci","full_name":"Maci, Megi","first_name":"Megi"},{"last_name":"Bortz","full_name":"Bortz, Eric","first_name":"Eric"},{"last_name":"Kondrashov","full_name":"Kondrashov, Fyodor","first_name":"Fyodor","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8243-4694"},{"full_name":"Morton, Patricia M.","first_name":"Patricia M.","last_name":"Morton"},{"full_name":"Łabaj, Paweł P.","first_name":"Paweł P.","last_name":"Łabaj"},{"first_name":"Veronika","full_name":"Romero, Veronika","last_name":"Romero"},{"full_name":"Hlávka, Jakub","first_name":"Jakub","last_name":"Hlávka"},{"first_name":"Serghei","full_name":"Mangul, Serghei","last_name":"Mangul"},{"first_name":"Taras K.","full_name":"Oleksyk, Taras K.","last_name":"Oleksyk"}],"language":[{"iso":"eng"}],"month":"07","type":"journal_article","article_processing_charge":"Yes","publication":"GigaScience","scopus_import":"1","volume":12,"date_created":"2023-08-06T22:01:13Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Oxford Academic","main_file_link":[{"url":"https://doi.org/10.1093/gigascience/giad045","open_access":"1"}],"abstract":[{"text":"Conflicts and natural disasters affect entire populations of the countries involved and, in addition to the thousands of lives destroyed, have a substantial negative impact on the scientific advances these countries provide. The unprovoked invasion of Ukraine by Russia, the devastating earthquake in Turkey and Syria, and the ongoing conflicts in the Middle East are just a few examples. Millions of people have been killed or displaced, their futures uncertain. These events have resulted in extensive infrastructure collapse, with loss of electricity, transportation, and access to services. Schools, universities, and research centers have been destroyed along with decades’ worth of data, samples, and findings. Scholars in disaster areas face short- and long-term problems in terms of what they can accomplish now for obtaining grants and for employment in the long run. In our interconnected world, conflicts and disasters are no longer a local problem but have wide-ranging impacts on the entire world, both now and in the future. Here, we focus on the current and ongoing impact of war on the scientific community within Ukraine and from this draw lessons that can be applied to all affected countries where scientists at risk are facing hardship. We present and classify examples of effective and feasible mechanisms used to support researchers in countries facing hardship and discuss how these can be implemented with help from the international scientific community and what more is desperately needed. Reaching out, providing accessible training opportunities, and developing collaborations should increase inclusion and connectivity, support scientific advancements within affected communities, and expedite postwar and disaster recovery.","lang":"eng"}],"pmid":1,"_id":"13976","acknowledgement":"Our article is dedicated to all freedom-loving people around the world and to the people of Ukraine who fight for our freedom. Special thanks to Anita Bandrowski, Oleksandra V. Ivashchenko, and Sanita Reinsone for the helpful review, valuable criticism, and useful suggestions while preparing this manuscript, and to Tetiana Yes'kova for helping with Ukrainian translation.\r\nAll authors volunteered their time. No funding supported work on this article."},{"article_processing_charge":"No","author":[{"id":"480826C8-F248-11E8-B48F-1D18A9856A87","full_name":"Franschitz, Anna","first_name":"Anna","last_name":"Franschitz"}],"month":"08","language":[{"iso":"eng"}],"type":"dissertation","page":"89","date_created":"2023-08-08T15:33:29Z","ddc":["570","577"],"file_date_updated":"2024-03-01T12:58:14Z","acknowledged_ssus":[{"_id":"LifeSc"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publisher":"Institute of Science and Technology Austria","_id":"13984","alternative_title":["ISTA Thesis"],"abstract":[{"lang":"eng","text":"Social insects fight disease using their individual immune systems and the cooperative\r\nsanitary behaviors of colony members. These social defenses are well explored against\r\nexternally-infecting pathogens, but little is known about defense strategies against\r\ninternally-infecting pathogens, such as viruses. Viruses are ubiquitous and in the last decades\r\nit has become evident that also many ant species harbor viruses. We present one of the first\r\nstudies addressing transmission dynamics and collective disease defenses against viruses in\r\nants on a mechanistic level. I successfully established an experimental ant host – viral\r\npathogen system as a model for the defense strategies used by social insects against internal\r\npathogen infections, as outlined in the third chapter. In particular, we studied how garden ants\r\n(Lasius neglectus) defend themselves and their colonies against the generalist insect virus\r\nCrPV (cricket paralysis virus). We chose microinjections of virus directly into the ants’\r\nhemolymph because it allowed us to use a defined exposure dose. Here we show that this is a\r\ngood model system, as the virus is replicating and thus infecting the host. The ants mount a\r\nclear individual immune response against the viral infection, which is characterized by a\r\nspecific siRNA pattern, namely siRNAs mapping against the viral genome with a peak of 21\r\nand 22 bp long fragments. The onset of this immune response is consistent with the timeline\r\nof viral replication that starts already within two days post injection. The disease manifests in\r\ndecreased survival over a course of two to three weeks.