[{"corr_author":"1","PlanS_conform":"1","intvolume":"       114","project":[{"grant_number":"101087907","_id":"bdb2a702-d553-11ed-ba76-f12e3e5a3bc6","name":"A quantum hybrid of atoms and milligram-scale pendulums: towards gravitational quantum mechanics"}],"status":"public","issue":"2","abstract":[{"text":"Continuously operating atom-light interfaces represent a key prerequisite for steady-state quantum sensors and efficient quantum processors. Here, we demonstrate continuous accumulation of sub-Doppler-cooled atoms in a shallow intracavity dipole trap, realizing this regime. The key ingredient is a light-shift manipulation that creates spatially varying cooling parameters, enabling efficient capture and accumulation of atoms within a cavity mode. Demonstrated with rubidium atoms, a continuous flux from a source cell is funneled through the magneto-optical trap into the cavity mode, where the atoms are cooled and maintained below 10µK in steady state without time-sequenced operation. We characterize the resulting continuously maintained ensemble of millions of atoms and its collective coupling to the cavity field, establishing a route toward continuously operated cavity-QED systems and long-duration atomic and hybrid quantum sensors.","lang":"eng"}],"year":"2026","file":[{"content_type":"application/pdf","file_id":"22643","checksum":"fdecc394b734b56e1b3b151a816bbe14","success":1,"relation":"main_file","access_level":"open_access","file_name":"2026_PhysicalReviewA_Gheorghita.pdf","creator":"dernst","date_updated":"2026-08-04T06:03:14Z","date_created":"2026-08-04T06:03:14Z","file_size":959463}],"publisher":"American Physical Society","arxiv":1,"external_id":{"arxiv":["2512.14528"]},"oa":1,"quality_controlled":"1","das_tickbox":"1","date_created":"2026-08-04T05:58:23Z","article_processing_charge":"Yes (via OA deal)","file_date_updated":"2026-08-04T06:03:14Z","ddc":["530"],"supplementarymaterial":"yes","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2026-08-03T00:00:00Z","scopus_import":"1","dataavailabilitystatement":"There are no publicly available research data or software\r\nsupporting this manuscript. Requests for further information\r\nor data should be sent to the authors.","has_accepted_license":"1","article_number":"023302","language":[{"iso":"eng"}],"_id":"22642","publication_status":"published","department":[{"_id":"OnHo"},{"_id":"GradSch"}],"day":"03","publication_identifier":{"issn":["2469-9926"],"eissn":["2469-9934"]},"publication":"Physical Review A","date_updated":"2026-08-04T06:07:20Z","month":"08","researchdata_availability":"upon request","article_type":"original","OA_type":"hybrid","author":[{"id":"e664a051-133f-11ed-8f02-a05999ad0822","full_name":"Gheorghita, Edward-Fulbright","first_name":"Edward-Fulbright","last_name":"Gheorghita"},{"orcid":"0000-0002-5869-1604","id":"133F200A-B015-11E9-AD41-0EDAE5697425","first_name":"Sebastian","full_name":"Wald, Sebastian","last_name":"Wald"},{"first_name":"Andrea","full_name":"Pupić, Andrea","last_name":"Pupić","id":"ef9c50a4-5335-11ef-8b9b-8ce03e6380ed"},{"orcid":"0000-0002-2031-204X","first_name":"Onur","full_name":"Hosten, Onur","last_name":"Hosten","id":"4C02D85E-F248-11E8-B48F-1D18A9856A87"}],"OA_place":"publisher","doi":"10.1103/71f2-sq4p","acknowledgement":"The authors thank Vyacheslav Li for his earlier contributions to the development of the setup utilized in this work.\r\nThis work was supported by the Institute of Science and Technology Austria (ISTA); E.G. was supported by the European Research Council under Grant No. 101087907 (ERC CoG\r\nQuHAMP).","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"type":"journal_article","oa_version":"Published Version","volume":114,"citation":{"short":"E.-F. Gheorghita, S. Wald, A. Pupić, O. Hosten, Physical Review A 114 (2026).","apa":"Gheorghita, E.-F., Wald, S., Pupić, A., &#38; Hosten, O. (2026). Continuous accumulation of cold atoms in an optical cavity. <i>Physical Review A</i>. American Physical Society. <a href=\"https://doi.org/10.1103/71f2-sq4p\">https://doi.org/10.1103/71f2-sq4p</a>","ama":"Gheorghita E-F, Wald S, Pupić A, Hosten O. Continuous accumulation of cold atoms in an optical cavity. <i>Physical Review A</i>. 2026;114(2). doi:<a href=\"https://doi.org/10.1103/71f2-sq4p\">10.1103/71f2-sq4p</a>","chicago":"Gheorghita, Edward-Fulbright, Sebastian Wald, Andrea Pupić, and Onur Hosten. “Continuous Accumulation of Cold Atoms in an Optical Cavity.” <i>Physical Review A</i>. American Physical Society, 2026. <a href=\"https://doi.org/10.1103/71f2-sq4p\">https://doi.org/10.1103/71f2-sq4p</a>.","ista":"Gheorghita E-F, Wald S, Pupić A, Hosten O. 2026. Continuous accumulation of cold atoms in an optical cavity. Physical Review A. 114(2), 023302.","ieee":"E.-F. Gheorghita, S. Wald, A. Pupić, and O. Hosten, “Continuous accumulation of cold atoms in an optical cavity,” <i>Physical Review A</i>, vol. 114, no. 2. American Physical Society, 2026.","mla":"Gheorghita, Edward-Fulbright, et al. “Continuous Accumulation of Cold Atoms in an Optical Cavity.” <i>Physical Review A</i>, vol. 114, no. 2, 023302, American Physical Society, 2026, doi:<a href=\"https://doi.org/10.1103/71f2-sq4p\">10.1103/71f2-sq4p</a>."},"title":"Continuous accumulation of cold atoms in an optical cavity"},{"publisher":"Wiley","oa":1,"quality_controlled":"1","external_id":{"pmid":["42477503"]},"supplementarymaterial":"yes","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2026-07-20T00:00:00Z","scopus_import":"1","pmid":1,"article_processing_charge":"Yes (via OA deal)","date_created":"2026-08-04T06:48:41Z","das_tickbox":"1","project":[{"name":"Molecular mechanisms of endocytic cargo recognition in plants","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630","call_identifier":"FWF"}],"status":"public","corr_author":"1","year":"2026","main_file_link":[{"url":"https://doi.org/10.1111/nph.71454","open_access":"1"}],"abstract":[{"text":"Within the plant endomembrane system, the vesicle coat protein clathrin localizes to the plasma membrane (PM) and the trans-Golgi Network/early endosome (TGN/EE). While the role of clathrin in endocytosis at the PM is well established, its function at TGN/EE, presumably in late secretion (trafficking from the TGN/EE to the cell surface) or en route to the vacuole, is debated. Similarly debated are potential homeostatic mechanisms balancing the trafficking routes, especially endocytosis and late secretion.\r\nWe address these questions in Arabidopsis thaliana using conditional silencing of CLATHRIN HEAVY CHAIN (CHC), conditional overexpression of the clathrin uncoating factor AUXILIN-LIKE1, and secretory mutants.\r\nCHC silencing interferes with trafficking of cargoes destined for the apoplast and the PM, supporting a function of clathrin in late secretion. The secretory cargoes become abnormally rerouted from the TGN/EE to the vacuole. Unlike CHC silencing, overexpression of AUXILIN-LIKE1 selectively inhibits clathrin-mediated endocytosis while secretion continues normally at early points of induction. Conversely, secretory mutants exhibit a reduced PM recruitment of clathrin, and variably, of the TPLATE endocytic component.\r\nTogether, our data show a role of clathrin in secretion and suggest secretion as a fundamental trafficking process to which endocytosis is adjusted by a weak homeostatic mechanism.","lang":"eng"}],"doi":"10.1111/nph.71454","acknowledgement":"The authors wish to acknowledge Dr. Paweł Baster for cloning PIN1-GFP-2/pDONR221, Ms. Aline Monzer and Dr. Mingyue Li for help with CHC protein level evaluation, Dr. Michał Rychłowski for help with confocal microscopy, Prof. Ari Pekka Mähönen for sharing the p1R4-pUBQ10:XVE plasmid, and Prof. Ying Gu for sharing seeds of the sec5 mutant. M.A. would like to thank Dr. Xixi Zhang and Prof. Sebastian Bednarek for inspiring discussions. This work was supported by the Taif University Researchers Supporting Project, TURSP-HC2022/02 to JF and SA and Austrian Science Fund (FWF): I 3630-B25 to JF. Open Access funding provided by Institute of Science and Technology Austria.","OA_place":"publisher","author":[{"first_name":"Maciek","full_name":"Adamowski, Maciek","last_name":"Adamowski","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6463-5257"},{"last_name":"Gackowski","first_name":"Adam","full_name":"Gackowski, Adam"},{"id":"83c17ce3-15b2-11ec-abd3-f486545870bd","full_name":"Matijevic, Ivana","first_name":"Ivana","last_name":"Matijevic"},{"first_name":"Saqer S.","full_name":"Alotaibi, Saqer S.","last_name":"Alotaibi"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml"}],"OA_type":"hybrid","citation":{"short":"M. Adamowski, A. Gackowski, I. Matijevic, S.S. Alotaibi, J. Friml, New Phytologist (2026).","apa":"Adamowski, M., Gackowski, A., Matijevic, I., Alotaibi, S. S., &#38; Friml, J. (2026). The role of clathrin in post‐Golgi secretion in plant cells. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.71454\">https://doi.org/10.1111/nph.71454</a>","chicago":"Adamowski, Maciek, Adam Gackowski, Ivana Matijevic, Saqer S. Alotaibi, and Jiří Friml. “The Role of Clathrin in Post‐Golgi Secretion in Plant Cells.” <i>New Phytologist</i>. Wiley, 2026. <a href=\"https://doi.org/10.1111/nph.71454\">https://doi.org/10.1111/nph.71454</a>.","ama":"Adamowski M, Gackowski A, Matijevic I, Alotaibi SS, Friml J. The role of clathrin in post‐Golgi secretion in plant cells. <i>New Phytologist</i>. 2026. doi:<a href=\"https://doi.org/10.1111/nph.71454\">10.1111/nph.71454</a>","ista":"Adamowski M, Gackowski A, Matijevic I, Alotaibi SS, Friml J. 2026. The role of clathrin in post‐Golgi secretion in plant cells. New Phytologist., nph. 71454.","mla":"Adamowski, Maciek, et al. “The Role of Clathrin in Post‐Golgi Secretion in Plant Cells.” <i>New Phytologist</i>, nph. 71454, Wiley, 2026, doi:<a href=\"https://doi.org/10.1111/nph.71454\">10.1111/nph.71454</a>.","ieee":"M. Adamowski, A. Gackowski, I. Matijevic, S. S. Alotaibi, and J. Friml, “The role of clathrin in post‐Golgi secretion in plant cells,” <i>New Phytologist</i>. Wiley, 2026."},"title":"The role of clathrin in post‐Golgi secretion in plant cells","type":"journal_article","oa_version":"Published Version","publication_status":"epub_ahead","_id":"22647","language":[{"iso":"eng"}],"publication_identifier":{"issn":["0028-646X"],"eissn":["1469-8137"]},"department":[{"_id":"JiFr"},{"_id":"MaLo"},{"_id":"GradSch"}],"day":"20","dataavailabilitystatement":"Original data associated with this study have been deposited in Dataset S1. The accession nos. of A. thaliana genes used in this study are as follows: CHC1 (AT3G11130), CHC2 (AT3G08530), CLC2 (AT2G40060), TPLATE (AT3G01780), AP2A1 (AT5G22770), DRP1C (AT1G14830), GNOM-LIKE1 (AT5G39500), BEN3/BIG2 (AT3G60860), TMK4 (AT3G23750), PIN1 (AT1G73590), AUXILIN-LIKE1 (AT4G12780), AP1M2 (AT1G60780), ECHIDNA (AT1G09330), SEC5A (AT1G76850), SEC5B (AT1G21170), TUB2 (AT5G62690), and PP2AA3 (AT1G13320).","article_number":"nph.71454","month":"07","researchdata_availability":"yes","article_type":"original","publication":"New Phytologist","date_updated":"2026-08-04T07:58:27Z"},{"ddc":["510"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","supplementarymaterial":"no","date_published":"2026-07-17T00:00:00Z","scopus_import":"1","date_created":"2026-08-03T13:21:14Z","das_tickbox":"0","article_processing_charge":"Yes (via OA deal)","file_date_updated":"2026-08-04T05:55:58Z","file":[{"content_type":"application/pdf","file_id":"22641","checksum":"1b90ff7da16b9604d6fe2c6281493456","success":1,"relation":"main_file","access_level":"open_access","creator":"dernst","file_name":"2026_LettersMathPhysics_Desio.pdf","date_updated":"2026-08-04T05:55:58Z","date_created":"2026-08-04T05:55:58Z","file_size":371840}],"arxiv":1,"publisher":"Springer Nature","external_id":{"arxiv":["2512.13443"]},"quality_controlled":"1","oa":1,"year":"2026","issue":"4","abstract":[{"lang":"eng","text":"We present an abstract Dyson expansion for perturbations that are merely relatively form-bounded, and apply it to the polaron problem. For a large class of polaron-type models, including the Fröhlich and Nelson models, we prove that the vacuum expectation value of the heat semi-group is a completely monotone function of the square of the total momentum. Consequently, the ground-state energy is a concave function of the square of the momentum, a result recently proved for the Fröhlich model in [14] using a probabilistic approach via Wiener integrals."}],"status":"public","corr_author":"1","PlanS_conform":"1","intvolume":"       116","citation":{"short":"D. Desio, R. Seiringer, Letters in Mathematical Physics 116 (2026).","apa":"Desio, D., &#38; Seiringer, R. (2026). Dyson expansion for form-bounded perturbations and applications to the polaron problem. <i>Letters in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11005-026-02107-2\">https://doi.org/10.1007/s11005-026-02107-2</a>","ama":"Desio D, Seiringer R. Dyson expansion for form-bounded perturbations and applications to the polaron problem. <i>Letters in Mathematical Physics</i>. 2026;116(4). doi:<a href=\"https://doi.org/10.1007/s11005-026-02107-2\">10.1007/s11005-026-02107-2</a>","chicago":"Desio, Davide, and Robert Seiringer. “Dyson Expansion for Form-Bounded Perturbations and Applications to the Polaron Problem.” <i>Letters in Mathematical Physics</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1007/s11005-026-02107-2\">https://doi.org/10.1007/s11005-026-02107-2</a>.","ista":"Desio D, Seiringer R. 2026. Dyson expansion for form-bounded perturbations and applications to the polaron problem. Letters in Mathematical Physics. 116(4), 87.","ieee":"D. Desio and R. Seiringer, “Dyson expansion for form-bounded perturbations and applications to the polaron problem,” <i>Letters in Mathematical Physics</i>, vol. 116, no. 4. Springer Nature, 2026.","mla":"Desio, Davide, and Robert Seiringer. “Dyson Expansion for Form-Bounded Perturbations and Applications to the Polaron Problem.” <i>Letters in Mathematical Physics</i>, vol. 116, no. 4, 87, Springer Nature, 2026, doi:<a href=\"https://doi.org/10.1007/s11005-026-02107-2\">10.1007/s11005-026-02107-2</a>."},"volume":116,"title":"Dyson expansion for form-bounded perturbations and applications to the polaron problem","oa_version":"Published Version","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"type":"journal_article","doi":"10.1007/s11005-026-02107-2","acknowledgement":"Open access funding provided by Institute of Science and Technology (IST Austria).","OA_type":"hybrid","author":[{"id":"ea10a57b-23f6-11ef-9085-80d8596d52ef","first_name":"Davide","full_name":"Desio, Davide","last_name":"Desio","orcid":"0000-0001-9840-3809"},{"id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","full_name":"Seiringer, Robert","first_name":"Robert","orcid":"0000-0002-6781-0521"}],"OA_place":"publisher","researchdata_availability":"no","month":"07","article_type":"original","publication":"Letters in Mathematical Physics","date_updated":"2026-08-04T05:57:21Z","language":[{"iso":"eng"}],"publication_status":"published","_id":"22639","department":[{"_id":"RoSe"},{"_id":"GradSch"}],"day":"17","publication_identifier":{"issn":["1573-0530"]},"has_accepted_license":"1","article_number":"87"},{"intvolume":"       148","page":"28037-28042","status":"public","issue":"27","abstract":[{"lang":"eng","text":"The one-bond proton-carbon coupling constant (1JCH) is an insightful probe of carbohydrate configuration. Equatorial and axial protons at the C1 position typically exhibit distinct 1JCH values, enabling NMR measurements to distinguish α- and β-configurations in carbohydrates. In principle, such measurements could provide insights into carbohydrates in the cell walls of intact microbes. However, traditionally, these measurements are performed by solution NMR with carbohydrates that were extracted, solubilized and fractionated, leaving the biological relevance of the measurements uncertain. Here, we demonstrate that 1H-detected solid-state NMR with fast magic-angle spinning allows quantitative measurements of 1JCH couplings for mobile capsular polysaccharides, directly on submilligram amounts of pathogenic cells. Our approach is demonstrated on intact cells of the pathogenic yeast Cryptococcus neoformans. High-resolution proton-detected spectra enabled the determination of coupling constants for five mobile polysaccharide units of the cryptococcal capsule, revealing their native configurations and confirming previous solution NMR-based anomeric configuration assignments."