\r\nRegarding group living, we find that infected ants show a strong individual immune response,\r\nbut that their course of disease is little affected by nestmate presence, as described in chapter\r\nfour. Hence, we do not find social immunity in the context of viral infections in ants.\r\nNestmates, however, can contract the virus. Using Drosophila S2R+ cells in culture, we\r\nshowed that 94 % of the nestmates contract active virus within four days of social contact to\r\nan infected individual. Virus is transmitted in low doses, thus not causing disease\r\ntransmission within the colony. While virus can be transmitted during short direct contacts,\r\nwe also assume transmission from deceased ants and show that the nestmates’ immune\r\nsystem gets activated after contracting a low viral dose. We find considerable potential for\r\nindirect transmission via the nest space. Virus is shed to the nest, where it stays viable for one\r\nweek and is also picked up by other ants. Apart from that, we want to underline the potential\r\nof ant poison as antiviral agent. We determined that ant poison successfully inactivates CrPV\r\nin vitro. However, we found no evidence for effective poison use to sanitize the nest space.\r\nOn the other hand, local application of ant poison by oral poison uptake, which is part of the\r\nants prophylactic behavioral repertoire, probably contributes to keeping the gut of each\r\nindividual sanitized. We hypothesize that oral poison uptake might be the reason why we did\r\nnot find viable virus in the trophallactic fluid.\r\nThe fifth chapter encompasses preliminary data on potential social immunization. However,\r\nour experiments do not confirm an actual survival benefit for the nestmates upon pathogen\r\nchallenge under the given experimental settings. Nevertheless, we do not want to rule out the\r\npossibility for nestmate immunization, but rather emphasize that considering different\r\nexperimental timelines and viral doses would provide a multitude of options for follow-up\r\nexperiments.\r\nIn conclusion, we find that prophylactic individual behaviors, such as oral poison uptake,\r\nmight play a role in preventing viral disease transmission. Compared to colony defense\r\nagainst external pathogens, internal pathogen infections require a stronger component of\r\nindividual physiological immunity than behavioral social immunity, yet could still lead to\r\ncollective protection."}],"date_updated":"2024-03-01T15:25:17Z","status":"public","supervisor":[{"last_name":"Cremer","full_name":"Cremer, Sylvia","first_name":"Sylvia","orcid":"0000-0002-2193-3868","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87"}],"degree_awarded":"PhD","year":"2023","publication_identifier":{"isbn":["978-3-99078-034-3"],"issn":["2663 - 337X"]},"has_accepted_license":"1","title":"Individual and social immunity against viral infections in ants","day":"08","doi":"10.15479/at:ista:13984","date_published":"2023-08-08T00:00:00Z","department":[{"_id":"GradSch"},{"_id":"SyCr"}],"file":[{"creator":"afransch","content_type":"application/pdf","file_id":"13986","date_created":"2023-08-08T18:01:28Z","file_name":"Thesis_AnnaFranschitz_202308.pdf","embargo_to":"open_access","embargo":"2024-08-08","file_size":10797612,"checksum":"27220243d5d51c3b0d7d61c0879d7a0c","access_level":"closed","relation":"main_file","date_updated":"2024-03-01T08:51:42Z"},{"date_updated":"2023-08-09T07:25:27Z","file_name":"Thesis_AnnaFranschitz_202308.docx","relation":"source_file","access_level":"closed","file_size":2619085,"checksum":"40abf7ccca14a3893f72dc7fb88585d6","file_id":"13987","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_created":"2023-08-08T18:02:25Z","creator":"afransch"},{"date_updated":"2024-03-01T12:13:29Z","file_name":"Addendum_AnnaFranschitz202402.pdf","embargo":"2024-08-08","embargo_to":"open_access","file_size":85956,"checksum":"8b991ecc2d59d045cc3cf0d676785ec7","relation":"erratum","access_level":"closed","content_type":"application/pdf","file_id":"15042","date_created":"2024-03-01T08:37:15Z","description":"Minor modifications and clarifications - Feb 2024","title":"Addendum","creator":"cchlebak"},{"file_name":"Addendum_AnnaFranschitz202402.docx","relation":"source_file","access_level":"closed","file_size":11818,"checksum":"66745aa01f960f17472c024875c049ed","date_updated":"2024-03-01T08:51:42Z","title":"Addendum - source file","creator":"cchlebak","file_id":"15043","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_created":"2024-03-01T08:39:20Z"},{"content_type":"application/pdf","file_id":"15044","date_created":"2024-03-01T08:56:06Z","description":"For printing purposes","title":"Print Version","creator":"cchlebak","date_updated":"2024-03-01T12:58:14Z","file_name":"Print_Version_Franschitz_Anna_Thesis.pdf","checksum":"55c876b73d49db15228a7f571592ec77","file_size":10416761,"relation":"other","access_level":"closed"}],"oa_version":"Published Version","publication_status":"published","citation":{"chicago":"Franschitz, Anna. “Individual and Social Immunity against Viral Infections in Ants.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:13984\">https://doi.org/10.15479/at:ista:13984</a>.","ama":"Franschitz A. Individual and social immunity against viral infections in ants. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:13984\">10.15479/at:ista:13984</a>","apa":"Franschitz, A. (2023). <i>Individual and social immunity against viral infections in ants</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:13984\">https://doi.org/10.15479/at:ista:13984</a>","ista":"Franschitz A. 2023. Individual and social immunity against viral infections in ants. Institute of Science and Technology Austria.","ieee":"A. Franschitz, “Individual and social immunity against viral infections in ants,” Institute of Science and Technology Austria, 2023.","mla":"Franschitz, Anna. <i>Individual and Social Immunity against Viral Infections in Ants</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:13984\">10.15479/at:ista:13984</a>.","short":"A. Franschitz, Individual and Social Immunity against Viral Infections in Ants, Institute of Science and Technology Austria, 2023."