}],"year":"2026","quality_controlled":"1","external_id":{"pmid":["42377973"]},"publisher":"American Chemical Society","article_processing_charge":"No","date_created":"2026-08-03T13:20:41Z","das_tickbox":"0","supplementarymaterial":"yes","date_published":"2026-06-15T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":"1","pmid":1,"publication_identifier":{"issn":["0002-7863"],"eissn":["1520-5126"]},"day":"15","department":[{"_id":"PaSc"}],"publication_status":"published","_id":"22638","language":[{"iso":"eng"}],"date_updated":"2026-08-04T05:52:13Z","publication":"Journal of the American Chemical Society","article_type":"original","month":"06","researchdata_availability":"no","OA_type":"closed access","author":[{"full_name":"Lends, Alons","first_name":"Alons","last_name":"Lends"},{"first_name":"Gaelle","full_name":"Lamon, Gaelle","last_name":"Lamon"},{"first_name":"Alicia","full_name":"Vallet, Alicia","last_name":"Vallet"},{"full_name":"Grélard, Axelle","first_name":"Axelle","last_name":"Grélard"},{"last_name":"Morvan","first_name":"Estelle","full_name":"Morvan, Estelle"},{"last_name":"Aimanianda","full_name":"Aimanianda, Vishukumar","first_name":"Vishukumar"},{"orcid":"0000-0002-9350-7606","last_name":"Schanda","first_name":"Paul","full_name":"Schanda, Paul","id":"7B541462-FAF6-11E9-A490-E8DFE5697425"},{"last_name":"Loquet","full_name":"Loquet, Antoine","first_name":"Antoine"}],"acknowledgement":"We thank the ANR (ANR-16-CE11-0020-02 to A. Loquet and V.A. and ANR-21-CE17-0032 to V.A.) as well as the Swiss National Science Foundation for early postdoc mobility project P2EZP2_184258 to A. Lends. This work has benefited from the Biophysical and Structural Chemistry Platform at Institut Européen de Chimie et Biologie IECB, Centre National de la Recherche Scientifique CNRS Unité d’Appui et de Recherche UAR 3033, INSERM US001, and the CNRS (IR-RMN FR3050 and Infranalytics FR2054).","doi":"10.1021/jacs.6c06064","oa_version":"None","type":"journal_article","title":"On-cell detection of polysaccharide one-bond1Jch couplings by proton-detected solid-state NMR","volume":148,"citation":{"ieee":"A. Lends <i>et al.</i>, “On-cell detection of polysaccharide one-bond1Jch couplings by proton-detected solid-state NMR,” <i>Journal of the American Chemical Society</i>, vol. 148, no. 27. American Chemical Society, pp. 28037–28042, 2026.","mla":"Lends, Alons, et al. “On-Cell Detection of Polysaccharide One-Bond1Jch Couplings by Proton-Detected Solid-State NMR.” <i>Journal of the American Chemical Society</i>, vol. 148, no. 27, American Chemical Society, 2026, pp. 28037–42, doi:<a href=\"https://doi.org/10.1021/jacs.6c06064\">10.1021/jacs.6c06064</a>.","ista":"Lends A, Lamon G, Vallet A, Grélard A, Morvan E, Aimanianda V, Schanda P, Loquet A. 2026. On-cell detection of polysaccharide one-bond1Jch couplings by proton-detected solid-state NMR. Journal of the American Chemical Society. 148(27), 28037–28042.","ama":"Lends A, Lamon G, Vallet A, et al. On-cell detection of polysaccharide one-bond1Jch couplings by proton-detected solid-state NMR. <i>Journal of the American Chemical Society</i>. 2026;148(27):28037-28042. doi:<a href=\"https://doi.org/10.1021/jacs.6c06064\">10.1021/jacs.6c06064</a>","chicago":"Lends, Alons, Gaelle Lamon, Alicia Vallet, Axelle Grélard, Estelle Morvan, Vishukumar Aimanianda, Paul Schanda, and Antoine Loquet. “On-Cell Detection of Polysaccharide One-Bond1Jch Couplings by Proton-Detected Solid-State NMR.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2026. <a href=\"https://doi.org/10.1021/jacs.6c06064\">https://doi.org/10.1021/jacs.6c06064</a>.","apa":"Lends, A., Lamon, G., Vallet, A., Grélard, A., Morvan, E., Aimanianda, V., … Loquet, A. (2026). On-cell detection of polysaccharide one-bond1Jch couplings by proton-detected solid-state NMR. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/jacs.6c06064\">https://doi.org/10.1021/jacs.6c06064</a>","short":"A. Lends, G. Lamon, A. Vallet, A. Grélard, E. Morvan, V. Aimanianda, P. Schanda, A. Loquet, Journal of the American Chemical Society 148 (2026) 28037–28042."}},{"das_tickbox":"0","date_created":"2026-08-04T06:15:04Z","article_processing_charge":"Yes (via OA deal)","ddc":["500"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","supplementarymaterial":"no","scopus_import":"1","date_published":"2026-07-21T00:00:00Z","external_id":{"arxiv":["2506.18065"]},"quality_controlled":"1","oa":1,"publisher":"Cambridge University Press","arxiv":1,"abstract":[{"lang":"eng","text":"We analyze the average behavior of various arithmetic functions at the values of degree 𝑑 binary forms ordered by height, with probability 1. This approach yields averaged versions of the Chowla conjecture and the Bateman–Horn conjecture for random binary forms. Furthermore, we show that the rational Hasse principle holds for almost all Châtelet varieties defined by a fixed norm form of degree 𝑒 and by varying binary forms of fixed degree 𝑑, provided 𝑒 divides 𝑑. This proves an average version of a conjecture of Colliot-Thélène."}],"main_file_link":[{"url":"https://doi.org/10.1017/S0017089526101074","open_access":"1"}],"year":"2026","page":"1-34","corr_author":"1","PlanS_conform":"1","status":"public","mathsc":["11N32","11N37","11D57","11G35"],"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","type":"journal_article","title":"Liouville function, von Mangoldt function, and norm forms at random binary forms","citation":{"ista":"Diao Y. 2026. Liouville function, von Mangoldt function, and norm forms at random binary forms. Glasgow Mathematical Journal., 1–34.","ieee":"Y. Diao, “Liouville function, von Mangoldt function, and norm forms at random binary forms,” <i>Glasgow Mathematical Journal</i>. Cambridge University Press, pp. 1–34, 2026.","mla":"Diao, Yijie. “Liouville Function, von Mangoldt Function, and Norm Forms at Random Binary Forms.” <i>Glasgow Mathematical Journal</i>, Cambridge University Press, 2026, pp. 1–34, doi:<a href=\"https://doi.org/10.1017/s0017089526101074\">10.1017/s0017089526101074</a>.","apa":"Diao, Y. (2026). Liouville function, von Mangoldt function, and norm forms at random binary forms. <i>Glasgow Mathematical Journal</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/s0017089526101074\">https://doi.org/10.1017/s0017089526101074</a>","ama":"Diao Y. Liouville function, von Mangoldt function, and norm forms at random binary forms. <i>Glasgow Mathematical Journal</i>. 2026:1-34. doi:<a href=\"https://doi.org/10.1017/s0017089526101074\">10.1017/s0017089526101074</a>","chicago":"Diao, Yijie. “Liouville Function, von Mangoldt Function, and Norm Forms at Random Binary Forms.” <i>Glasgow Mathematical Journal</i>. Cambridge University Press, 2026. <a href=\"https://doi.org/10.1017/s0017089526101074\">https://doi.org/10.1017/s0017089526101074</a>.","short":"Y. Diao, Glasgow Mathematical Journal (2026) 1–34."},"author":[{"orcid":"0000-0002-4989-5330","id":"7b7eb4ca-eb2c-11ec-b98b-accec0b20c3b","full_name":"Diao, Yijie","first_name":"Yijie","last_name":"Diao"}],"OA_type":"hybrid","OA_place":"publisher","acknowledgement":"I am deeply grateful to my advisor Tim Browning for suggesting this problem and for the many valuable discussions that shaped this work. I would also like to thank Efthymios Sofos, Matteo Verzobio, and Shuntaro Yamagishi for discussions and insights that contributed to this paper. I am also very grateful to the anonymous referee for their careful reading and for the considerable effort they put into improving the manuscript.","doi":"10.1017/s0017089526101074","date_updated":"2026-08-04T06:28:01Z","publication":"Glasgow Mathematical Journal","article_type":"original","month":"07","researchdata_availability":"no","has_accepted_license":"1","department":[{"_id":"TiBr"},{"_id":"GradSch"}],"day":"21","publication_identifier":{"eissn":["1469-509X"],"issn":["0017-0895"]},"language":[{"iso":"eng"}],"publication_status":"epub_ahead","_id":"22644"},{"author":[{"orcid":"0000-0003-2189-3904","id":"44b7120e-eb97-11eb-a6c2-e1557aa81d02","full_name":"Kalinov, Aleksei","first_name":"Aleksei","last_name":"Kalinov"},{"first_name":"Mickaël","full_name":"Ly, Mickaël","last_name":"Ly","id":"6340d7f0-b48d-11eb-b10d-b7487e71d9f1"},{"first_name":"Christian","full_name":"Hafner, Christian","last_name":"Hafner","id":"400429CC-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0001-6646-5546","full_name":"Wojtan, Christopher J","first_name":"Christopher J","last_name":"Wojtan","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87"}],"OA_type":"gold","OA_place":"publisher","doi":"10.1145/3811353","acknowledgement":"We thank the anonymous reviewers for their helpful comments, the members of the Visual Computing Group at ISTA for their feedback. We also thank Jonathan Gagnon for their help with running the Lapped Textures codes and SideFX for the Houdini Education software licenses.\r\nImages in Fig. 2 by Kisoulou and Vultured on Unsplash, Michal Jarmoluk and Public Domain Pictures from Pixabay and Hawai‘i Volcanoes NPS on flickr. This research was supported by the Scientific Service Units (SSU) of ISTA through resources provided by Scientific Computing and was funded in part by the European Union (ERC-2021-COG 101045083 CoDiNA).","type":"journal_article","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","citation":{"ista":"Kalinov A, Ly M, Hafner C, Wojtan C. 2026. Physics-inspired procedural texturing of extremely deformable surfaces. ACM Transactions on Graphics. 45(4), 154.","ieee":"A. Kalinov, M. Ly, C. Hafner, and C. Wojtan, “Physics-inspired procedural texturing of extremely deformable surfaces,” <i>ACM Transactions on Graphics</i>, vol. 45, no. 4. Association for Computing Machinery, 2026.","mla":"Kalinov, Aleksei, et al. “Physics-Inspired Procedural Texturing of Extremely Deformable Surfaces.” <i>ACM Transactions on Graphics</i>, vol. 45, no. 4, 154, Association for Computing Machinery, 2026, doi:<a href=\"https://doi.org/10.1145/3811353\">10.1145/3811353</a>.","short":"A. Kalinov, M. Ly, C. Hafner, C. Wojtan, ACM Transactions on Graphics 45 (2026).","apa":"Kalinov, A., Ly, M., Hafner, C., &#38; Wojtan, C. (2026). Physics-inspired procedural texturing of extremely deformable surfaces. <i>ACM Transactions on Graphics</i>. Los Angeles, CA, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3811353\">https://doi.org/10.1145/3811353</a>","ama":"Kalinov A, Ly M, Hafner C, Wojtan C. Physics-inspired procedural texturing of extremely deformable surfaces. <i>ACM Transactions on Graphics</i>. 2026;45(4). doi:<a href=\"https://doi.org/10.1145/3811353\">10.1145/3811353</a>","chicago":"Kalinov, Aleksei, Mickaël Ly, Christian Hafner, and Chris Wojtan. “Physics-Inspired Procedural Texturing of Extremely Deformable Surfaces.” <i>ACM Transactions on Graphics</i>. Association for Computing Machinery, 2026. <a href=\"https://doi.org/10.1145/3811353\">https://doi.org/10.1145/3811353</a>."},"volume":45,"title":"Physics-inspired procedural texturing of extremely deformable surfaces","has_accepted_license":"1","related_material":{"link":[{"relation":"press_release","url":"https://ista.ac.at/en/news/infinite-deformation-and-shape-computation/","description":"News on ISTA website"}]},"conference":{"name":"SIGGRAPH: International Conference and Exhibition on Computer Graphics and Interactive Techniques","location":"Los Angeles, CA, United States","end_date":"2026-07-23","start_date":"2026-07-19"},"article_number":"154","language":[{"iso":"eng"}],"_id":"21923","publication_status":"published","department":[{"_id":"GradSch"},{"_id":"ChWo"}],"day":"01","publication_identifier":{"issn":["0730-0301"]},"publication":"ACM Transactions on Graphics","date_updated":"2026-08-04T09:07:44Z","acknowledged_ssus":[{"_id":"ScienComp"}],"researchdata_availability":"no","month":"07","article_type":"original","file":[{"file_id":"21924","content_type":"video/mp4","checksum":"ea165bf731ddd3045f83878dcb833672","success":1,"access_level":"open_access","relation":"main_file","creator":"akalinov","file_name":"tog454-article154-supplemental.mp4","date_created":"2026-05-29T13:19:33Z","date_updated":"2026-05-29T13:19:33Z","file_size":77337231},{"file_name":"tog454-article154-video.mp4","creator":"akalinov","date_created":"2026-05-29T13:19:37Z","date_updated":"2026-05-29T13:19:37Z","file_size":226633977,"file_id":"21925","content_type":"video/mp4","checksum":"6274cfb15ea5ba7324b74afc7b0d9629","success":1,"access_level":"open_access","relation":"main_file"},{"file_name":"tog454-article154-supplemental.pdf","creator":"akalinov","file_size":6793867,"date_created":"2026-05-29T13:19:33Z","date_updated":"2026-05-29T13:19:33Z","checksum":"9d41b322a7876be9a3311017b9973183","file_id":"21926","content_type":"application/pdf","relation":"main_file","access_level":"open_access","success":1},{"file_size":84173392,"date_updated":"2026-05-29T13:19:36Z","date_created":"2026-05-29T13:19:36Z","file_name":"tog454-article154-main-1.pdf","creator":"akalinov","relation":"main_file","access_level":"open_access","success":1,"checksum":"51bc60d2de867fbfa570652dec7993b4","file_id":"21927","content_type":"application/pdf"}],"publisher":"Association for Computing Machinery","keyword":["Procedural animation"],"oa":1,"quality_controlled":"1","das_tickbox":"0","date_created":"2026-05-29T13:25:16Z","article_processing_charge":"Yes","file_date_updated":"2026-05-29T13:19:37Z","ddc":["006"],"date_published":"2026-07-01T00:00:00Z","scopus_import":"1","supplementarymaterial":"yes","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","corr_author":"1","intvolume":"        45","project":[{"name":"Computational Discovery of Numerical Algorithms for Animation and Simulation of Natural Phenomena","_id":"34bc2376-11ca-11ed-8bc3-9a3b3961a088","grant_number":"101045083"}],"status":"public","abstract":[{"lang":"eng","text":"The appearance of simulated natural phenomena heavily depends on the way surfaces are textured. However, applying texture maps to dynamic deformable surfaces presents a significant challenge, due to ever-shifting differences in length scales involved. When these surfaces move and advect the texture along with them, their final appearance degrades as deformed regions dramatically distort their texture map. Modifications to the texture directly at the pixel level in response to the deformation may introduce ghosting artifacts and look unnatural. In the real world, the appearance of surface details on a deforming material changes through the interplay of physical processes such as rupturing, exposure of internal structure, or wrinkling. Motivated by these behaviors, in this work we explore how physical principles can guide the texturing methods based on the measure of surface deformation.\r\nWe present two novel wave-based procedural texturing algorithms which reproduce common physical properties like advection and self-similarity, enabling the plausible animation of deforming objects with extreme texture map distortions. Our algorithms are fully procedural, require no actual physics simulation, and store no state or history of deformation besides the input UV map, making them highly parallelizable on the GPU and efficient enough for real-time applications. We show the versatility of the method by animating physical phenomena with extreme deformations such as flowing lava, stretching putty and outpouring sludge."}],"issue":"4","year":"2026"},{"file":[{"file_size":24580098,"date_created":"2026-07-20T13:12:47Z","date_updated":"2026-07-20T13:12:47Z","creator":"dernst","file_name":"2026_PNAS_Zoller.pdf","access_level":"open_access","relation":"main_file","success":1,"checksum":"f4d82dd706ff1629db68d71190288350","file_id":"22376","content_type":"application/pdf"}],"publisher":"National Academy of Sciences","external_id":{"pmid":["42406962"]},"quality_controlled":"1","oa":1,"date_created":"2026-07-19T22:01:46Z","das_tickbox":"1","article_processing_charge":"Yes","file_date_updated":"2026-07-20T13:12:47Z","pmid":1,"ddc":["570"],"supplementarymaterial":"yes","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","scopus_import":"1","date_published":"2026-07-14T00:00:00Z","corr_author":"1","intvolume":"       123","project":[{"name":"Transcription in 4D: the dynamic interplay between chromatin architecture and gene expression in developing pseudo-embryos","_id":"7bfe6a29-9f16-11ee-852c-c0da5e2045d9","grant_number":"101118866"}],"status":"public","issue":"28","abstract":[{"lang":"eng","text":"Eukaryotic gene regulation relies on stochastic yet controlled promoter switching, in which genes transition between transcriptionally active and inactive states. Despite the molecular complexity of this process, recent studies have revealed a surprising invariance of the “switching correlation time” (TC)—the characteristic decay time of the autocorrelation function of promoter activity fluctuations—across gene expression levels in multiple genes and organisms. A biophysically plausible explanation for this invariance has so far been lacking. Here, we show that this empirical constraint imposes stringent requirements on minimal yet realistic models of transcriptional regulation. Specifically, reproducing TC–invariance requires regulatory architectures with at least four internal states and nonequilibrium dynamics that break detailed balance. Using Bayesian inference on Drosophila gap gene expression data, we demonstrate that such models i) quantitatively reproduce the observed TC–invariance, ii) remain robust to parameter perturbations, and iii) maximize information transmission from transcription factor concentration to gene expression. Remarkably, the TC-invariant modulation strategy we identify as optimal closely parallels contemporary control-theoretic results on the modulation of stochastic switching systems. Taken together, our results suggest that eukaryotic transcriptional regulation operates in a nonequilibrium regime to balance precision, reaction-rate limitations, and energy dissipation, thereby achieving near-optimal information transmission under fundamental physical constraints."}],"year":"2026","author":[{"first_name":"Benjamin","full_name":"Zoller, Benjamin","last_name":"Zoller"},{"id":"3a67230c-5fc0-11ef-a673-de9a2ffadafe","full_name":"Benichou, Alexis","first_name":"Alexis","last_name":"Benichou"},{"full_name":"Gregor, Thomas","first_name":"Thomas","last_name":"Gregor"},{"id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","full_name":"Tkačik, Gašper","first_name":"Gašper","last_name":"Tkačik","orcid":"0000-0002-6699-1455"}],"OA_type":"hybrid","OA_place":"publisher","doi":"10.1073/pnas.2524855123","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","acknowledgement":"This work was supported by the French NationalResearch Agency (ANR-20-CE12-0028 “ChroDynE” and ANR-23-CE13-0021“GastruCyp” and ANR-10 LABX-73 “Revive;” all T.G.), and by funding from theEuropean Research Council (ERC-2023-SyG, “Dynatrans,” 101118866, T.G. andG.T.). This work was also supported in part by the U.S. NSF, through the Centerfor the Physics of Biological Function (PHY-1734030, T.G.), and by NIH GrantsR01GM097275, U01DA047730, and U01DK127429 (T.G.)","type":"journal_article","tmp":{"short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"oa_version":"Published Version","volume":123,"citation":{"short":"B. Zoller, A. Benichou, T. Gregor, G. Tkačik, Proceedings of the National Academy of Sciences of the United States of America 123 (2026).","apa":"Zoller, B., Benichou, A., Gregor, T., &#38; Tkačik, G. (2026). Invariant nonequilibrium dynamics in gene regulation optimize information flow. <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.2524855123\">https://doi.org/10.1073/pnas.2524855123</a>","ama":"Zoller B, Benichou A, Gregor T, Tkačik G. Invariant nonequilibrium dynamics in gene regulation optimize information flow. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2026;123(28). doi:<a href=\"https://doi.org/10.1073/pnas.2524855123\">10.1073/pnas.2524855123</a>","chicago":"Zoller, Benjamin, Alexis Benichou, Thomas Gregor, and Gašper Tkačik. “Invariant Nonequilibrium Dynamics in Gene Regulation Optimize Information Flow.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2026. <a href=\"https://doi.org/10.1073/pnas.2524855123\">https://doi.org/10.1073/pnas.2524855123</a>.","ista":"Zoller B, Benichou A, Gregor T, Tkačik G. 2026. Invariant nonequilibrium dynamics in gene regulation optimize information flow. Proceedings of the National Academy of Sciences of the United States of America. 123(28), e2524855123.","mla":"Zoller, Benjamin, et al. “Invariant Nonequilibrium Dynamics in Gene Regulation Optimize Information Flow.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 123, no. 28, e2524855123, National Academy of Sciences, 2026, doi:<a href=\"https://doi.org/10.1073/pnas.2524855123\">10.1073/pnas.2524855123</a>.","ieee":"B. Zoller, A. Benichou, T. Gregor, and G. Tkačik, “Invariant nonequilibrium dynamics in gene regulation optimize information flow,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 123, no. 28. National Academy of Sciences, 2026."},"title":"Invariant nonequilibrium dynamics in gene regulation optimize information flow","dataavailabilitystatement":"Software code data have been deposited in Institute Pasteur GitHub (https://gitlab.pasteur.fr/tglab/invariantpromoterdynamicspaper) (51).","has_accepted_license":"1","related_material":{"link":[{"description":"News on ISTA website","url":"https://ista.ac.at/en/news/the-art-of-proper-flickering/","relation":"press_release"}]},"article_number":"e2524855123","language":[{"iso":"eng"}],"_id":"22363","publication_status":"published","day":"14","department":[{"_id":"GaTk"}],"publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"publication":"Proceedings of the National Academy of Sciences of the United States of America","date_updated":"2026-08-04T09:21:10Z","month":"07","researchdata_availability":"yes","article_type":"original"},{"quality_controlled":"1","oa":1,"publisher":"American Physical Society","file":[{"creator":"dernst","file_name":"2026_PhysicalReviewX_AndresJuanes.pdf","file_size":5301241,"date_created":"2026-08-04T05:40:41Z","date_updated":"2026-08-04T05:40:41Z","checksum":"2bab109f975545d096c21dd72c738b6e","file_id":"22640","content_type":"application/pdf","access_level":"open_access","relation":"main_file","success":1}],"date_published":"2026-07-13T00:00:00Z","scopus_import":"1","supplementarymaterial":"yes","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","ddc":["530"],"file_date_updated":"2026-08-04T05:40:41Z","article_processing_charge":"Yes","date_created":"2026-08-03T13:19:31Z","das_tickbox":"1","status":"public","project":[{"grant_number":"F07105","name":"QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration of Superconducting Quantum Circuits","_id":"bdb108fd-d553-11ed-ba76-83dc74a9864f"},{"name":"Cavity Quantum Electro Optics: Microwave photonics with nonclassical states","_id":"bdadfa0d-d553-11ed-ba76-fb85edbd456a","grant_number":"101089099"}],"DOAJ_listed":"1","intvolume":"        16","PlanS_conform":"1","corr_author":"1","year":"2026","abstract":[{"text":"The distribution of entanglement across distant qubits is a central challenge for the operation of scalable quantum computers and large-scale quantum networks. Existing approaches rely on deterministic state transfer, or probabilistic protocols that require active control or measurements and postselection. Here, we demonstrate a fundamentally different, fully autonomous process, where two remote qubits are entangled through their coupling to a quantum-correlated photonic reservoir. In our experiment, a Josephson parametric converter produces a Gaussian, continuous-variable entangled state of propagating microwave fields that drives two spatially separated superconducting transmon qubits into a stationary, discrete-variable entangled state. We also show how qubit tomography unlocks a direct and sensitive verification of two-mode squeezing in the microwave domain. These results establish networks of qubits interfaced with distributed continuous-variable entangled states as a powerful platform for foundational studies and quantum-technology applications.","lang":"eng"}],"issue":"3","acknowledgement":"We thank A. Trioni and C. N. Borja for assistance in device fabrication, C. Siegele for fruitful discussions, IBM for donating the JPC used in this work, and the MIBA machine shop and the ISTA nanofabrication facility for technical support. This work was funded in part by the Austrian Science Fund (FWF) through the excellence cluster quantA 10.55776/COE1 and the SFB BeyondC 10.55776/F71, as well as the European Union—NextGenerationEU, and ISTA. J. F. and L. K. acknowledge support from the Horizon Europe Program HORIZON-CL4-2022-QUANTUM-01-SGA via Project No. 101113946 OpenSuperQPlus100, and J. F. from the European Research Council No. 101089099 (ERC CoG cQEO). J. A. acknowledges support from the QUANTERA project MOLAR with reference No. PCI2024-153449, funded by MICIU/AEI/10.13039/501100011033 and the European Union. This research is part of the Munich Quantum Valley, which is supported by the Bavarian state government with funds from the Hightech Agenda Bayern Plus.","doi":"10.1103/r4jt-j39w","OA_place":"publisher","author":[{"first_name":"Alejandro","full_name":"Andres Juanes, Alejandro","last_name":"Andres Juanes","id":"7601fd3a-5355-11ee-ae5a-a20ca6f3cfb9"},{"first_name":"J.","full_name":"Agustí, J.","last_name":"Agustí"},{"orcid":"0000-0001-7641-8348","id":"2E6D040E-F248-11E8-B48F-1D18A9856A87","full_name":"Sett, Riya","first_name":"Riya","last_name":"Sett"},{"id":"2C21D6E8-F248-11E8-B48F-1D18A9856A87","last_name":"Redchenko","full_name":"Redchenko, Elena","first_name":"Elena"},{"orcid":"0000-0001-8319-2148","id":"84b9700b-15b2-11ec-abd3-831089e67615","first_name":"Lucky","full_name":"Kapoor, Lucky","last_name":"Kapoor"},{"orcid":"0000-0002-1965-4309","id":"221708e1-1ff6-11ee-9fa6-85146607433e","last_name":"Hawaldar","first_name":"Samarth","full_name":"Hawaldar, Samarth"},{"first_name":"P.","full_name":"Rabl, P.","last_name":"Rabl"},{"last_name":"Fink","first_name":"Johannes M","full_name":"Fink, Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8112-028X"}],"OA_type":"gold","title":"Distributing stationary qubit entanglement through a nonlocal squeezed reservoir","citation":{"ista":"Andres Juanes A, Agustí J, Sett R, Redchenko E, Kapoor L, Hawaldar S, Rabl P, Fink JM. 2026. Distributing stationary qubit entanglement through a nonlocal squeezed reservoir. Physical Review X. 16(3), 031005.","ieee":"A. Andres Juanes <i>et al.</i>, “Distributing stationary qubit entanglement through a nonlocal squeezed reservoir,” <i>Physical Review X</i>, vol. 16, no. 3. American Physical Society, 2026.","mla":"Andres Juanes, Alejandro, et al. “Distributing Stationary Qubit Entanglement through a Nonlocal Squeezed Reservoir.” <i>Physical Review X</i>, vol. 16, no. 3, 031005, American Physical Society, 2026, doi:<a href=\"https://doi.org/10.1103/r4jt-j39w\">10.1103/r4jt-j39w</a>.","apa":"Andres Juanes, A., Agustí, J., Sett, R., Redchenko, E., Kapoor, L., Hawaldar, S., … Fink, J. M. (2026). Distributing stationary qubit entanglement through a nonlocal squeezed reservoir. <i>Physical Review X</i>. American Physical Society. <a href=\"https://doi.org/10.1103/r4jt-j39w\">https://doi.org/10.1103/r4jt-j39w</a>","ama":"Andres Juanes A, Agustí J, Sett R, et al. Distributing stationary qubit entanglement through a nonlocal squeezed reservoir. <i>Physical Review X</i>. 2026;16(3). doi:<a href=\"https://doi.org/10.1103/r4jt-j39w\">10.1103/r4jt-j39w</a>","chicago":"Andres Juanes, Alejandro, J. Agustí, Riya Sett, Elena Redchenko, Lucky Kapoor, Samarth Hawaldar, P. Rabl, and Johannes M Fink. “Distributing Stationary Qubit Entanglement through a Nonlocal Squeezed Reservoir.” <i>Physical Review X</i>. American Physical Society, 2026. <a href=\"https://doi.org/10.1103/r4jt-j39w\">https://doi.org/10.1103/r4jt-j39w</a>.","short":"A. Andres Juanes, J. Agustí, R. Sett, E. Redchenko, L. Kapoor, S. Hawaldar, P. Rabl, J.M. Fink, Physical Review X 16 (2026)."},"volume":16,"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","type":"journal_article","publication_identifier":{"eissn":["2160-3308"]},"department":[{"_id":"JoFi"},{"_id":"GradSch"}],"day":"13","publication_status":"published","_id":"22637","language":[{"iso":"eng"}],"article_number":"031005","related_material":{"link":[{"description":"News on ISTA website","url":"https://ista.ac.at/en/news/quantum-bath-syncs-distant-qubits/","relation":"press_release"}]},"has_accepted_license":"1","dataavailabilitystatement":"The data that support the findings of this article are openly available  https://zenodo.org/records/19099731.","article_type":"original","month":"07","researchdata_availability":"yes","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"NanoFab"}],"date_updated":"2026-08-04T09:18:57Z","publication":"Physical Review X"},{"article_processing_charge":"No","date_created":"2026-07-13T14:57:10Z","das_tickbox":"1","scopus_import":"1","date_published":"2026-07-09T00:00:00Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","supplementarymaterial":"yes","pmid":1,"quality_controlled":"1","external_id":{"pmid":["42424472"]},"publisher":"American Association for the Advancement of Science","abstract":[{"text":"Plant tropisms enable roots to navigate complex soils by responding to directional environmental cues. Biological decay, although central to nutrient cycling, also creates microbially active and potentially hostile niches. In this work, we identified “saprotropism,” a previously unrecognized growth response that enables roots to actively bend away from decaying plant-derived matter. Fungal-driven microbial decomposition released organic acids and formed stable pH gradients in surrounding soil, allowing roots to pinpoint decay without direct contact. Root epidermal cells sensed this acidic gradient through the root meristem growth factor peptide-receptor module, converting external pH asymmetry into asymmetric abscisic acid (ABA) distribution. ABA asymmetry drove microtubule reorganization, which was decoded into decay-avoidant root bending. Together, these findings establish microbial decay–derived chemical gradients as an instructive signal for root navigation and expand the framework of microbe-soil-plant communication.","lang":"eng"}],"issue":"6807","year":"2026","intvolume":"       393","status":"public","project":[{"grant_number":"101142681","name":"Cyclic nucleotides as second messengers in plants","_id":"8f347782-16d5-11f0-9cad-8c19706ee739"},{"grant_number":"P37051","name":"Guanylate cyclase activity of TIR1/AFBs auxin receptors","_id":"7bcece63-9f16-11ee-852c-ae94e099eeb6"}],"oa_version":"None","type":"journal_article","title":"Roots navigate around decay regions by sensing local pH gradients","citation":{"ama":"Bao Z, Wang H, Zhang A, et al. Roots navigate around decay regions by sensing local pH gradients. <i>Science</i>. 