}},{"citation":{"chicago":"Neiheiser, Ray, Gustavo Inacio, Luciana Rech, Carlos Montez, Miguel Matos, and Luis Rodrigues. “Practical Limitations of Ethereum’s Layer-2.” <i>IEEE Access</i>. Institute of Electrical and Electronics Engineers, 2023. <a href=\"https://doi.org/10.1109/access.2023.3237897\">https://doi.org/10.1109/access.2023.3237897</a>.","ama":"Neiheiser R, Inacio G, Rech L, Montez C, Matos M, Rodrigues L. Practical limitations of Ethereum’s layer-2. <i>IEEE Access</i>. 2023;11:8651-8662. doi:<a href=\"https://doi.org/10.1109/access.2023.3237897\">10.1109/access.2023.3237897</a>","apa":"Neiheiser, R., Inacio, G., Rech, L., Montez, C., Matos, M., &#38; Rodrigues, L. (2023). Practical limitations of Ethereum’s layer-2. <i>IEEE Access</i>. Institute of Electrical and Electronics Engineers. <a href=\"https://doi.org/10.1109/access.2023.3237897\">https://doi.org/10.1109/access.2023.3237897</a>","ista":"Neiheiser R, Inacio G, Rech L, Montez C, Matos M, Rodrigues L. 2023. Practical limitations of Ethereum’s layer-2. IEEE Access. 11, 8651–8662.","ieee":"R. Neiheiser, G. Inacio, L. Rech, C. Montez, M. Matos, and L. Rodrigues, “Practical limitations of Ethereum’s layer-2,” <i>IEEE Access</i>, vol. 11. Institute of Electrical and Electronics Engineers, pp. 8651–8662, 2023.","short":"R. Neiheiser, G. Inacio, L. Rech, C. Montez, M. Matos, L. Rodrigues, IEEE Access 11 (2023) 8651–8662.","mla":"Neiheiser, Ray, et al. “Practical Limitations of Ethereum’s Layer-2.” <i>IEEE Access</i>, vol. 11, Institute of Electrical and Electronics Engineers, 2023, pp. 8651–62, doi:<a href=\"https://doi.org/10.1109/access.2023.3237897\">10.1109/access.2023.3237897</a>."},"publication_status":"published","quality_controlled":"1","file":[{"relation":"main_file","access_level":"open_access","file_size":1289285,"checksum":"4b80b0ff212edf7e5842fbdd53784432","file_name":"2023_IEEEAccess_Neiheiser.pdf","date_updated":"2023-08-22T06:37:48Z","creator":"dernst","success":1,"date_created":"2023-08-22T06:37:48Z","file_id":"14166","content_type":"application/pdf"}],"oa_version":"Published Version","department":[{"_id":"ElKo"}],"article_type":"original","date_published":"2023-08-01T00:00:00Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"day":"01","keyword":["General Engineering","General Materials Science","General Computer Science","Electrical and Electronic Engineering"],"doi":"10.1109/access.2023.3237897","isi":1,"has_accepted_license":"1","title":"Practical limitations of Ethereum’s layer-2","publication_identifier":{"issn":["2169-3536"]},"year":"2023","external_id":{"isi":["000927831000001"]},"oa":1,"intvolume":"        11","status":"public","date_updated":"2023-12-13T12:14:52Z","abstract":[{"lang":"eng","text":"Most permissionless blockchains inherently suffer from throughput limitations. Layer-2 systems, such as side-chains or Rollups, have been proposed as a possible strategy to overcome this limitation. Layer-2 systems interact with the main-chain in two ways. First, users can move funds from/to the main-chain to/from the layer-2. Second, layer-2 systems periodically synchronize with the main-chain to keep some form of log of their activity on the main-chain - this log is key for security. Due to this interaction with the main-chain, which is necessary and recurrent, layer-2 systems impose some load on the main-chain. The impact of such load on the main-chain has been, so far, poorly understood. In addition to that, layer-2 approaches typically sacrifice decentralization and security in favor of higher throughput. This paper presents an experimental study that analyzes the current state of Ethereum layer-2 projects. Our goal is to assess the load they impose on Ethereum and to understand their scalability potential in the long-run. Our analysis shows that the impact of any given layer-2 on the main-chain is the result of both technical aspects (how state is logged on the main-chain) and user behavior (how often users decide to transfer funds between the layer-2 and the main-chain). Based on our observations, we infer that without efficient mechanisms that allow users to transfer funds in a secure and fast manner directly from one layer-2 project to another, current layer-2 systems will not be able to scale Ethereum effectively, regardless of their technical solutions. Furthermore, from our results, we conclude that the layer-2 systems that offer similar security guarantees as Ethereum have limited scalability potential, while approaches that offer better performance, sacrifice security and lead to an increase in centralization which runs against the end-goals of permissionless blockchains."