2026;393(6807). doi:<a href=\"https://doi.org/10.1126/science.adw6568\">10.1126/science.adw6568</a>","chicago":"Bao, Zhulatai, Huihui Wang, Ai Zhang, Ruxi Gao, Wen Gu, Ni Fan, Jiří Friml, and Yuzhou Zhang. “Roots Navigate around Decay Regions by Sensing Local PH Gradients.” <i>Science</i>. American Association for the Advancement of Science, 2026. <a href=\"https://doi.org/10.1126/science.adw6568\">https://doi.org/10.1126/science.adw6568</a>.","apa":"Bao, Z., Wang, H., Zhang, A., Gao, R., Gu, W., Fan, N., … Zhang, Y. (2026). Roots navigate around decay regions by sensing local pH gradients. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.adw6568\">https://doi.org/10.1126/science.adw6568</a>","short":"Z. Bao, H. Wang, A. Zhang, R. Gao, W. Gu, N. Fan, J. Friml, Y. Zhang, Science 393 (2026).","ieee":"Z. Bao <i>et al.</i>, “Roots navigate around decay regions by sensing local pH gradients,” <i>Science</i>, vol. 393, no. 6807. American Association for the Advancement of Science, 2026.","mla":"Bao, Zhulatai, et al. “Roots Navigate around Decay Regions by Sensing Local PH Gradients.” <i>Science</i>, vol. 393, no. 6807, eadw6568, American Association for the Advancement of Science, 2026, doi:<a href=\"https://doi.org/10.1126/science.adw6568\">10.1126/science.adw6568</a>.","ista":"Bao Z, Wang H, Zhang A, Gao R, Gu W, Fan N, Friml J, Zhang Y. 2026. Roots navigate around decay regions by sensing local pH gradients. Science. 393(6807), eadw6568."},"volume":393,"OA_type":"closed access","author":[{"first_name":"Zhulatai","full_name":"Bao, Zhulatai","last_name":"Bao"},{"last_name":"Wang","first_name":"Huihui","full_name":"Wang, Huihui"},{"last_name":"Zhang","first_name":"Ai","full_name":"Zhang, Ai"},{"full_name":"Gao, Ruxi","first_name":"Ruxi","last_name":"Gao"},{"last_name":"Gu","full_name":"Gu, Wen","first_name":"Wen"},{"last_name":"Fan","full_name":"Fan, Ni","first_name":"Ni"},{"orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jiří","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Zhang, Yuzhou","first_name":"Yuzhou","last_name":"Zhang"}],"acknowledgement":"We are grateful to H. Guo and L. Liu (Department of Biology, Southern University of Science and Technology) for providing the rgf1/2/3, rgi1/2/3/4, tpst-1, and pepr1/2 lines. We thank K.-h. Liu (College of Life Science, Northwest A&F University) for generously providing the ABA biosensor nlsABACUS2-400n. We also thank J. Li and J. Chang (School of Life Sciences, Lanzhou University) for providing the ahk2-5/cre1-2, ahp1/2/3, arr16/arr17, and pTCSn::GFP lines. Our thanks further extend to D. Qian, also from the School of Life Sciences at Lanzhou University, for sharing Arabidopsis line pTUB6::mCherry-TUB6. We are grateful to Y. Zhao (CAS Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences) for providing nced3/5, snrk2.2/2.3/2.6, and pyl duodecuple mutants. We also acknowledge the Teaching and Research Core Facility at the College of Life Sciences, Northwest A&F University, particularly N. Fan, for their invaluable technical assistance. We also thank Life Science Research Core Services (LSRCS), Northwest A&F University, for helping with characterization, including CLSM (X. Liu). Fundamental and Interdisciplinary Disciplines Breakthrough Plan of the Ministry of Education of China JYB2025XDXM706 (Y.Z.); Qin Chuangyuan High-level Innovation and Entrepreneurship Talent Program QCYRCXM-2022-237 (Y.Z.); Fundamental Research Funds for the Central Universities K20200168 (Y.Z.); National Natural Science Foundation of China 32570375 (Y.Z.); National Natural Science Foundation of China 32400699 (A.Z.); European Research Council (ERC, CYNIPS) 101142681 (J.F.); Austrian Science Fund (FWF): P 37051-B (J.F.).","doi":"10.1126/science.adw6568","date_updated":"2026-08-04T09:22:49Z","publication":"Science","article_type":"original","month":"07","researchdata_availability":"yes","article_number":"eadw6568","related_material":{"link":[{"relation":"press_release","url":"https://ista.ac.at/en/news/roots-steer-clear-of-plant-rot/","description":"News on ISTA website"}]},"dataavailabilitystatement":"All data are available in the manuscript or the supplementary materials. The raw RNA-seq data have been deposited in the NCBI Gene Expression Omnibus (GEO) under accession number GSE315473. Microbiome sequencing data have been deposited in the Sequence Read Archive (SRA) under BioProject number PRJNA1397137. Materials are available upon request from the corresponding author.","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"day":"09","department":[{"_id":"JiFr"}],"publication_status":"published","_id":"22315","language":[{"iso":"eng"}]},{"year":"2026","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41586-026-10679-1"}],"abstract":[{"lang":"eng","text":"Despite the functional diversity of over 100 causal genes1,2,3, phenotypic convergence across models may reveal common neurobiological processes in autism spectrum disorder (ASD). Here we profiled 251 samples from 11 monogenic mouse models of ASD using single-nucleus multi-omic sequencing across three developmental stages, both sexes and two brain regions. Despite genetic heterogeneity, ASD-linked mutations converged on perturbations of the radial glial cell lineage. These alterations reflect a transient developmental delay rather than lasting lineage misspecification and resolve by postnatal stages. Molecularly, the largest transcriptional differences emerged in neurons at early postnatal stages. These changes included downregulation of synaptic and ion channel-related genes, consistent with homeostatic adaptation or delayed maturation. Network analysis showed molecular convergence across models within each developmental stage, suggesting that diverse mutations linked to ASD impinge on common, stage-specific processes. Convergence becomes less pronounced by postnatal day 14, highlighting the dynamic nature of ASD-associated changes. Cross-genotype heterogeneity is superimposed on stage-specific effects. Electrophysiology corroborated this pattern: mutants generally showed altered neuronal excitability and synaptic properties with model-specific nuances. Our study also highlighted sex-specific gene expression alterations, with female mice often displaying larger effect sizes than male mice. Together, our findings provide a comprehensive view of developmental cellular and molecular dynamics across models of ASD."}],"project":[{"_id":"34ba8964-11ca-11ed-8bc3-e15864e7e9a6","name":"Toward an understanding of the brain interstitial system and the extracellular proteome in health and autism spectrum disorders","grant_number":"101044865"},{"_id":"9B91375C-BA93-11EA-9121-9846C619BF3A","name":"Critical windows and reversibility of ASD associated with mutations in chromatin remodelers","grant_number":"707964"},{"_id":"2548AE96-B435-11E9-9278-68D0E5697425","name":"Molecular Drug Targets","grant_number":"W1232","call_identifier":"FWF"},{"name":"Neurobiology of anxiety in autism spectrum disorders","_id":"ebb38b5d-77a9-11ec-83b8-a42e08120a88","grant_number":"FG1803 49015"}],"status":"public","corr_author":"1","PlanS_conform":"1","ddc":["570"],"pmid":1,"supplementarymaterial":"yes","date_published":"2026-06-17T00:00:00Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","scopus_import":"1","date_created":"2026-07-13T09:47:21Z","article_processing_charge":"Yes (via OA deal)","publisher":"Springer Nature","external_id":{"pmid":["42310454"]},"quality_controlled":"1","oa":1,"month":"06","researchdata_availability":"yes","article_type":"original","publication":"Nature","date_updated":"2026-08-04T09:29:55Z","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"language":[{"iso":"eng"}],"publication_status":"epub_ahead","_id":"22295","department":[{"_id":"AnKi"},{"_id":"GaNo"},{"_id":"TiVo"},{"_id":"ScienComp"},{"_id":"GradSch"},{"_id":"Bio"},{"_id":"PreCl"}],"day":"17","publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"dataavailabilitystatement":"Single-nucleus multiomics data are available from the Gene Expression Omnibus (GSE328363). The mm10 reference genome was used for the alignment (refdata-cellranger-arc-mm10-2020-A-2.0.0, obtained from https://cf.10xgenomics.com/supp/cell-arc/refdata-cellranger-arc-mm10-2020-A-2.0.0.tar.gz). Single-cell data can be accessed and visualized through a CELLxGENE database (https://adameykolab.hifo.meduniwien.ac.at/cellxgene_public/filecrawl/.2026_Nature_Schwarz). Source data are provided with this paper. Scripts and analyses that support the main findings of this study are accessible in a GitHub repository (https://git.ista.ac.at/research-sofware/mouseome).","has_accepted_license":"1","related_material":{"link":[{"url":"https://ista.ac.at/en/news/patterns-in-genetic-chaos/","description":"News on ISTA website","relation":"press_release"}]},"citation":{"short":"L.A. Schwarz, C. Dotter, S. Isaev, M. Lisi, D. Malzl, C. Büschl, S. Ladstätter, B. Oliveira, M. Barel, B. Basilico, C. Chintaluri, S. Gorkiewicz, M. Goudarzi, T. Belinova, S. Reichl, G. Sendžikaitė, S. Arcot Jayaram, P. Koppensteiner, C.M. Sommer, T.P. Vogels, J. Menche, I. Adameyko, P.V. Kharchenko, C. Bock, G. Novarino, Nature (2026).","apa":"Schwarz, L. A., Dotter, C., Isaev, S., Lisi, M., Malzl, D., Büschl, C., … Novarino, G. (2026). Cortical development dynamics across autism spectrum disorder mouse models. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-026-10679-1\">https://doi.org/10.1038/s41586-026-10679-1</a>","chicago":"Schwarz, Lena A, Christoph Dotter, Sergey Isaev, Michela Lisi, Daniel Malzl, Christoph Büschl, Sabrina Ladstätter, et al. “Cortical Development Dynamics across Autism Spectrum Disorder Mouse Models.” <i>Nature</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1038/s41586-026-10679-1\">https://doi.org/10.1038/s41586-026-10679-1</a>.","ama":"Schwarz LA, Dotter C, Isaev S, et al. Cortical development dynamics across autism spectrum disorder mouse models. <i>Nature</i>. 2026. doi:<a href=\"https://doi.org/10.1038/s41586-026-10679-1\">10.1038/s41586-026-10679-1</a>","ista":"Schwarz LA, Dotter C, Isaev S, Lisi M, Malzl D, Büschl C, Ladstätter S, Oliveira B, Barel M, Basilico B, Chintaluri C, Gorkiewicz S, Goudarzi M, Belinova T, Reichl S, Sendžikaitė G, Arcot Jayaram S, Koppensteiner P, Sommer CM, Vogels TP, Menche J, Adameyko I, Kharchenko PV, Bock C, Novarino G. 2026. Cortical development dynamics across autism spectrum disorder mouse models. Nature.","mla":"Schwarz, Lena A., et al. “Cortical Development Dynamics across Autism Spectrum Disorder Mouse Models.” <i>Nature</i>, Springer Nature, 2026, doi:<a href=\"https://doi.org/10.1038/s41586-026-10679-1\">10.1038/s41586-026-10679-1</a>.","ieee":"L. A. Schwarz <i>et al.</i>, “Cortical development dynamics across autism spectrum disorder mouse models,” <i>Nature</i>. Springer Nature, 2026."},"title":"Cortical development dynamics across autism spectrum disorder mouse models","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","type":"journal_article","doi":"10.1038/s41586-026-10679-1","acknowledgement":"We thank F. Freeman, V. Voronin and M. Ladron de Guevara for technical assistance; A. Stichelberger and S. Liegenfeld for the management of our animal colony; M. Schunn, C. Gold and the Preclinical Facility team for technical assistance; C. Jansen and the Scientific Computing Facility for bioinformatics support and technical assistance; the Biomedical Sequencing Facility at CeMM for assistance with next-generation sequencing; and J. Lin and T. Krausgruber in the laboratory of C. Bock for support with flow cytometry; J. Kirchner for illustrating the multi-omics approach depicted in Fig. 1; and all members of the laboratory of G.N. for their support and discussions. This study was supported by the Scientific Service Units of ISTA through resources provided by the Imaging & Optics Facility and the Laboratory Support Facility. Bulk RNA-seq was performed by the Next Generation Sequencing Facility at Vienna BioCenter Core Facilities, member of the Vienna BioCenter. This work was supported by a European Research Council Consolidator Grant (PR1028ERC02), by SFARI (PR1028SIM02) and by the Austrian Science Fund (PE1028W1232 and PR1028FG1803) to G.N. Open access funding provided by Institute of Science and Technology (IST Austria).","author":[{"id":"29A8453C-F248-11E8-B48F-1D18A9856A87","full_name":"Schwarz, Lena A","first_name":"Lena A","last_name":"Schwarz"},{"orcid":"0000-0002-9033-9096","last_name":"Dotter","full_name":"Dotter, Christoph","first_name":"Christoph","id":"4C66542E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Sergey","full_name":"Isaev, Sergey","last_name":"Isaev"},{"id":"39383c1b-d3eb-11ef-8d6c-c8cdf4e10c8c","last_name":"Lisi","full_name":"Lisi, Michela","first_name":"Michela"},{"full_name":"Malzl, Daniel","first_name":"Daniel","last_name":"Malzl"},{"first_name":"Christoph","full_name":"Büschl, Christoph","last_name":"Büschl","id":"2a8c054c-0913-11ee-9159-f8ef515809ed"},{"last_name":"Ladstätter","first_name":"Sabrina","full_name":"Ladstätter, Sabrina"},{"first_name":"Bárbara","full_name":"Oliveira, Bárbara","last_name":"Oliveira","id":"3B03AA1A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Barel, Matteo","first_name":"Matteo","last_name":"Barel","id":"8959927b-2236-11ed-bd6e-ea83d94ade0e"},{"last_name":"Basilico","first_name":"Bernadette","full_name":"Basilico, Bernadette","id":"36035796-5ACA-11E9-A75E-7AF2E5697425","orcid":"0000-0003-1843-3173"},{"orcid":"0000-0003-4252-1608","id":"BA06AFEE-A4BA-11EA-AE5C-14673DDC885E","full_name":"Chintaluri, Chaitanya","first_name":"Chaitanya","last_name":"Chintaluri"},{"id":"f141a35d-15a9-11ec-9fb2-fef6becc7b6f","first_name":"Sarah","full_name":"Gorkiewicz, Sarah","last_name":"Gorkiewicz"},{"full_name":"Goudarzi, Mohammad","first_name":"Mohammad","last_name":"Goudarzi","id":"3384113A-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Tereza","full_name":"Belinova, Tereza","last_name":"Belinova","id":"0bf89b6a-d28b-11eb-8bd6-f43768e4d368"},{"first_name":"Stephan","full_name":"Reichl, Stephan","last_name":"Reichl"},{"last_name":"Sendžikaitė","full_name":"Sendžikaitė, Gintarė","first_name":"Gintarė","id":"dd6d52f2-c50d-11eb-9548-bcf0ff82b344"},{"first_name":"Satish","full_name":"Arcot Jayaram, Satish","last_name":"Arcot Jayaram","id":"b0bbee33-09f7-11eb-909c-8b358058d28a","orcid":"0000-0002-2479-2669"},{"last_name":"Koppensteiner","full_name":"Koppensteiner, Peter","first_name":"Peter","id":"3B8B25A8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3509-1948"},{"first_name":"Christoph M","full_name":"Sommer, Christoph M","last_name":"Sommer","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1216-9105"},{"orcid":"0000-0003-3295-6181","id":"CB6FF8D2-008F-11EA-8E08-2637E6697425","last_name":"Vogels","first_name":"Tim P","full_name":"Vogels, Tim P"},{"last_name":"Menche","full_name":"Menche, Jörg","first_name":"Jörg"},{"last_name":"Adameyko","first_name":"Igor","full_name":"Adameyko, Igor"},{"last_name":"Kharchenko","first_name":"Peter Vasili","full_name":"Kharchenko, Peter Vasili","id":"0095641e-7eb7-11f1-8665-aec51a2ab5e0"},{"last_name":"Bock","full_name":"Bock, Christoph","first_name":"Christoph"},{"orcid":"0000-0002-7673-7178","last_name":"Novarino","full_name":"Novarino, Gaia","first_name":"Gaia","id":"3E57A680-F248-11E8-B48F-1D18A9856A87"}],"OA_type":"hybrid","OA_place":"publisher"},{"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"type":"journal_article","oa_version":"Published Version","title":"Experiment-guided AlphaFold3 resolves measurement-consistent protein ensembles","citation":{"apa":"Maddipatla, S. A., Sellam, N. E., Bojan, M. I., Masalitin, V., Vedula, S., Schanda, P., … Bronstein, A. M. (2026). Experiment-guided AlphaFold3 resolves measurement-consistent protein ensembles. <i>Nature Biotechnology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41587-026-03166-5\">https://doi.org/10.1038/s41587-026-03166-5</a>","chicago":"Maddipatla, Sai A, Nadav E Sellam, Meital I Bojan, Vova Masalitin, Sanketh Vedula, Paul Schanda, Ailie Marx, and Alex M. Bronstein. “Experiment-Guided AlphaFold3 Resolves Measurement-Consistent Protein Ensembles.” <i>Nature Biotechnology</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1038/s41587-026-03166-5\">https://doi.org/10.1038/s41587-026-03166-5</a>.","ama":"Maddipatla SA, Sellam NE, Bojan MI, et al. Experiment-guided AlphaFold3 resolves measurement-consistent protein ensembles. <i>Nature Biotechnology</i>. 2026. doi:<a href=\"https://doi.org/10.1038/s41587-026-03166-5\">10.1038/s41587-026-03166-5</a>","short":"S.A. Maddipatla, N.E. Sellam, M.I. Bojan, V. Masalitin, S. Vedula, P. Schanda, A. Marx, A.M. Bronstein, Nature Biotechnology (2026).","ista":"Maddipatla SA, Sellam NE, Bojan MI, Masalitin V, Vedula S, Schanda P, Marx A, Bronstein AM. 2026. Experiment-guided AlphaFold3 resolves measurement-consistent protein ensembles. Nature Biotechnology.","ieee":"S. A. Maddipatla <i>et al.</i>, “Experiment-guided AlphaFold3 resolves measurement-consistent protein ensembles,” <i>Nature Biotechnology</i>. Springer Nature, 2026.","mla":"Maddipatla, Sai A., et al. “Experiment-Guided AlphaFold3 Resolves Measurement-Consistent Protein Ensembles.” <i>Nature Biotechnology</i>, Springer Nature, 2026, doi:<a href=\"https://doi.org/10.1038/s41587-026-03166-5\">10.1038/s41587-026-03166-5</a>."},"OA_place":"publisher","OA_type":"hybrid","author":[{"id":"e957f5e5-91c9-11f0-a95f-e090f66ecb4d","full_name":"Maddipatla, Sai A","first_name":"Sai A","last_name":"Maddipatla"},{"full_name":"Sellam, Nadav E","first_name":"Nadav E","last_name":"Sellam","id":"ef280fe0-91c9-11f0-a95f-8dea3f5bc513"},{"id":"11d88cf5-91ca-11f0-a95f-edf9f08f47b7","full_name":"Bojan, Meital I","first_name":"Meital I","last_name":"Bojan"},{"last_name":"Masalitin","full_name":"Masalitin, Vova","first_name":"Vova","id":"ff7958eb-91c9-11f0-a95f-f3bf65828cf6"},{"last_name":"Vedula","full_name":"Vedula, Sanketh","first_name":"Sanketh"},{"first_name":"Paul","full_name":"Schanda, Paul","last_name":"Schanda","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","orcid":"0000-0002-9350-7606"},{"last_name":"Marx","first_name":"Ailie","full_name":"Marx, Ailie"},{"id":"58f3726e-7cba-11ef-ad8b-e6e8cb3904e6","last_name":"Bronstein","full_name":"Bronstein, Alexander","first_name":"Alexander","orcid":"0000-0001-9699-8730"}],"acknowledgement":"A. Marx acknowledges the financial support of the Helmsley Fellowships Program for Sustainability and Health. A.M.B. and P.S. are supported by the Institute of Science and Technology Austria Internal Project Call grant Generative Protein NMR. S.V. was supported in part by funding from the Eric and Wendy Schmidt Center at the Broad Institute of MIT and Harvard. Open access funding provided by Institute of Science and Technology (IST Austria).","doi":"10.1038/s41587-026-03166-5","date_updated":"2026-08-04T09:25:18Z","publication":"Nature Biotechnology","article_type":"original","researchdata_availability":"yes","month":"06","related_material":{"link":[{"url":"https://ista.ac.at/en/news/toward-experiment-guided-alphafold/","description":"News on ISTA website","relation":"press_release"}]},"has_accepted_license":"1","dataavailabilitystatement":"All structures and metrics reported in this paper are openly available on Harvard Dataverse - https://doi.org/10.7910/DVN/PLYUHN. All code is openly available on GitHub (https://github.com/sai-advaith/guided_alphafold); the version used for this paper (version 0.9.1) is permanently archived on Zenodo https://doi.org/10.5281/zenodo.17307005","publication_identifier":{"eissn":["1546-1696"],"issn":["1087-0156"]},"department":[{"_id":"PaSc"},{"_id":"AlBr"},{"_id":"GradSch"}],"day":"29","_id":"22268","publication_status":"epub_ahead","language":[{"iso":"eng"}],"article_processing_charge":"Yes (via OA deal)","das_tickbox":"1","date_created":"2026-07-12T22:02:19Z","supplementarymaterial":"yes","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","scopus_import":"1","date_published":"2026-06-29T00:00:00Z","pmid":1,"ddc":["570"],"quality_controlled":"1","oa":1,"external_id":{"pmid":["42374114"]},"publisher":"Springer Nature","abstract":[{"lang":"eng","text":"AlphaFold3 predicts highly accurate protein structures from sequence but tends to collapse to a single dominant conformation, even when the underlying structure is inherently heterogeneous. Moreover, its predictions are oblivious to experimental conditions that can alter local sequence conformation. In this work, we show that AlphaFold3 can be guided to match data obtained by nuclear magnetic resonance (NMR) spectroscopy, X-ray crystallography and cryogenic electron microscopy (cryo-EM) experiments and combinations thereof. Our approach can also incorporate data that explicitly report on dynamics, such as site-resolved order parameters. We demonstrate that this methodology generates compact structural ensembles whose ensemble-averaged observables agree with experiment, with fewer distance restraint violations than traditionally resolved NMR structures and with unmodeled alternate conformations uncovered in electron density. This methodology paves the way for experimentally aware predictive models that generate structural ensembles consistent with the measurements, potentially over multiple modalities, and that can be further refined toward thermodynamically grounded ensembles by incorporating energetics."}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41587-026-03166-5"}],"year":"2026","PlanS_conform":"1","corr_author":"1","status":"public"},{"das_tickbox":"1","date_created":"2026-06-28T22:01:35Z","article_processing_charge":"Yes (via OA deal)","ddc":["570"],"scopus_import":"1","supplementarymaterial":"yes","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_published":"2026-06-22T00:00:00Z","publisher":"Elsevier","external_id":{"biorxivid":["10.1101/2025.09.16.676506"]},"quality_controlled":"1","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.molcel.2026.05.026"}],"abstract":[{"lang":"eng","text":"How the twin-arginine translocase (Tat) system transports fully folded substrate proteins across cellular membranes without disrupting membrane integrity has been a fundamental question in cell biology for decades. The Tat system, found in prokaryotes and plant organelles, recognizes a cargo signal peptide via a conserved twin-arginine motif. The multi-subunit Tat complex facilitates the proton-motive-force-dependent translocation process, yet its overall architecture has remained unknown. Here, we present the cryo-electron microscopy (cryo-EM) structure of the Escherichia coli (E. coli) trimeric TatB₃C₃ complex with bound substrate SufI, assembled in vivo. The complex adopts an unusual, wide-open, bowl-shaped architecture with a polar inner cavity. Unexpectedly, the cargo is engaged in a dual-contact mode: while the signal peptide binds inside one TatBC unit, the folded domain docks tightly onto an adjacent unit, possibly performing a proofreading function. This structure provides a mechanistic framework for substrate engagement and suggests the direct involvement of the entire Tat complex in substrate translocation."}],"year":"2026","corr_author":"1","status":"public","tmp":{"short":"CC BY-NC (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png"},"oa_version":"Published Version","type":"journal_article","citation":{"ieee":"Z. Zhao and L. A. Sazanov, “Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo,” <i>Molecular Cell</i>. Elsevier.","mla":"Zhao, Ziyu, and Leonid A. Sazanov. “Structure of E. Coli Twin-Arginine Translocase (Tat) Complex with Bound Cargo.” <i>Molecular Cell</i>, Elsevier, doi:<a href=\"https://doi.org/10.1016/j.molcel.2026.05.026\">10.1016/j.molcel.2026.05.026</a>.","ista":"Zhao Z, Sazanov LA. Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo. Molecular Cell.","ama":"Zhao Z, Sazanov LA. Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo. <i>Molecular Cell</i>. doi:<a href=\"https://doi.org/10.1016/j.molcel.2026.05.026\">10.1016/j.molcel.2026.05.026</a>","chicago":"Zhao, Ziyu, and Leonid A Sazanov. “Structure of E. Coli Twin-Arginine Translocase (Tat) Complex with Bound Cargo.” <i>Molecular Cell</i>. Elsevier, n.d. <a href=\"https://doi.org/10.1016/j.molcel.2026.05.026\">https://doi.org/10.1016/j.molcel.2026.05.026</a>.","apa":"Zhao, Z., &#38; Sazanov, L. A. (n.d.). Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo. <i>Molecular Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.molcel.2026.05.026\">https://doi.org/10.1016/j.molcel.2026.05.026</a>","short":"Z. Zhao, L.A. Sazanov, Molecular Cell (n.d.)."},"title":"Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo","OA_type":"hybrid","author":[{"id":"a63fe682-9f3a-11ee-bf8c-cfdf919b9850","full_name":"Zhao, Ziyu","first_name":"Ziyu","last_name":"Zhao"},{"orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","first_name":"Leonid A","full_name":"Sazanov, Leonid A","last_name":"Sazanov"}],"biorxivid":1,"OA_place":"publisher","doi":"10.1016/j.molcel.2026.05.026","license":"https://creativecommons.org/licenses/by-nc/4.0/","acknowledgement":"We thank IST Austria for providing the funding. We thank IST Austria EM facility for the use of Titan Krios TEM. Data processing was performed using IST high-performance computer cluster. We thank Dr. R. Roemhild and Professor C. Guet (ISTA) for help in constructing Tat deletion strains and Dr. A. Charnagalov (ISTA) for technical help.","publication":"Molecular Cell","date_updated":"2026-08-04T09:27:06Z","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"ScienComp"}],"researchdata_availability":"yes","month":"06","article_type":"original","dataavailabilitystatement":"This study did not generate new unique reagents. Strains and plasmids generated in this study are available from the lead contact without restrictions.\r\n• Source data are provided within this paper. The cryo-EM map is deposited in the Electron Microscopy Data Bank under accession number EMD-53848. The model is deposited in the Protein Data Bank under accession number 9R91. The structural data are publicly available as of the date of publication. Raw images of spot assays, SDS-PAGE and BN-PAGE gels with Coomassie staining and immunoblot images are available at Mendeley Data (https://doi.org/10.17632/v2g3p9n985.1).\r\n• This paper does not report original code.\r\n• Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.","has_accepted_license":"1","related_material":{"record":[{"id":"22189","status":"for_moderation","relation":"research_data"}],"link":[{"relation":"press_release","description":"News on ISTA website","url":"https://ista.ac.at/en/news/the-gate-for-bulky-cargo/"}]},"language":[{"iso":"eng"}],"publication_status":"inpress","_id":"22148","day":"22","department":[{"_id":"LeSa"}],"publication_identifier":{"issn":["1097-2765"],"eissn":["1097-4164"]}},{"year":"2026","issue":"7","abstract":[{"text":"We introduce JODIE, a genetic joint modeling approach that estimates how DNA loci influence human traits by partitioning genetic effects into four components: direct effects (from a child’s alleles), indirect maternal and paternal effects (from parents’ alleles), and parent-of-origin (PofO) effects (dependent on parental transmission of alleles), while uniquely accounting for assortative mating. We analyze 30,000 child-mother-father trios from the Estonian Biobank and the Norwegian Mother, Father, and Child Cohort, focusing on height, body mass index, and childhood educational test scores. We find direct effects to be the largest contributor to trait variation, but combined, indirect parental and PofO effects are similarly substantial. We support our results by within-family genome-wide association testing and identify 276 independently associated DNA regions with a complex interplay between direct, indirect, and PofO effects. By joint modeling, we show that direct, indirect, and PofO effects collectively shape human phenotypic variation across loci genome-wide.","lang":"eng"}],"status":"public","DOAJ_listed":"1","project":[{"name":"Improving estimation and prediction of common complex disease risk","_id":"9B8D11D6-BA93-11EA-9121-9846C619BF3A","grant_number":"PCEGP3_181181"}],"intvolume":"         6","corr_author":"1","ddc":["570"],"pmid":1,"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","scopus_import":"1","supplementarymaterial":"yes","date_published":"2026-07-08T00:00:00Z","date_created":"2026-06-10T07:39:08Z","das_tickbox":"1","file_date_updated":"2026-07-28T07:24:50Z","article_processing_charge":"Yes","external_id":{"pmid":["40909755"]},"keyword":["direct genetic effects","DGE","indirect genetic effects","IGE","parent-of-origin effects","phenotypic variation","assortative mating","within-family GWAS","MoBa","EstBB"],"oa":1,"quality_controlled":"1","file":[{"relation":"main_file","access_level":"open_access","success":1,"checksum":"f896b510480d2d4e4a7fd46c2e2761f4","content_type":"application/pdf","file_id":"22597","file_size":3679297,"date_created":"2026-07-28T07:24:50Z","date_updated":"2026-07-28T07:24:50Z","creator":"dernst","file_name":"2026_CellGenomics_Kraetschmer.pdf"}],"publisher":"Elsevier","article_type":"original","month":"07","researchdata_availability":"yes","date_updated":"2026-08-04T09:34:08Z","acknowledged_ssus":[{"_id":"ScienComp"}],"publication":"Cell Genomics","department":[{"_id":"MaRo"}],"day":"08","publication_identifier":{"eissn":["2666-979X"]},"language":[{"iso":"eng"}],"_id":"21987","publication_status":"published","related_material":{"link":[{"relation":"press_release","url":"https://ista.ac.at/en/news/human-traits-beyond-inherited-genes/","description":"News on ISTA website"}]},"article_number":"101277","dataavailabilitystatement":"Information on how to access the MoBaPsychGen post-imputation QC data are available here: https://www.fhi.no/en/me/the-psychgen-centre-for-genetic-epidemiology-and-mental-health/access-to-genetic-data-after-quality-control-by-the-mobapsychgen-pipeline-v/.