}],"acknowledgement":"This work was supported in part by the Coordenação de Aperfeiçoamento de Pessoal de Nivel Superior (CAPES)—Brazil (CAPES), in part by the Fundação para a Ciência e Tecnologia (FCT) under Project UIDB/50021/2020 and Grant 2020.05270.BD, in part by the Project COSMOS (via the Orçamento de Estado (OE) with ref. PTDC/EEI-COM/29271/2017 and via the ‘‘Programa Operacional Regional de Lisboa na sua componente Fundo Europeu de Desenvolvimento Regional (FEDER)’’ with ref. Lisboa-01-0145-FEDER-029271), and in part by the project Angainor with reference LISBOA-01-0145-FEDER-031456 as well as supported by Meta Platforms for the project key Transparency at Scale.","_id":"13988","publisher":"Institute of Electrical and Electronics Engineers","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2023-08-22T06:37:48Z","ddc":["000"],"volume":11,"date_created":"2023-08-09T12:09:57Z","page":"8651-8662","type":"journal_article","language":[{"iso":"eng"}],"month":"08","author":[{"last_name":"Neiheiser","first_name":"Ray","full_name":"Neiheiser, Ray","orcid":"0000-0001-7227-8309","id":"f09651b9-fec0-11ec-b5d8-934aff0e52a4"},{"last_name":"Inacio","full_name":"Inacio, Gustavo","first_name":"Gustavo"},{"full_name":"Rech, Luciana","first_name":"Luciana","last_name":"Rech"},{"full_name":"Montez, Carlos","first_name":"Carlos","last_name":"Montez"},{"last_name":"Matos","first_name":"Miguel","full_name":"Matos, Miguel"},{"last_name":"Rodrigues","full_name":"Rodrigues, Luis","first_name":"Luis"}],"scopus_import":"1","publication":"IEEE Access","article_processing_charge":"Yes"},{"file":[{"content_type":"application/pdf","file_id":"14899","date_created":"2024-01-29T11:25:38Z","success":1,"creator":"dernst","date_updated":"2024-01-29T11:25:38Z","file_name":"2023_NaturePhysics_Mukhopadhyay.pdf","file_size":1977706,"checksum":"1fc86d71bfbf836e221c1e925343adc5","relation":"main_file","access_level":"open_access"}],"oa_version":"Published Version","department":[{"_id":"GradSch"},{"_id":"AnHi"},{"_id":"JoFi"}],"article_type":"original","date_published":"2023-11-01T00:00:00Z","publication_status":"published","citation":{"ista":"Mukhopadhyay S, Senior JL, Saez Mollejo J, Puglia D, Zemlicka M, Fink JM, Higginbotham AP. 2023. Superconductivity from a melted insulator in Josephson junction arrays. Nature Physics. 19, 1630–1635.","ieee":"S. Mukhopadhyay <i>et al.</i>, “Superconductivity from a melted insulator in Josephson junction arrays,” <i>Nature Physics</i>, vol. 19. Springer Nature, pp. 1630–1635, 2023.","mla":"Mukhopadhyay, Soham, et al. “Superconductivity from a Melted Insulator in Josephson Junction Arrays.” <i>Nature Physics</i>, vol. 19, Springer Nature, 2023, pp. 1630–35, doi:<a href=\"https://doi.org/10.1038/s41567-023-02161-w\">10.1038/s41567-023-02161-w</a>.","short":"S. Mukhopadhyay, J.L. Senior, J. Saez Mollejo, D. Puglia, M. Zemlicka, J.M. Fink, A.P. Higginbotham, Nature Physics 19 (2023) 1630–1635.","chicago":"Mukhopadhyay, Soham, Jorden L Senior, Jaime Saez Mollejo, Denise Puglia, Martin Zemlicka, Johannes M Fink, and Andrew P Higginbotham. “Superconductivity from a Melted Insulator in Josephson Junction Arrays.” <i>Nature Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41567-023-02161-w\">https://doi.org/10.1038/s41567-023-02161-w</a>.","apa":"Mukhopadhyay, S., Senior, J. L., Saez Mollejo, J., Puglia, D., Zemlicka, M., Fink, J. M., &#38; Higginbotham, A. P. (2023). Superconductivity from a melted insulator in Josephson junction arrays. <i>Nature Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41567-023-02161-w\">https://doi.org/10.1038/s41567-023-02161-w</a>","ama":"Mukhopadhyay S, Senior JL, Saez Mollejo J, et al. Superconductivity from a melted insulator in Josephson junction arrays. <i>Nature Physics</i>. 2023;19:1630-1635. doi:<a href=\"https://doi.org/10.1038/s41567-023-02161-w\">10.1038/s41567-023-02161-w</a>"},"quality_controlled":"1","external_id":{"isi":["001054563800006"]},"oa":1,"intvolume":"        19","status":"public","date_updated":"2024-01-29T11:27:49Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"day":"01","keyword":["General Physics and Astronomy"],"doi":"10.1038/s41567-023-02161-w","isi":1,"publication_identifier":{"eissn":["1745-2481"],"issn":["1745-2473"]},"title":"Superconductivity from a melted insulator in Josephson junction arrays","has_accepted_license":"1","year":"2023","project":[{"grant_number":"P33692","_id":"0aa3608a-070f-11eb-9043-e9cd8a2bd931","name":"Cavity electromechanics across a quantum phase transition"},{"call_identifier":"H2020","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425"},{"_id":"eb9b30ac-77a9-11ec-83b8-871f581d53d2","name":"Protected states of quantum matter"},{"_id":"bd5b4ec5-d553-11ed-ba76-a6eedb083344","name":"Protected states of quantum matter"}],"publisher":"Springer Nature","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"NanoFab"}],"ec_funded":1,"abstract":[{"text":"Arrays of Josephson junctions are governed by a competition between superconductivity and repulsive Coulomb interactions, and are expected to exhibit diverging low-temperature resistance when interactions exceed a critical level. Here we report a study of the transport and microwave response of Josephson arrays with interactions exceeding this level. Contrary to expectations, we observe that the array resistance drops dramatically as the temperature is decreased—reminiscent of superconducting behaviour—and then saturates at low temperature. Applying a magnetic field, we eventually observe a transition to a highly resistive regime. These observations can be understood within a theoretical picture that accounts for the effect of thermal fluctuations on the insulating phase. On the basis of the agreement between experiment and theory, we suggest that apparent superconductivity in our Josephson arrays arises from melting the zero-temperature insulator.","lang":"eng"}],"acknowledgement":"We thank D. Haviland, J. Pekola, C. Ciuti, A. Bubis and A. Shnirman for helpful feedback on the paper. This research was supported by the Scientific Service Units of IST Austria through resources provided by the MIBA Machine Shop and the Nanofabrication Facility. Work supported by the Austrian FWF grant P33692-N (S.M., J.S. and A.P.H.), the European Union’s Horizon 2020 Research and Innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411 (J.S.) and a NOMIS foundation