\r\nEstonian Biobank data (https://genomics.ut.ee/en/content/estonian-biobank) were used in this project. For access to be granted to the Estonian Biobank genotypic and corresponding phenotypic data, a preliminary application must be presented to the oversight committee, who must first approve the project. Ethics permission must then be obtained from the Estonian Committee on Bioethics and Human Research. Finally, a full project must be submitted and approved by the Estonian Biobank.\r\nAccess to the Generation Scotland data is available with appropriate permission from the Generation Scotland Access Committee. Applications should be made to access@generationscotland.org (https://genscot.ed.ac.uk/).\r\nThe code for JODIE developed in this work is open source and is publicly available on zenodo (https://doi.org/10.5281/zenodo.19593928) and GitHub (https://github.com/medical-genomics-group/JODIE).\r\nHaplotype Reference Consortium Release 1.1 data (https://ega-archive.org/datasets/EGAD00001002729) are available by application to a Data Access Committee (DAC) of the Wellcome Trust Sanger Institute.\r\nThe Common Metabolic Diseases Atlas can be accessed here: https://cmdga.org.","has_accepted_license":"1","title":"Separating direct, indirect, and parent-of-origin genetic effects in the human population","citation":{"ista":"Krätschmer I, Hegemann L, Hofmeister RJ, Corfield EC, Mahmoudi M, Delaneau O, Andreassen OA, Campbell A, Hayward C, Marioni RE, Ystrom E, Havdahl A, Robinson MR. 2026. Separating direct, indirect, and parent-of-origin genetic effects in the human population. Cell Genomics. 6(7), 101277.","ieee":"I. Krätschmer <i>et al.</i>, “Separating direct, indirect, and parent-of-origin genetic effects in the human population,” <i>Cell Genomics</i>, vol. 6, no. 7. Elsevier, 2026.","mla":"Krätschmer, Ilse, et al. “Separating Direct, Indirect, and Parent-of-Origin Genetic Effects in the Human Population.” <i>Cell Genomics</i>, vol. 6, no. 7, 101277, Elsevier, 2026, doi:<a href=\"https://doi.org/10.1016/j.xgen.2026.101277\">10.1016/j.xgen.2026.101277</a>.","apa":"Krätschmer, I., Hegemann, L., Hofmeister, R. J., Corfield, E. C., Mahmoudi, M., Delaneau, O., … Robinson, M. R. (2026). Separating direct, indirect, and parent-of-origin genetic effects in the human population. <i>Cell Genomics</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.xgen.2026.101277\">https://doi.org/10.1016/j.xgen.2026.101277</a>","ama":"Krätschmer I, Hegemann L, Hofmeister RJ, et al. Separating direct, indirect, and parent-of-origin genetic effects in the human population. <i>Cell Genomics</i>. 2026;6(7). doi:<a href=\"https://doi.org/10.1016/j.xgen.2026.101277\">10.1016/j.xgen.2026.101277</a>","chicago":"Krätschmer, Ilse, Laura Hegemann, Robin J. Hofmeister, Elizabeth C. Corfield, Mahdi Mahmoudi, Olivier Delaneau, Ole A. Andreassen, et al. “Separating Direct, Indirect, and Parent-of-Origin Genetic Effects in the Human Population.” <i>Cell Genomics</i>. Elsevier, 2026. <a href=\"https://doi.org/10.1016/j.xgen.2026.101277\">https://doi.org/10.1016/j.xgen.2026.101277</a>.","short":"I. Krätschmer, L. Hegemann, R.J. Hofmeister, E.C. Corfield, M. Mahmoudi, O. Delaneau, O.A. Andreassen, A. Campbell, C. Hayward, R.E. Marioni, E. Ystrom, A. Havdahl, M.R. Robinson, Cell Genomics 6 (2026)."},"volume":6,"tmp":{"short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"type":"journal_article","oa_version":"Published Version","acknowledgement":"We thank Zoltan Kutalik, Peter Visscher, and members of the Robinson group at ISTA for their comments, which improved this manuscript. This work was funded by an SNSF Eccellenza Grant to M.R.R. (PCEGP3-181181) and by core funding from the Institute of Science and Technology Austria.\r\nThe Norwegian Mother, Father, and Child Cohort Study is supported by the Norwegian Ministry of Health and Care Services and the Ministry of Education and Research. We are grateful to all the participating families in Norway who take part in this on-going cohort study. We thank the Norwegian Institute of Public Health (NIPH) for generating high-quality genomic data. The research is part of the HARVEST collaboration, supported by the Research Council of Norway (#229624). We also thank the NORMENT Center for providing genotype data, funded by the Research Council of Norway (#223273), South East Norway Health Authorities, and Stiftelsen Kristian Gerhard Jebsen, and in collaboration with deCODE Genetics. We further thank the Center for Diabetes Research, the University of Bergen for providing genotype data funded by the ERC AdG project SELECTionPREDISPOSED, Stiftelsen Kristian Gerhard Jebsen, Trond Mohn Foundation, the Research Council of Norway, the Novo Nordisk Foundation, the University of Bergen, and the Western Norway Health Authorities. The MoBa work was performed on the TSD (Tjeneste for Sensitive Data) facilities, owned by the University of Oslo, operated and developed by the TSD service group at the University of Oslo, IT Department (USIT, tsd-drift@usit.uio.no). E.Y. is supported by the European Union (grant numbers 101045526 and 101073237) and the Research Council of Norway (grant numbers 336078, 288083, and 331640).\r\nWe would like to acknowledge the participants and investigators of the Generation Scotland Cohort study. Generation Scotland received core support from the Chief Scientist Office of the Scottish Government Health Directorates (CZD/16/6) and the Scottish Funding Council (HR03006). Genotyping and methylation typing of the GS:SFHS samples was carried out by the Genetics Core Laboratory at the Wellcome Trust Clinical Research Facility, Edinburgh, Scotland and was funded by the Medical Research Council UK and the Wellcome Trust (Wellcome Trust Strategic Award “STratifying Resilience and Depression Longitudinally” [STRADL] ref. 104036/Z/14/Z).\r\nWe would like to thank and acknowledge the participants and investigators of the Estonian Biobank (EstBB) study. The research was conducted using the Estonian Center of Genomics/Roadmap II funded by the Estonian Research Council (project number TT17).\r\nNorwegian analyses were performed on resources provided by Sigma2 - the National Infrastructure for High-Performance Computing and Data Storage in Norway. Estonian Data analysis was carried out in the High-Performance Computing Center cloud provided by University of Tartu. Analysis of the Generation Scotland data and the summary statistics obtained from the other analyses was conducted at IST Austria and is supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing (SciComp).","doi":"10.1016/j.xgen.2026.101277","author":[{"orcid":"0000-0002-5636-9259","last_name":"Krätschmer","full_name":"Krätschmer, Ilse","first_name":"Ilse","id":"30d4014e-7753-11eb-b44b-db6d61112e73"},{"last_name":"Hegemann","first_name":"Laura","full_name":"Hegemann, Laura"},{"full_name":"Hofmeister, Robin J.","first_name":"Robin J.","last_name":"Hofmeister"},{"last_name":"Corfield","full_name":"Corfield, Elizabeth C.","first_name":"Elizabeth C."},{"full_name":"Mahmoudi, Mahdi","first_name":"Mahdi","last_name":"Mahmoudi"},{"last_name":"Delaneau","full_name":"Delaneau, Olivier","first_name":"Olivier"},{"last_name":"Andreassen","first_name":"Ole A.","full_name":"Andreassen, Ole A."},{"last_name":"Campbell","full_name":"Campbell, Archie","first_name":"Archie"},{"first_name":"Caroline","full_name":"Hayward, Caroline","last_name":"Hayward"},{"first_name":"Riccardo E.","full_name":"Marioni, Riccardo E.","last_name":"Marioni"},{"last_name":"Ystrom","first_name":"Eivind","full_name":"Ystrom, Eivind"},{"last_name":"Havdahl","full_name":"Havdahl, Alexandra","first_name":"Alexandra"},{"orcid":"0000-0001-8982-8813","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","last_name":"Robinson","first_name":"Matthew Richard","full_name":"Robinson, Matthew Richard"}],"OA_type":"gold","OA_place":"publisher"},{"abstract":[{"text":"Characterizing protein dynamics at the atomic level is essential for our understanding of biological mechanisms. Whether it is to facilitate metabolite transport, catalyze reactions, transmit signals, or regulate metabolism – proteins are constantly in motion and sample multiple conformational states to fulfill their function. Nuclear magnetic resonance (NMR) spectroscopy is particularly well suited to elucidate the dynamics of biomolecules on their complex free-energy landscape. In particular, solid-state magic-angle spinning (MAS) NMR enables the study of large molecular assemblies, protein crystals, or insoluble proteins at atomic resolution without an inherent molecular size limitation. MAS NMR experiments to probe protein dynamics are extremely versatile and sensitive to motional timescales from picoseconds to seconds. Over the past decades, technological advances, developments in experimental design, and new isotope-labeling approaches have further expanded the possibilities of this technique and significantly improved the accuracy of the determined motional parameters.\r\nFunctionally important sites of proteins often contain aromatic residues. Their side-chain motions have therefore long served as valuable indicators of mechanistically relevant dynamics in NMR studies. In this thesis, site-specifically labeled aromatic residues act as sensitive reporters for MAS NMR studies of protein dynamics. The first part addresses how different environments impact side-chain motion by probing ring flips of phenylalanines and tyrosines in crystalline proteins and amyloid fibrils. It provides important insights for the analysis of dynamics obtained in non-native protein environments and emphasizes the complex factors that determine the timescale of internal dynamics. In the second part, the focus shifts towards methodological questions regarding the investigation of protein dynamics by 19F MAS NMR. The fluorine nucleus exhibits promising characteristics for NMR studies but also presents significant challenges, which is why the full methodological potential of 19F MAS NMR has not been fully realized yet. This work demonstrates that paramagnetic doping can considerably reduce the measurement time and improve the sensitivity of fluorinated samples. Finally, 19F MAS NMR is evaluated as a tool for studying protein side-chain dynamics on the example of tryptophans. The results illustrate the challenges in analyzing such experiments and lay the foundation for further development of 19F MAS NMR relaxation studies.\r\nTaken together, this thesis highlights the potential of combining specific isotope labeling, MAS NMR, and complementary methods such as crystallography and computational simulations to elucidate internal protein dynamics. The further development of such integrative approaches will be crucial to improving our understanding of complex mechanisms and protein function.\r\n","lang":"eng"}],"degree_awarded":"PhD","year":"2026","doi_confirm":"1","page":"205","corr_author":"1","status":"public","project":[{"grant_number":"26777","name":"Exploring protein dynamics by solid-state MAS NMR through specific labeling approaches","_id":"7be609c4-9f16-11ee-852c-85015ce2b9b0"}],"supervisor":[{"id":"7B541462-FAF6-11E9-A490-E8DFE5697425","last_name":"Schanda","full_name":"Schanda, Paul","first_name":"Paul","orcid":"0000-0002-9350-7606"}],"date_created":"2026-07-14T08:08:51Z","das_tickbox":"1","file_date_updated":"2026-07-16T09:17:08Z","article_processing_charge":"No","ddc":["572"],"date_published":"2026-07-13T00:00:00Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa":1,"file":[{"file_id":"22346","content_type":"application/zip","checksum":"8b85114eff543916c0e1445cd2189555","access_level":"closed","relation":"source_file","file_name":"2026_Becker_Lea_source_files.zip","creator":"lbecker","date_created":"2026-07-16T09:17:08Z","date_updated":"2026-07-16T09:17:08Z","file_size":99472908},{"file_size":74647289,"date_created":"2026-07-16T09:17:05Z","date_updated":"2026-07-16T09:17:05Z","creator":"lbecker","file_name":"2026_Becker_Lea_Thesis.pdf","access_level":"open_access","relation":"main_file","success":1,"checksum":"6c526862bc6dbd1e4c80ecb34580bc58","content_type":"application/pdf","file_id":"22347"}],"publisher":"Institute of Science and Technology Austria","date_updated":"2026-08-04T09:32:45Z","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"NMR"}],"month":"07","related_material":{"record":[{"id":"12675","status":"public","relation":"part_of_dissertation"},{"id":"21777","status":"public","relation":"part_of_dissertation"},{"id":"12114","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","id":"22105","status":"public"}]},"has_accepted_license":"1","department":[{"_id":"GradSch"},{"_id":"PaSc"}],"day":"13","publication_identifier":{"isbn":["978-3-99078-084-8"],"issn":["2663-337X"]},"language":[{"iso":"eng"}],"publication_status":"published","_id":"22334","tmp":{"short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"oa_version":"Published Version","type":"dissertation","title":"Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR","citation":{"apa":"Becker, L. M. (2026). <i>Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-22334\">https://doi.org/10.15479/AT-ISTA-22334</a>","chicago":"Becker, Lea Marie. “Exploring Protein Dynamics Using Specific Labeling Approaches for Solid-State MAS NMR.” Institute of Science and Technology Austria, 2026. <a href=\"https://doi.org/10.15479/AT-ISTA-22334\">https://doi.org/10.15479/AT-ISTA-22334</a>.","ama":"Becker LM. Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR. 2026. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-22334\">10.15479/AT-ISTA-22334</a>","short":"L.M. Becker, Exploring Protein Dynamics Using Specific Labeling Approaches for Solid-State MAS NMR, Institute of Science and Technology Austria, 2026.","ista":"Becker LM. 2026. Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR. Institute of Science and Technology Austria.","mla":"Becker, Lea Marie. <i>Exploring Protein Dynamics Using Specific Labeling Approaches for Solid-State MAS NMR</i>. Institute of Science and Technology Austria, 2026, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-22334\">10.15479/AT-ISTA-22334</a>.","ieee":"L. M. Becker, “Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR,” Institute of Science and Technology Austria, 2026."},"author":[{"last_name":"Becker","full_name":"Becker, Lea Marie","first_name":"Lea Marie","id":"36336939-eb97-11eb-a6c2-c83f1214ca79","orcid":"0000-0002-6401-5151"}],"OA_place":"publisher","acknowledgement":"During the work on this thesis, I was the recipient of a DOC Fellowship of the Austrian\r\nAcademy of Sciences at the Institute of Science and Technology Austria (grant no. PR10660EAW01).","alternative_title":["ISTA Thesis"],"doi":"10.15479/AT-ISTA-22334"},{"file":[{"file_size":2618184,"date_created":"2026-07-28T06:58:35Z","date_updated":"2026-07-28T06:58:35Z","file_name":"2026_NatureChemistry_Becker.pdf","creator":"dernst","access_level":"open_access","relation":"main_file","success":1,"checksum":"1069fb27949fd2cb641b043b3a96a580","file_id":"22595","content_type":"application/pdf"}],"publisher":"Springer Nature","external_id":{"pmid":["42271006"]},"oa":1,"quality_controlled":"1","pmid":1,"ddc":["540"],"scopus_import":"1","supplementarymaterial":"yes","date_published":"2026-07-01T00:00:00Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","das_tickbox":"1","date_created":"2026-06-21T22:03:01Z","article_processing_charge":"Yes (via OA deal)","file_date_updated":"2026-07-28T06:58:35Z","project":[{"_id":"7be609c4-9f16-11ee-852c-85015ce2b9b0","name":"Exploring protein dynamics by solid-state MAS NMR through specific labeling approaches","grant_number":"26777"}],"status":"public","corr_author":"1","page":"1221-1230","PlanS_conform":"1","intvolume":"        18","year":"2026","abstract":[{"text":"Protein conformational energy landscapes are shaped not only by intramolecular interactions but also by their environment. In protein crystals and protein–protein complexes, intermolecular contacts alter this energy landscape, but the exact nature of this alteration is difficult to decipher. Understanding how the crystal lattice affects protein dynamics is crucial for crystallography-based studies of motion, yet its influence on collective motions remains unclear. Aromatic ring flips in the hydrophobic core represent sensitive probes of such dynamics. Here, we compare the kinetics of aromatic ring flips in the protein GB1 in crystals, in complex with its binding partner IgG, and in solution, combining advanced isotope labelling with quantitative NMR methods. We show that rings in the core flip nearly a thousand times less frequently in crystals than in solution. Enhanced-sampling molecular dynamics simulations, based on a crystal structure of a GB1 variant reported in this work, reproduce these elevated barriers and reveal how the crystal restrains motions.","lang":"eng"}],"doi":"10.1038/s41557-026-02155-0","acknowledgement":"We thank N. R. Skrynnikov and O. O. Lebedenko (St. Petersburg) for insightful discussions and for performing exploratory MD simulations. We are grateful to T. Schubeis (Lyon) for advice on GB1 crystallization and R. Schmid for initial crystallization trials. We thank C. Mueller-Dieckmann for assistance with room-temperature X-ray crystallography data collection on beamline ID30B at the ESRF, which is acknowledged for providing beamtime through its In-House Research programme. We thank S. Falkner for assistance with constructing the structural model of the IgG:GB1 complex. We thank J. Lewandowski for providing feedback on the paper and granting access to backbone relaxation data of IgG:GB1T2Q and GB1T2Q microcrystals. This research was supported by the Scientific Service Units (SSU) of the Institute of Science and Technology Austria (ISTA) through resources provided by the Nuclear Magnetic Resonance and the Lab Support Facilities. We thank P. Rovó and M. V. Falcón for excellent support of the NMR facility. L.M.B. is recipient of a DOC fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology Austria (grant number PR10660EAW01). C.C. acknowledges the European Research Council (grant project 101097272 ‘MilliInMicro’) and the Métropole du Grand Nancy (grant project ‘ARC’). BM07-FIP2 is supported by the French ANR PIA3 (France 2030) EquipEx+ project MAGNIFIX under grant agreement ANR-21-ESRE-0011.Open access funding provided by Institute of Science and Technology (IST Austria).","author":[{"orcid":"0000-0002-6401-5151","full_name":"Becker, Lea Marie","first_name":"Lea Marie","last_name":"Becker","id":"36336939-eb97-11eb-a6c2-c83f1214ca79"},{"last_name":"Fu","full_name":"Fu, Haohao","first_name":"Haohao"},{"id":"71cda2f3-e604-11ee-a1df-da10587eda3f","last_name":"Tatman","first_name":"Benjamin","full_name":"Tatman, Benjamin"},{"last_name":"Dreydoppel","first_name":"Matthias","full_name":"Dreydoppel, Matthias"},{"id":"9fb2a840-89e1-11ee-a8b7-cc5c7ba62471","last_name":"Kapitonova","full_name":"Kapitonova, Anna","first_name":"Anna"},{"last_name":"Balazs","full_name":"Balazs, Daniel","first_name":"Daniel","id":"302BADF6-85FC-11EA-9E3B-B9493DDC885E","orcid":"0000-0001-7597-043X"},{"last_name":"Weininger","full_name":"Weininger, Ulrich","first_name":"Ulrich"},{"last_name":"Engilberge","first_name":"Sylvain","full_name":"Engilberge, Sylvain"},{"last_name":"Chipot","first_name":"Christophe","full_name":"Chipot, Christophe"},{"id":"7B541462-FAF6-11E9-A490-E8DFE5697425","full_name":"Schanda, Paul","first_name":"Paul","last_name":"Schanda","orcid":"0000-0002-9350-7606"}],"OA_type":"hybrid","OA_place":"publisher","volume":18,"citation":{"apa":"Becker, L. M., Fu, H., Tatman, B., Dreydoppel, M., Kapitonova, A., Balazs, D., … Schanda, P. (2026). Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes. <i>Nature Chemistry</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41557-026-02155-0\">https://doi.org/10.1038/s41557-026-02155-0</a>","chicago":"Becker, Lea Marie, Haohao Fu, Benjamin Tatman, Matthias Dreydoppel, Anna Kapitonova, Daniel Balazs, Ulrich Weininger, Sylvain Engilberge, Christophe Chipot, and Paul Schanda. “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” <i>Nature Chemistry</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1038/s41557-026-02155-0\">https://doi.org/10.1038/s41557-026-02155-0</a>.","ama":"Becker LM, Fu H, Tatman B, et al. Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes. <i>Nature Chemistry</i>. 2026;18:1221-1230. doi:<a href=\"https://doi.org/10.1038/s41557-026-02155-0\">10.1038/s41557-026-02155-0</a>","short":"L.M. Becker, H. Fu, B. Tatman, M. Dreydoppel, A. Kapitonova, D. Balazs, U. Weininger, S. Engilberge, C. Chipot, P. Schanda, Nature Chemistry 18 (2026) 1221–1230.","ista":"Becker LM, Fu H, Tatman B, Dreydoppel M, Kapitonova A, Balazs D, Weininger U, Engilberge S, Chipot C, Schanda P. 2026. Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes. Nature Chemistry. 18, 1221–1230.","ieee":"L. M. Becker <i>et al.</i>, “Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes,” <i>Nature Chemistry</i>, vol. 18. Springer Nature, pp. 1221–1230, 2026.","mla":"Becker, Lea Marie, et al. “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” <i>Nature Chemistry</i>, vol. 18, Springer Nature, 2026, pp. 1221–30, doi:<a href=\"https://doi.org/10.1038/s41557-026-02155-0\">10.1038/s41557-026-02155-0</a>."},"title":"Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes","oa_version":"Published Version","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"type":"journal_article","language":[{"iso":"eng"}],"_id":"22105","publication_status":"published","day":"01","department":[{"_id":"PaSc"},{"_id":"LifeSc"}],"publication_identifier":{"eissn":["17554349"],"issn":["17554330"]},"dataavailabilitystatement":"The cryo and room-temperature crystal structures of GB1QDD are deposited at the PDB under the access codes 9I2I and 9T8Z, respectively. The solid-state NMR backbone assignment of GB1QDD is deposited at the BMRB under the access code 53330. NMR spectra, analysis scripts and raw data are publicly available at the ISTA research explorer (https://doi.org/10.15479/AT-ISTA-20641)120. Files to reproduce the enhanced-sampling MD simulations are publicly available at the ISTA research explorer (https://doi.org/10.15479/AT-ISTA-21145)121.","has_accepted_license":"1","related_material":{"record":[{"relation":"research_data","id":"20641","status":"public"},{"id":"21145","status":"public","relation":"research_data"},{"relation":"dissertation_contains","status":"public","id":"22334"}],"link":[{"description":"News on ISTA website","url":"https://ista.ac.at/en/news/how-proteins-breathe/","relation":"research_data"}]},"researchdata_availability":"yes","month":"07","article_type":"original","publication":"Nature Chemistry","date_updated":"2026-08-04T09:32:45Z","acknowledged_ssus":[{"_id":"NMR"},{"_id":"LifeSc"}]},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2026-02-09T00:00:00Z","ddc":["572"],"file_date_updated":"2026-02-05T13:52:41Z","article_processing_charge":"No","date_created":"2026-02-05T13:54:39Z","oa":1,"publisher":"Institute of Science and Technology Austria","file":[{"file_name":"README.txt","creator":"lbecker","date_updated":"2026-02-05T13:52:37Z","date_created":"2026-02-05T13:52:37Z","file_size":4263,"file_id":"21146","content_type":"text/plain","checksum":"02a419cce8cea450bc952f35488d2df5","access_level":"open_access","relation":"table_of_contents"},{"access_level":"open_access","relation":"main_file","success":1,"checksum":"b0b82b1aa73985b0b308a3fa52d21aea","content_type":"application/zip","file_id":"21147","file_size":50647107,"date_updated":"2026-02-05T13:52:41Z","date_created":"2026-02-05T13:52:41Z","creator":"lbecker","file_name":"Research_Data.zip"}],"year":"2026","abstract":[{"text":"Protein conformational energy landscapes are shaped not only by intramolecular interactions but also by their environment. In protein crystals and protein-protein complexes, intermolecular contacts alter this energy landscape, but the exact nature of this alteration is difficult to decipher. Understanding how the crystal lattice affects protein dynamics is crucial for crystallography-based studies of motion, yet its influence on collective motions remains unclear. Aromatic ring flips in the hydrophobic core represent sensitive probes of such dynamics. Here, we compare the kinetics of aromatic ring flips in the protein GB1 in crystals, in complex with its binding partner IgG, and in solution, combining advanced isotope labeling with quantitative NMR methods. We show that rings in the core flip nearly a thousand times less frequently in crystals than in solution. Enhanced-sampling molecular dynamics simulations, based on a new crystal structure, reproduce these elevated barriers and reveal how the crystal restrains motions. ","lang":"eng"}],"contributor":[{"contributor_type":"researcher","first_name":"Haohao","last_name":"Fu"},{"id":"71cda2f3-e604-11ee-a1df-da10587eda3f","contributor_type":"researcher","first_name":"Benjamin","last_name":"Tatman"},{"last_name":"Dreydoppel","contributor_type":"researcher","first_name":"Matthias"},{"id":"9fb2a840-89e1-11ee-a8b7-cc5c7ba62471","contributor_type":"researcher","first_name":"Anna","last_name":"Kapitonova"},{"orcid":"0000-0001-7597-043X","contributor_type":"researcher","first_name":"Daniel","last_name":"Balazs","id":"302BADF6-85FC-11EA-9E3B-B9493DDC885E"},{"first_name":"Ulrich","contributor_type":"researcher","last_name":"Weininger"},{"last_name":"Engilberge","first_name":"Sylvain","contributor_type":"researcher"}],"status":"public","project":[{"_id":"7be609c4-9f16-11ee-852c-85015ce2b9b0","name":"Exploring protein dynamics by solid-state MAS NMR through specific labeling approaches","grant_number":"26777"}],"corr_author":"1","title":"Additional Data for \"Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes\"","citation":{"apa":"Becker, L. M., Schanda, P., &#38; Chipot, C. (2026). Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-21145\">https://doi.org/10.15479/AT-ISTA-21145</a>","chicago":"Becker, Lea Marie, Paul Schanda, and Christophe Chipot. “Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.’” Institute of Science and Technology Austria, 2026. <a href=\"https://doi.org/10.15479/AT-ISTA-21145\">https://doi.org/10.15479/AT-ISTA-21145</a>.","ama":"Becker LM, Schanda P, Chipot C. Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” 2026. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-21145\">10.15479/AT-ISTA-21145</a>","short":"L.M. Becker, P. Schanda, C. Chipot, (2026).","ista":"Becker LM, Schanda P, Chipot C. 2026. Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT-ISTA-21145\">10.15479/AT-ISTA-21145</a>.","ieee":"L. M. Becker, P. Schanda, and C. Chipot, “Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.’” Institute of Science and Technology Austria, 2026.","mla":"Becker, Lea Marie, et al. <i>Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.”</i> Institute of Science and Technology Austria, 2026, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-21145\">10.15479/AT-ISTA-21145</a>."},"type":"research_data","tmp":{"short":"CC BY-NC (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png"},"oa_version":"Published Version","acknowledgement":"We thank Nikolai R. Skrynnikov and Olga O. Lebedenko (St. Petersburg) for insightful discussions and for performing exploratory MD simulations. We are grateful to Tobias Schubeis (Lyon) for advice with GB1 crystallization, and Rebecca Schmid for initial crystallization trials.\r\nWe thank Sebastian Falkner for assistance with constructing the structural model of the IgG:GB1 complex.\r\nThis research was supported by the Scientific Service Units (SSU) of Institute of Science and Technology Austria (ISTA) through resources provided by the Nuclear Magnetic Resonance and the Lab Support Facilities. We thank Petra Rovó and Margarita Valhondo Falcón for excellent support of the NMR facility.\r\nLea M. Becker is recipient of a DOC fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology Austria (grant no. PR10660EAW01). Christophe Chipot acknowledges the European Research Council (grant project 101097272 ``MilliInMicro'') and the Métropole du Grand Nancy (grant project ``ARC''). BM07-FIP2 is supported by the French ANR PIA3 (France 2030) EquipEx+ project MAGNIFIX under grant agreement ANR-21-ESRE-0011.","doi":"10.15479/AT-ISTA-21145","author":[{"id":"36336939-eb97-11eb-a6c2-c83f1214ca79","first_name":"Lea Marie","full_name":"Becker, Lea Marie","last_name":"Becker","orcid":"0000-0002-6401-5151"},{"id":"7B541462-FAF6-11E9-A490-E8DFE5697425","last_name":"Schanda","first_name":"Paul","full_name":"Schanda, Paul","orcid":"0000-0002-9350-7606"},{"first_name":"Christophe","full_name":"Chipot, Christophe","last_name":"Chipot"}],"month":"02","acknowledged_ssus":[{"_id":"NMR"},{"_id":"LifeSc"}],"date_updated":"2026-08-04T09:32:45Z","department":[{"_id":"GradSch"},{"_id":"PaSc"}],"day":"09","_id":"21145","related_material":{"record":[{"relation":"earlier_version","id":"20641","status":"public"},{"id":"22105","status":"public","relation":"used_in_publication"}]},"has_accepted_license":"1"},{"publication":"European Journal of Applied Mathematics","date_updated":"2026-08-04T22:31:10Z","month":"06","researchdata_availability":"no","article_type":"original","has_accepted_license":"1","related_material":{"record":[{"relation":"dissertation_contains","id":"20563","status":"public"}]},"_id":"18706","publication_status":"published","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["1469-4425"],"issn":["0956-7925"]},"department":[{"_id":"GradSch"},{"_id":"JaMa"}],"day":"01","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"type":"journal_article","isi":1,"oa_version":"Published Version","citation":{"chicago":"Portinale, Lorenzo, and Filippo Quattrocchi. “Discrete-to-Continuum Limits of Optimal Transport with Linear Growth on Periodic Graphs.” <i>European Journal of Applied Mathematics</i>. Cambridge University Press, 2026. <a href=\"https://doi.org/10.1017/s0956792524000810\">https://doi.org/10.1017/s0956792524000810</a>.","ama":"Portinale L, Quattrocchi F. Discrete-to-continuum limits of optimal transport with linear growth on periodic graphs. <i>European Journal of Applied Mathematics</i>. 