research grant (J.M.F. and A.P.H.).","_id":"14032","type":"journal_article","author":[{"first_name":"Soham","full_name":"Mukhopadhyay, Soham","last_name":"Mukhopadhyay","id":"FDE60288-A89D-11E9-947F-1AF6E5697425"},{"orcid":"0000-0002-0672-9295","id":"5479D234-2D30-11EA-89CC-40953DDC885E","full_name":"Senior, Jorden L","first_name":"Jorden L","last_name":"Senior"},{"first_name":"Jaime","full_name":"Saez Mollejo, Jaime","last_name":"Saez Mollejo","id":"e0390f72-f6e0-11ea-865d-862393336714"},{"first_name":"Denise","full_name":"Puglia, Denise","last_name":"Puglia","orcid":"0000-0003-1144-2763","id":"4D495994-AE37-11E9-AC72-31CAE5697425"},{"id":"2DCF8DE6-F248-11E8-B48F-1D18A9856A87","full_name":"Zemlicka, Martin","first_name":"Martin","last_name":"Zemlicka"},{"full_name":"Fink, Johannes M","first_name":"Johannes M","last_name":"Fink","orcid":"0000-0001-8112-028X","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Higginbotham","first_name":"Andrew P","full_name":"Higginbotham, Andrew P","id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2607-2363"}],"month":"11","language":[{"iso":"eng"}],"scopus_import":"1","publication":"Nature Physics","article_processing_charge":"Yes (in subscription journal)","file_date_updated":"2024-01-29T11:25:38Z","ddc":["530"],"volume":19,"date_created":"2023-08-11T07:41:17Z","page":"1630-1635"},{"citation":{"chicago":"Napoli, Federico, Lea Marie Becker, and Paul Schanda. “Protein Dynamics Detected by Magic-Angle Spinning Relaxation Dispersion NMR.” <i>Current Opinion in Structural Biology</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.sbi.2023.102660\">https://doi.org/10.1016/j.sbi.2023.102660</a>.","ama":"Napoli F, Becker LM, Schanda P. Protein dynamics detected by magic-angle spinning relaxation dispersion NMR. <i>Current Opinion in Structural Biology</i>. 2023;82(10). doi:<a href=\"https://doi.org/10.1016/j.sbi.2023.102660\">10.1016/j.sbi.2023.102660</a>","apa":"Napoli, F., Becker, L. M., &#38; Schanda, P. (2023). Protein dynamics detected by magic-angle spinning relaxation dispersion NMR. <i>Current Opinion in Structural Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.sbi.2023.102660\">https://doi.org/10.1016/j.sbi.2023.102660</a>","ista":"Napoli F, Becker LM, Schanda P. 2023. Protein dynamics detected by magic-angle spinning relaxation dispersion NMR. Current Opinion in Structural Biology. 82(10), 102660.","ieee":"F. Napoli, L. M. Becker, and P. Schanda, “Protein dynamics detected by magic-angle spinning relaxation dispersion NMR,” <i>Current Opinion in Structural Biology</i>, vol. 82, no. 10. Elsevier, 2023.","mla":"Napoli, Federico, et al. “Protein Dynamics Detected by Magic-Angle Spinning Relaxation Dispersion NMR.” <i>Current Opinion in Structural Biology</i>, vol. 82, no. 10, 102660, Elsevier, 2023, doi:<a href=\"https://doi.org/10.1016/j.sbi.2023.102660\">10.1016/j.sbi.2023.102660</a>.","short":"F. Napoli, L.M. Becker, P. Schanda, Current Opinion in Structural Biology 82 (2023)."},"publication_status":"published","quality_controlled":"1","file":[{"file_name":"2023_CurrentOpinionStrucBio_Napoli.pdf","file_size":1231998,"checksum":"c850f7ac8a4234319755b672c1df69ae","relation":"main_file","access_level":"open_access","date_updated":"2024-01-30T12:36:39Z","creator":"dernst","content_type":"application/pdf","file_id":"14907","success":1,"date_created":"2024-01-30T12:36:39Z"}],"oa_version":"Published Version","department":[{"_id":"PaSc"}],"article_type":"original","date_published":"2023-10-01T00:00:00Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"doi":"10.1016/j.sbi.2023.102660","article_number":"102660","day":"01","isi":1,"title":"Protein dynamics detected by magic-angle spinning relaxation dispersion NMR","publication_identifier":{"eissn":["1879-033X"],"issn":["0959-440X"]},"issue":"10","year":"2023","external_id":{"pmid":["37536064"],"isi":["001053616200001"]},"oa":1,"intvolume":"        82","status":"public","date_updated":"2024-01-30T12:37:36Z","abstract":[{"text":"Magic-angle spinning (MAS) nuclear magnetic resonance (NMR) is establishing itself as a powerful method for the characterization of protein dynamics at the atomic scale. We discuss here how R1ρ MAS relaxation dispersion NMR can explore microsecond-to-millisecond motions. Progress in instrumentation, isotope labeling, and pulse sequence design has paved the way for quantitative analyses of even rare structural fluctuations. In addition to isotropic chemical-shift fluctuations exploited in solution-state NMR relaxation dispersion experiments, MAS NMR has a wider arsenal of observables, allowing to see motions even if the exchanging states do not differ in their chemical shifts. We demonstrate the potential of the technique for probing motions in challenging large enzymes, membrane proteins, and protein assemblies.","lang":"eng"}],"acknowledgement":"We thank Petra Rovó for critical reading of this manuscript. We acknowledge the Austrian Science Foundation FWF (project AlloSpace, number I5812–B) and funding by the Institute of Science and Technology Austria.","_id":"14036","pmid":1,"project":[{"_id":"eb9c82eb-77a9-11ec-83b8-aadd536561cf","name":"AlloSpace. The emergence and mechanisms of allostery","grant_number":"I05812"}],"publisher":"Elsevier","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2024-01-30T12:36:39Z","ddc":["570"],"volume":82,"date_created":"2023-08-13T22:01:11Z","type":"journal_article","language":[{"iso":"eng"}],"month":"10","author":[{"orcid":"0000-0002-9043-136X","id":"d42e08e7-f4fc-11eb-af0a-d71e26138f1b","full_name":"Napoli, Federico","first_name":"Federico","last_name":"Napoli"},{"orcid":"0000-0002-6401-5151","id":"36336939-eb97-11eb-a6c2-c83f1214ca79","first_name":"Lea Marie","full_name":"Becker, Lea Marie","last_name":"Becker"},{"orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","last_name":"Schanda","first_name":"Paul","full_name":"Schanda, Paul"}],"scopus_import":"1","publication":"Current Opinion in Structural Biology","article_processing_charge":"Yes (via OA deal)"},{"year":"2023","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"article_number":"e2300828120","day":"31","doi":"10.1073/pnas.2300828120","issue":"32","publication_identifier":{"eissn":["1091-6490"]},"has_accepted_license":"1","title":"Nuclear spin effects in biological processes","status":"public","intvolume":"       120","date_updated":"2023-10-17T11:45:25Z","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","external_id":{"pmid":["37523549"]},"oa":1,"quality_controlled":"1","publication_status":"published","citation":{"ama":"Vardi O, Maroudas-Sklare N, Kolodny Y, et al. Nuclear spin effects in biological processes. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2023;120(32). doi:<a href=\"https://doi.org/10.1073/pnas.2300828120\">10.1073/pnas.2300828120</a>","apa":"Vardi, O., Maroudas-Sklare, N., Kolodny, Y., Volosniev, A., Saragovi, A., Galili, N., … Paltiel, Y. (2023). Nuclear spin effects in biological processes. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2300828120\">https://doi.org/10.1073/pnas.2300828120</a>","chicago":"Vardi, Ofek, Naama Maroudas-Sklare, Yuval Kolodny, Artem Volosniev, Amijai Saragovi, Nir Galili, Stav Ferrera, et al. “Nuclear Spin Effects in Biological Processes.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2023. <a href=\"https://doi.org/10.1073/pnas.2300828120\">https://doi.org/10.1073/pnas.2300828120</a>.","mla":"Vardi, Ofek, et al. “Nuclear Spin Effects in Biological Processes.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 120, no. 32, e2300828120, National Academy of Sciences, 2023, doi:<a href=\"https://doi.org/10.1073/pnas.2300828120\">10.1073/pnas.2300828120</a>.","short":"O. Vardi, N. Maroudas-Sklare, Y. Kolodny, A. Volosniev, A. Saragovi, N. Galili, S. Ferrera, A. Ghazaryan, N. Yuran, H.P. Affek, B. Luz, Y. Goldsmith, N. Keren, S. Yochelis, I. Halevy, M. Lemeshko, Y. Paltiel, Proceedings of the National Academy of Sciences of the United States of America 120 (2023).","ieee":"O. Vardi <i>et al.</i>, “Nuclear spin effects in biological processes,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 120, no. 32. National Academy of Sciences, 2023.","ista":"Vardi O, Maroudas-Sklare N, Kolodny Y, Volosniev A, Saragovi A, Galili N, Ferrera S, Ghazaryan A, Yuran N, Affek HP, Luz B, Goldsmith Y, Keren N, Yochelis S, Halevy I, Lemeshko M, Paltiel Y. 2023. Nuclear spin effects in biological processes. Proceedings of the National Academy of Sciences of the United States of America. 120(32), e2300828120."},"date_published":"2023-07-31T00:00:00Z","article_type":"original","file":[{"date_updated":"2023-08-14T07:43:45Z","file_name":"2023_PNAS_Vardi.pdf","file_size":1003092,"checksum":"a5ed64788a5acef9b9a300a26fa5a177","relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_id":"14047","date_created":"2023-08-14T07:43:45Z","success":1,"creator":"dernst"}],"oa_version":"Published Version","department":[{"_id":"MiLe"}],"date_created":"2023-08-13T22:01:12Z","ddc":["530"],"volume":120,"file_date_updated":"2023-08-14T07:43:45Z","scopus_import":"1","article_processing_charge":"Yes (in subscription journal)","publication":"Proceedings of the National Academy of Sciences of the United States of America","month":"07","language":[{"iso":"eng"}],"author":[{"last_name":"Vardi","first_name":"Ofek","full_name":"Vardi, Ofek"},{"last_name":"Maroudas-Sklare","full_name":"Maroudas-Sklare, Naama","first_name":"Naama"},{"last_name":"Kolodny","full_name":"Kolodny, Yuval","first_name":"Yuval"},{"full_name":"Volosniev, Artem","first_name":"Artem","last_name":"Volosniev","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0393-5525"},{"first_name":"Amijai","full_name":"Saragovi, Amijai","last_name":"Saragovi"},{"last_name":"Galili","full_name":"Galili, Nir","first_name":"Nir"},{"full_name":"Ferrera, Stav","first_name":"Stav","last_name":"Ferrera"},{"last_name":"Ghazaryan","full_name":"Ghazaryan, Areg","first_name":"Areg","orcid":"0000-0001-9666-3543","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Yuran, Nir","first_name":"Nir","last_name":"Yuran"},{"last_name":"Affek","full_name":"Affek, Hagit P.","first_name":"Hagit P."},{"first_name":"Boaz","full_name":"Luz, Boaz","last_name":"Luz"},{"full_name":"Goldsmith, Yonaton","first_name":"Yonaton","last_name":"Goldsmith"},{"last_name":"Keren","first_name":"Nir","full_name":"Keren, Nir"},{"full_name":"Yochelis, Shira","first_name":"Shira","last_name":"Yochelis"},{"last_name":"Halevy","first_name":"Itay","full_name":"Halevy, Itay"},{"id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6990-7802","first_name":"Mikhail","full_name":"Lemeshko, Mikhail","last_name":"Lemeshko"},{"last_name":"Paltiel","first_name":"Yossi","full_name":"Paltiel, Yossi"}],"type":"journal_article","_id":"14037","acknowledgement":"N.M.