2026;37(3):614-642. doi:<a href=\"https://doi.org/10.1017/s0956792524000810\">10.1017/s0956792524000810</a>","apa":"Portinale, L., &#38; Quattrocchi, F. (2026). Discrete-to-continuum limits of optimal transport with linear growth on periodic graphs. <i>European Journal of Applied Mathematics</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/s0956792524000810\">https://doi.org/10.1017/s0956792524000810</a>","short":"L. Portinale, F. Quattrocchi, European Journal of Applied Mathematics 37 (2026) 614–642.","mla":"Portinale, Lorenzo, and Filippo Quattrocchi. “Discrete-to-Continuum Limits of Optimal Transport with Linear Growth on Periodic Graphs.” <i>European Journal of Applied Mathematics</i>, vol. 37, no. 3, Cambridge University Press, 2026, pp. 614–42, doi:<a href=\"https://doi.org/10.1017/s0956792524000810\">10.1017/s0956792524000810</a>.","ieee":"L. Portinale and F. Quattrocchi, “Discrete-to-continuum limits of optimal transport with linear growth on periodic graphs,” <i>European Journal of Applied Mathematics</i>, vol. 37, no. 3. Cambridge University Press, pp. 614–642, 2026.","ista":"Portinale L, Quattrocchi F. 2026. Discrete-to-continuum limits of optimal transport with linear growth on periodic graphs. European Journal of Applied Mathematics. 37(3), 614–642."},"volume":37,"title":"Discrete-to-continuum limits of optimal transport with linear growth on periodic graphs","OA_place":"publisher","author":[{"id":"30AD2CBC-F248-11E8-B48F-1D18A9856A87","last_name":"Portinale","first_name":"Lorenzo","full_name":"Portinale, Lorenzo"},{"id":"3ebd6ba8-edfb-11eb-afb5-91a9745ba308","last_name":"Quattrocchi","full_name":"Quattrocchi, Filippo","first_name":"Filippo","orcid":"0009-0000-9773-1931"}],"OA_type":"gold","doi":"10.1017/s0956792524000810","acknowledgement":"L.P. gratefully acknowledges fundings from the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy – GZ 2047/1, Projekt-ID 390685813. F.Q. gratefully acknowledges support from the Austrian Science Fund (FWF) project 10.55776/F65.","issue":"3","abstract":[{"text":"We prove discrete-to-continuum convergence for dynamical optimal transport on  Zd\r\n -periodic graphs with cost functional having linear growth at infinity. This result provides an answer to a problem left open by Gladbach, Kopfer, Maas, and Portinale (Calc Var Partial Differential Equations 62(5), 2023), where the convergence behaviour of discrete boundary-value dynamical transport problems is proved under the stronger assumption of superlinear growth. Our result extends the known literature to some important classes of examples, such as scaling limits of  1 -Wasserstein transport problems. Similarly to what happens in the quadratic case, the geometry of the graph plays a crucial role in the structure of the limit cost function, as we discuss in the final part of this work, which includes some visual representations.","lang":"eng"}],"year":"2026","PlanS_conform":"1","page":"614-642","intvolume":"        37","project":[{"name":"Taming Complexity in Partial Differential Systems","_id":"fc31cba2-9c52-11eb-aca3-ff467d239cd2","grant_number":"F6504"}],"DOAJ_listed":"1","status":"public","article_processing_charge":"Yes","file_date_updated":"2026-07-23T05:55:03Z","das_tickbox":"0","date_created":"2024-12-23T11:03:59Z","supplementarymaterial":"no","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2026-06-01T00:00:00Z","scopus_import":"1","ddc":["500"],"publisher":"Cambridge University Press","file":[{"file_size":612317,"date_created":"2026-07-23T05:55:03Z","date_updated":"2026-07-23T05:55:03Z","creator":"dernst","file_name":"2026_EuropJourAppliedMath_Portinale.pdf","access_level":"open_access","relation":"main_file","success":1,"checksum":"d038f4d00cbfbde2672c17138eab21c9","content_type":"application/pdf","file_id":"22386"}],"quality_controlled":"1","oa":1,"external_id":{"isi":["001381435800001"]},"keyword":["optimal transport","discrete-to-continuum","homogenisation","linear growth","gamma-convergence"]},{"status":"public","corr_author":"1","intvolume":"       343","cryptoeprintid":1,"year":"2025","abstract":[{"text":"Truncation of cryptographic outputs is a technique that was recently introduced in Baldimtsi et al. [Foteini Baldimtsi et al., 2022]. The general idea is to try out many inputs to some cryptographic algorithm until the output (e.g. a public-key or some hash value) falls into some sparse set and thus can be compressed: by trying out an expected 2^k different inputs one will find an output that starts with k zeros.\r\nUsing such truncation one can for example save substantial gas fees on Blockchains where storing values is very expensive. While [Foteini Baldimtsi et al., 2022] show that truncation preserves the security of the underlying primitive, they only consider a setting without preprocessing. In this work we show that lower bounds on the time-space tradeoff for inverting random functions and permutations also hold with truncation, except for parameters ranges where the bound fails to hold for \"trivial\" reasons.\r\nConcretely, it’s known that any algorithm that inverts a random function or permutation with range N making T queries and using S bits of auxiliary input must satisfy S⋅ T ≥ Nlog N. This lower bound no longer holds in the truncated setting where one must only invert a challenge from a range of size N/2^k, as now one can simply save the replies to all N/2^k challenges, which requires S = log N⋅ N /2^k bits and allows to invert with T = 1 query.\r\nWe show that with truncation, whenever S is somewhat smaller than the log N⋅ N /2^k bits required to store the entire truncated function table, the known S⋅ T ≥ Nlog N lower bound applies.","lang":"eng"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","file":[{"file_name":"2025_LIPIcs_Pietrzak.pdf","creator":"dernst","date_created":"2026-06-22T08:54:32Z","date_updated":"2026-06-22T08:54:32Z","file_size":772046,"file_id":"22118","content_type":"application/pdf","checksum":"3f791b03df26853342855a9d9581cb58","success":1,"relation":"main_file","access_level":"open_access"}],"quality_controlled":"1","oa":1,"keyword":["Time-Space Lower Bounds","Blockchains"],"external_id":{"cryptoeprintid":["2025/723"]},"scopus_import":"1","date_published":"2025-09-08T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["000"],"article_processing_charge":"Yes","file_date_updated":"2026-06-22T08:54:32Z","das_tickbox":"0","date_created":"2026-06-14T22:01:45Z","_id":"22007","publication_status":"published","language":[{"iso":"eng"}],"publication_identifier":{"isbn":["9783959773850"],"eissn":["1868-8969"]},"department":[{"_id":"KrPi"}],"day":"08","has_accepted_license":"1","article_number":"4:1-4:10","conference":{"end_date":"2025-08-17","location":"Santa Barbara, CA, United States","start_date":"2025-08-16","name":"ITC: Information Theoretic Cryptography"},"month":"09","publication":"6th Conference on Information-Theoretic Cryptography","date_updated":"2026-06-22T08:57:41Z","doi":"10.4230/LIPIcs.ITC.2025.4","alternative_title":["LIPIcs"],"OA_place":"publisher","author":[{"full_name":"Pietrzak, Krzysztof Z","first_name":"Krzysztof Z","last_name":"Pietrzak","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9139-1654"},{"last_name":"Wang","full_name":"Wang, Pengxiang","first_name":"Pengxiang"}],"OA_type":"gold","citation":{"ista":"Pietrzak KZ, Wang P. 2025. Time-space tradeoffs of truncation with preprocessing. 6th Conference on Information-Theoretic Cryptography. ITC: Information Theoretic Cryptography, LIPIcs, vol. 343, 4:1-4:10.","ieee":"K. Z. Pietrzak and P. Wang, “Time-space tradeoffs of truncation with preprocessing,” in <i>6th Conference on Information-Theoretic Cryptography</i>, Santa Barbara, CA, United States, 2025, vol. 343.","mla":"Pietrzak, Krzysztof Z., and Pengxiang Wang. “Time-Space Tradeoffs of Truncation with Preprocessing.” <i>6th Conference on Information-Theoretic Cryptography</i>, vol. 343, 4:1-4:10, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025, doi:<a href=\"https://doi.org/10.4230/LIPIcs.ITC.2025.4\">10.4230/LIPIcs.ITC.2025.4</a>.","apa":"Pietrzak, K. Z., &#38; Wang, P. (2025). Time-space tradeoffs of truncation with preprocessing. In <i>6th Conference on Information-Theoretic Cryptography</i> (Vol. 343). Santa Barbara, CA, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.ITC.2025.4\">https://doi.org/10.4230/LIPIcs.ITC.2025.4</a>","ama":"Pietrzak KZ, Wang P. Time-space tradeoffs of truncation with preprocessing. In: <i>6th Conference on Information-Theoretic Cryptography</i>. Vol 343. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2025. doi:<a href=\"https://doi.org/10.4230/LIPIcs.ITC.2025.4\">10.4230/LIPIcs.ITC.2025.4</a>","chicago":"Pietrzak, Krzysztof Z, and Pengxiang Wang. “Time-Space Tradeoffs of Truncation with Preprocessing.” In <i>6th Conference on Information-Theoretic Cryptography</i>, Vol. 343. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025. <a href=\"https://doi.org/10.4230/LIPIcs.ITC.2025.4\">https://doi.org/10.4230/LIPIcs.ITC.2025.4</a>.","short":"K.Z. Pietrzak, P. Wang, in:, 6th Conference on Information-Theoretic Cryptography, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025."},"volume":343,"title":"Time-space tradeoffs of truncation with preprocessing","oa_version":"Published Version","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"type":"conference"},{"arxiv":1,"publisher":"American Mathematical Society","oa":1,"quality_controlled":"1","external_id":{"arxiv":["2311.12334"]},"date_published":"2025-06-23T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":"1","ddc":["500"],"article_processing_charge":"No","das_tickbox":"1","date_created":"2026-06-19T07:42:34Z","extern":"1","status":"public","page":"284-320","intvolume":"         5","year":"2025","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2311.12334","open_access":"1"}],"abstract":[{"lang":"eng","text":"We prove that the focusing and defocusing continuum Calogero–Moser models are well-posed in the scaling-critical space L^2+(R). In the focusing case, this requires solutions to have mass less than that of the soliton."}],"issue":"7","doi":"10.1090/cams/48","OA_place":"publisher","OA_type":"diamond","author":[{"first_name":"Rowan","full_name":"Killip, Rowan","last_name":"Killip"},{"last_name":"Laurens","full_name":"Laurens, Thierry","first_name":"Thierry"},{"id":"056daca0-b8d1-11f0-964f-f91054abf8ca","last_name":"Visan","first_name":"Monica","full_name":"Visan, Monica"}],"citation":{"mla":"Killip, Rowan, et al. “Scaling-Critical Well-Posedness for Continuum Calogero–Moser Models on the Line.” <i>Communications of the American Mathematical Society</i>, vol. 5, no. 7, American Mathematical Society, 2025, pp. 284–320, doi:<a href=\"https://doi.org/10.1090/cams/48\">10.1090/cams/48</a>.","ieee":"R. Killip, T. Laurens, and M. Vişan, “Scaling-critical well-posedness for continuum Calogero–Moser models on the line,” <i>Communications of the American Mathematical Society</i>, vol. 5, no. 7. American Mathematical Society, pp. 284–320, 2025.","ista":"Killip R, Laurens T, Vişan M. 2025. Scaling-critical well-posedness for continuum Calogero–Moser models on the line. Communications of the American Mathematical Society. 5(7), 284–320.","short":"R. Killip, T. Laurens, M. Vişan, Communications of the American Mathematical Society 5 (2025) 284–320.","ama":"Killip R, Laurens T, Vişan M. Scaling-critical well-posedness for continuum Calogero–Moser models on the line. <i>Communications of the American Mathematical Society</i>. 2025;5(7):284-320. doi:<a href=\"https://doi.org/10.1090/cams/48\">10.1090/cams/48</a>","chicago":"Killip, Rowan, Thierry Laurens, and Monica Vişan. “Scaling-Critical Well-Posedness for Continuum Calogero–Moser Models on the Line.” <i>Communications of the American Mathematical Society</i>. American Mathematical Society, 2025. <a href=\"https://doi.org/10.1090/cams/48\">https://doi.org/10.1090/cams/48</a>.","apa":"Killip, R., Laurens, T., &#38; Vişan, M. (2025). Scaling-critical well-posedness for continuum Calogero–Moser models on the line. <i>Communications of the American Mathematical Society</i>. American Mathematical Society. <a href=\"https://doi.org/10.1090/cams/48\">https://doi.org/10.1090/cams/48</a>"},"volume":5,"title":"Scaling-critical well-posedness for continuum Calogero–Moser models on the line","type":"journal_article","tmp":{"short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"oa_version":"Published Version","publication_status":"published","_id":"22032","language":[{"iso":"eng"}],"publication_identifier":{"issn":["2692-3688"]},"day":"23","has_accepted_license":"1","month":"06","article_type":"original","publication":"Communications of the American Mathematical Society","date_updated":"2026-06-22T11:21:09Z"},{"external_id":{"arxiv":["2403.09989"]},"quality_controlled":"1","oa":1,"publisher":"Springer Nature","arxiv":1,"date_created":"2026-06-19T07:44:05Z","das_tickbox":"1","article_processing_charge":"No","date_published":"2025-07-24T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":"1","intvolume":"       311","status":"public","extern":"1","abstract":[{"text":"We prove dispersive decay, pointwise in time, for solutions to the mass-critical nonlinear Schrödinger equation in spatial dimensions d= 1, 2, 3.","lang":"eng"}],"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2403.09989","open_access":"1"}],"year":"2025","author":[{"full_name":"Fan, Chenjie","first_name":"Chenjie","last_name":"Fan"},{"full_name":"Killip, Rowan","first_name":"Rowan","last_name":"Killip"},{"id":"056daca0-b8d1-11f0-964f-f91054abf8ca","first_name":"Monica","full_name":"Visan, Monica","last_name":"Visan"},{"last_name":"Zhao","full_name":"Zhao, Zehua","first_name":"Zehua"}],"OA_type":"green","OA_place":"repository","doi":"10.1007/s00209-025-03821-8","oa_version":"Preprint","type":"journal_article","title":"Dispersive decay for the mass-critical nonlinear Schrödinger equation","citation":{"ista":"Fan C, Killip R, Vişan M, Zhao Z. 2025. Dispersive decay for the mass-critical nonlinear Schrödinger equation. Mathematische Zeitschrift. 311, 21.","mla":"Fan, Chenjie, et al. “Dispersive Decay for the Mass-Critical Nonlinear Schrödinger Equation.” <i>Mathematische Zeitschrift</i>, vol. 311, 21, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1007/s00209-025-03821-8\">10.1007/s00209-025-03821-8</a>.","ieee":"C. Fan, R. Killip, M. Vişan, and Z. Zhao, “Dispersive decay for the mass-critical nonlinear Schrödinger equation,” <i>Mathematische Zeitschrift</i>, vol. 311. Springer Nature, 2025.","apa":"Fan, C., Killip, R., Vişan, M., &#38; Zhao, Z. (2025). Dispersive decay for the mass-critical nonlinear Schrödinger equation. <i>Mathematische Zeitschrift</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00209-025-03821-8\">https://doi.org/10.1007/s00209-025-03821-8</a>","chicago":"Fan, Chenjie, Rowan Killip, Monica Vişan, and Zehua Zhao. “Dispersive Decay for the Mass-Critical Nonlinear Schrödinger Equation.” <i>Mathematische Zeitschrift</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1007/s00209-025-03821-8\">https://doi.org/10.1007/s00209-025-03821-8</a>.","ama":"Fan C, Killip R, Vişan M, Zhao Z. Dispersive decay for the mass-critical nonlinear Schrödinger equation. <i>Mathematische Zeitschrift</i>. 2025;311. doi:<a href=\"https://doi.org/10.1007/s00209-025-03821-8\">10.1007/s00209-025-03821-8</a>","short":"C. Fan, R. Killip, M. Vişan, Z. Zhao, Mathematische Zeitschrift 311 (2025)."},"volume":311,"article_number":"21","day":"24","publication_identifier":{"eissn":["1432-1823"],"issn":["0025-5874"]},"language":[{"iso":"eng"}],"_id":"22036","publication_status":"published","date_updated":"2026-06-22T13:00:14Z","publication":"Mathematische Zeitschrift","article_type":"original","month":"07"}]