-S. acknowledges the support of the Ministry of Energy, Israel, as part of the scholarship program for graduate students in the fields of energy. M.L. acknowledges support by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). Y.P. acknowledges the support of the Ministry of Innovation, Science and Technology, Israel Grant No. 1001593872. Y.P acknowledges the support of the BSF-NSF 094 Grant No. 2022503.","pmid":1,"abstract":[{"text":"Traditionally, nuclear spin is not considered to affect biological processes. Recently, this has changed as isotopic fractionation that deviates from classical mass dependence was reported both in vitro and in vivo. In these cases, the isotopic effect correlates with the nuclear magnetic spin. Here, we show nuclear spin effects using stable oxygen isotopes (16O, 17O, and 18O) in two separate setups: an artificial dioxygen production system and biological aquaporin channels in cells. We observe that oxygen dynamics in chiral environments (in particular its transport) depend on nuclear spin, suggesting future applications for controlled isotope separation to be used, for instance, in NMR. To demonstrate the mechanism behind our findings, we formulate theoretical models based on a nuclear-spin-enhanced switch between electronic spin states. Accounting for the role of nuclear spin in biology can provide insights into the role of quantum effects in living systems and help inspire the development of future biotechnology solutions.","lang":"eng"}],"ec_funded":1,"publisher":"National Academy of Sciences","project":[{"_id":"2688CF98-B435-11E9-9278-68D0E5697425","name":"Angulon: physics and applications of a new quasiparticle","grant_number":"801770","call_identifier":"H2020"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"file_date_updated":"2023-08-14T07:57:55Z","ddc":["570"],"volume":58,"page":"1315-1332","date_created":"2023-08-13T22:01:12Z","type":"journal_article","month":"08","language":[{"iso":"eng"}],"author":[{"last_name":"Leonard","full_name":"Leonard, Thomas A.","first_name":"Thomas A."},{"orcid":"0000-0001-7309-9724","id":"462D4284-F248-11E8-B48F-1D18A9856A87","first_name":"Martin","full_name":"Loose, Martin","last_name":"Loose"},{"full_name":"Martens, Sascha","first_name":"Sascha","last_name":"Martens"}],"publication":"Developmental Cell","article_processing_charge":"Yes (via OA deal)","scopus_import":"1","abstract":[{"text":"Membranes are essential for life. They act as semi-permeable boundaries that define cells and organelles. In addition, their surfaces actively participate in biochemical reaction networks, where they confine proteins, align reaction partners, and directly control enzymatic activities. Membrane-localized reactions shape cellular membranes, define the identity of organelles, compartmentalize biochemical processes, and can even be the source of signaling gradients that originate at the plasma membrane and reach into the cytoplasm and nucleus. The membrane surface is, therefore, an essential platform upon which myriad cellular processes are scaffolded. In this review, we summarize our current understanding of the biophysics and biochemistry of membrane-localized reactions with particular focus on insights derived from reconstituted and cellular systems. We discuss how the interplay of cellular factors results in their self-organization, condensation, assembly, and activity, and the emergent properties derived from them.","lang":"eng"}],"pmid":1,"acknowledgement":"We acknowledge funding from the Austrian Science Fund (FWF F79, P32814-B, and P35061-B to S.M.; P34607-B to M.L.; and P30584-B and P33066-B to T.A.L.) and the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 101045340 to M.L.). We are grateful for comments on the manuscript by Justyna Sawa-Makarska, Verena Baumann, Marko Kojic, Philipp Radler, Ronja Reinhardt, and Sumire Antonioli.","_id":"14039","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","project":[{"name":"Understanding bacterial cell division by in vitro\r\nreconstitution","_id":"fc38323b-9c52-11eb-aca3-ff8afb4a011d","grant_number":"P34607"},{"name":"Synthetic and structural biology of Rab GTPase networks","_id":"bd6ae2ca-d553-11ed-ba76-a4aa239da5ee","grant_number":"101045340"}],"publisher":"Elsevier","title":"The membrane surface as a platform that organizes cellular and biochemical processes","issue":"15","publication_identifier":{"eissn":["1878-1551"],"issn":["1534-5807"]},"has_accepted_license":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"doi":"10.1016/j.devcel.2023.06.001","day":"07","isi":1,"year":"2023","oa":1,"external_id":{"pmid":["37419118"],"isi":["001059110400001"]},"date_updated":"2023-12-13T12:09:20Z","intvolume":"        58","status":"public","publication_status":"published","citation":{"ama":"Leonard TA, Loose M, Martens S. The membrane surface as a platform that organizes cellular and biochemical processes. <i>Developmental Cell</i>. 2023;58(15):1315-1332. doi:<a href=\"https://doi.org/10.1016/j.devcel.2023.06.001\">10.1016/j.devcel.2023.06.001</a>","apa":"Leonard, T. A., Loose, M., &#38; Martens, S. (2023). The membrane surface as a platform that organizes cellular and biochemical processes. <i>Developmental Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.devcel.2023.06.001\">https://doi.org/10.1016/j.devcel.2023.06.001</a>","chicago":"Leonard, Thomas A., Martin Loose, and Sascha Martens. “The Membrane Surface as a Platform That Organizes Cellular and Biochemical Processes.” <i>Developmental Cell</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.devcel.2023.06.001\">https://doi.org/10.1016/j.devcel.2023.06.001</a>.","ieee":"T. A. Leonard, M. Loose, and S. Martens, “The membrane surface as a platform that organizes cellular and biochemical processes,” <i>Developmental Cell</i>, vol. 58, no. 15. Elsevier, pp. 1315–1332, 2023.","short":"T.A. Leonard, M. Loose, S. Martens, Developmental Cell 58 (2023) 1315–1332.","mla":"Leonard, Thomas A., et al. “The Membrane Surface as a Platform That Organizes Cellular and Biochemical Processes.” <i>Developmental Cell</i>, vol. 58, no. 15, Elsevier, 2023, pp. 1315–32, doi:<a href=\"https://doi.org/10.1016/j.devcel.2023.06.001\">10.1016/j.devcel.2023.06.001</a>.","ista":"Leonard TA, Loose M, Martens S. 2023. The membrane surface as a platform that organizes cellular and biochemical processes. Developmental Cell. 58(15), 1315–1332."},"quality_controlled":"1","department":[{"_id":"MaLo"}],"file":[{"creator":"dernst","file_id":"14049","content_type":"application/pdf","success":1,"date_created":"2023-08-14T07:57:55Z","file_name":"2023_DevelopmentalCell_Leonard.pdf","relation":"main_file","access_level":"open_access","file_size":3184217,"checksum":"d8c5dc97cd40c26da2ec98ae723ab368","date_updated":"2023-08-14T07:57:55Z"}],"oa_version":"Published Version","article_type":"original","date_published":"2023-08-07T00:00:00Z"},{"scopus_import":"1","article_processing_charge":"Yes","publication":"Nature Communications","month":"08","author":[{"last_name":"Zhao","full_name":"Zhao, Ziyu","first_name":"Ziyu"},{"last_name":"Vercellino","first_name":"Irene","full_name":"Vercellino, Irene","orcid":"0000-0001-5618-3449","id":"3ED6AF16-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Knoppová","first_name":"Jana","full_name":"Knoppová, Jana"},{"last_name":"Sobotka","first_name":"Roman","full_name":"Sobotka, Roman"},{"full_name":"Murray, James W.","first_name":"James W.","last_name":"Murray"},{"first_name":"Peter J.","full_name":"Nixon, Peter J.","last_name":"Nixon"},{"full_name":"Sazanov, Leonid A","first_name":"Leonid A","last_name":"Sazanov","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989"},{"last_name":"Komenda","first_name":"Josef","full_name":"Komenda, Josef"}],"language":[{"iso":"eng"}],"type":"journal_article","date_created":"2023-08-13T22:01:13Z","ddc":["570"],"volume":14,"file_date_updated":"2023-08-14T07:01:12Z","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"LifeSc"},{"_id":"ScienComp"}],"publisher":"Springer Nature","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14040","acknowledgement":"P.J.N. and J.W.M. are grateful for the support of the Biotechnology & Biological Sciences Research Council (awards BB/L003260/1 and BB/P00931X/1). J. Knoppová, R.S. and J. Komenda were supported by the Czech Science Foundation (project 19-29225X) and by ERC project Photoredesign (no. 854126) and L.A.S. was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by the Electron Microscopy Facility (EMF), the Life Science Facility (LSF) and the IST high-performance computing cluster.","abstract":[{"lang":"eng","text":"Robust oxygenic photosynthesis requires a suite of accessory factors to ensure efficient assembly and repair of the oxygen-evolving photosystem two (PSII) complex. The highly conserved Ycf48 assembly factor binds to the newly synthesized D1 reaction center polypeptide and promotes the initial steps of PSII assembly, but its binding site is unclear. Here we use cryo-electron microscopy to determine the structure of a cyanobacterial PSII D1/D2 reaction center assembly complex with Ycf48 attached. Ycf48, a 7-bladed beta propeller, binds to the amino-acid residues of D1 that ultimately ligate the water-oxidising Mn4CaO5 cluster, thereby preventing the premature binding of Mn2+ and Ca2+ ions and protecting the site from damage. Interactions with D2 help explain how Ycf48 promotes assembly of the D1/D2 complex. Overall, our work provides valuable insights into the early stages of PSII assembly and the structural changes that create the binding site for the Mn4CaO5 cluster."}],"status":"public","intvolume":"        14","date_updated":"2023-12-13T12:06:56Z","external_id":{"isi":["001042606700004"]},"oa":1,"year":"2023","isi":1,"doi":"10.1038/s41467-023-40388-6","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"day":"04","article_number":"4681","publication_identifier":{"eissn":["2041-1723"]},"title":"The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis","has_accepted_license":"1","date_published":"2023-08-04T00:00:00Z","article_type":"original","file":[{"checksum":"3b9043df3d51c300f9be95eac3ff9d0b","file_size":2315325,"relation":"main_file","access_level":"open_access","file_name":"2023_NatureComm_Zhao.pdf","date_updated":"2023-08-14T07:01:12Z","creator":"dernst","date_created":"2023-08-14T07:01:12Z","success":1,"content_type":"application/pdf","file_id":"14044"}],"oa_version":"Published Version","department":[{"_id":"LeSa"}],"quality_controlled":"1","citation":{"short":"Z. Zhao, I. Vercellino, J. Knoppová, R. Sobotka, J.W. Murray, P.J. Nixon, L.A. Sazanov, J. Komenda, Nature Communications 14 (2023).","mla":"Zhao, Ziyu, et al. “The Ycf48 Accessory Factor Occupies the Site of the Oxygen-Evolving Manganese Cluster during Photosystem II Biogenesis.” <i>Nature Communications</i>, vol. 14, 4681, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-40388-6\">10.1038/s41467-023-40388-6</a>.","ieee":"Z. Zhao <i>et al.</i>, “The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","ista":"Zhao Z, Vercellino I, Knoppová J, Sobotka R, Murray JW, Nixon PJ, Sazanov LA, Komenda J. 2023. The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis. Nature Communications. 14, 4681.","ama":"Zhao Z, Vercellino I, Knoppová J, et al. The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-40388-6\">10.1038/s41467-023-40388-6</a>","apa":"Zhao, Z., Vercellino, I., Knoppová, J., Sobotka, R., Murray, J. W., Nixon, P. J., … Komenda, J. (2023). The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-40388-6\">https://doi.org/10.1038/s41467-023-40388-6</a>","chicago":"Zhao, Ziyu, Irene Vercellino, Jana Knoppová, Roman Sobotka, James W. Murray, Peter J. Nixon, Leonid A Sazanov, and Josef Komenda. “The Ycf48 Accessory Factor Occupies the Site of the Oxygen-Evolving Manganese Cluster during Photosystem II Biogenesis.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-40388-6\">https://doi.org/10.1038/s41467-023-40388-6</a>."},"publication_status":"published"}]