[{"abstract":[{"text":"We consider the sharp interface limit of a Navier-Stokes/Allen Cahn equation in a bounded smooth domain in two space dimensions, in the case of vanishing mobility mε=ε√, where the small parameter ε>0 related to the thickness of the diffuse interface is sent to zero. For well-prepared initial data and sufficiently small times, we rigorously prove convergence to the classical two-phase Navier-Stokes system with surface tension. The idea of the proof is to use asymptotic expansions to construct an approximate solution and to estimate the difference of the exact and approximate solutions with a spectral estimate for the (at the approximate solution) linearized Allen-Cahn operator. In the calculations we use a fractional order ansatz and new ansatz terms in higher orders leading to a suitable ε-scaled and coupled model problem. Moreover, we apply the novel idea of introducing ε-dependent coordinates.","lang":"eng"}],"article_type":"original","volume":63,"oa_version":"Published Version","day":"01","ec_funded":1,"project":[{"grant_number":"948819","call_identifier":"H2020","name":"Bridging Scales in Random Materials","_id":"0aa76401-070f-11eb-9043-b5bb049fa26d"}],"external_id":{"arxiv":["2304.12096"],"isi":["001199418100002"]},"quality_controlled":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"month":"05","department":[{"_id":"JuFi"}],"date_updated":"2025-09-04T13:45:40Z","title":"Sharp interface limit for a Navier–Stokes/Allen–Cahn system in the case of a vanishing mobility","isi":1,"article_number":"94","citation":{"ieee":"H. Abels, M. Fei, and M. Moser, “Sharp interface limit for a Navier–Stokes/Allen–Cahn system in the case of a vanishing mobility,” <i>Calculus of Variations and Partial Differential Equations</i>, vol. 63, no. 4. Springer Nature, 2024.","mla":"Abels, Helmut, et al. “Sharp Interface Limit for a Navier–Stokes/Allen–Cahn System in the Case of a Vanishing Mobility.” <i>Calculus of Variations and Partial Differential Equations</i>, vol. 63, no. 4, 94, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1007/s00526-024-02715-7\">10.1007/s00526-024-02715-7</a>.","ista":"Abels H, Fei M, Moser M. 2024. Sharp interface limit for a Navier–Stokes/Allen–Cahn system in the case of a vanishing mobility. Calculus of Variations and Partial Differential Equations. 63(4), 94.","ama":"Abels H, Fei M, Moser M. Sharp interface limit for a Navier–Stokes/Allen–Cahn system in the case of a vanishing mobility. <i>Calculus of Variations and Partial Differential Equations</i>. 2024;63(4). doi:<a href=\"https://doi.org/10.1007/s00526-024-02715-7\">10.1007/s00526-024-02715-7</a>","chicago":"Abels, Helmut, Mingwen Fei, and Maximilian Moser. “Sharp Interface Limit for a Navier–Stokes/Allen–Cahn System in the Case of a Vanishing Mobility.” <i>Calculus of Variations and Partial Differential Equations</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/s00526-024-02715-7\">https://doi.org/10.1007/s00526-024-02715-7</a>.","short":"H. Abels, M. Fei, M. Moser, Calculus of Variations and Partial Differential Equations 63 (2024).","apa":"Abels, H., Fei, M., &#38; Moser, M. (2024). Sharp interface limit for a Navier–Stokes/Allen–Cahn system in the case of a vanishing mobility. <i>Calculus of Variations and Partial Differential Equations</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00526-024-02715-7\">https://doi.org/10.1007/s00526-024-02715-7</a>"},"date_published":"2024-05-01T00:00:00Z","year":"2024","publication_status":"published","doi":"10.1007/s00526-024-02715-7","publisher":"Springer Nature","article_processing_charge":"Yes (via OA deal)","publication_identifier":{"eissn":["1432-0835"],"issn":["0944-2669"]},"file":[{"file_size":975186,"relation":"main_file","success":1,"access_level":"open_access","checksum":"b1095fad4cae596f52cc616a973bdde2","date_created":"2024-04-23T07:30:48Z","creator":"dernst","file_id":"15343","content_type":"application/pdf","file_name":"2024_CalculusEquations_Abels.pdf","date_updated":"2024-04-23T07:30:48Z"}],"ddc":["510"],"intvolume":"        63","scopus_import":"1","status":"public","date_created":"2024-04-21T22:00:52Z","has_accepted_license":"1","language":[{"iso":"eng"}],"publication":"Calculus of Variations and Partial Differential Equations","file_date_updated":"2024-04-23T07:30:48Z","issue":"4","type":"journal_article","author":[{"first_name":"Helmut","last_name":"Abels","full_name":"Abels, Helmut"},{"last_name":"Fei","full_name":"Fei, Mingwen","first_name":"Mingwen"},{"full_name":"Moser, Maximilian","id":"a60047a9-da77-11eb-85b4-c4dc385ebb8c","last_name":"Moser","first_name":"Maximilian"}],"acknowledgement":"Open Access funding enabled and organized by Projekt DEAL.\r\nM. Fei was partially supported by NSF of China under Grant No. 12271004 and Anhui Provincial Funding Project under Grant Nos. gxbjZD2022009 and 2308085J10. Moreover, M. Moser has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No 948819).","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa":1,"_id":"15334","arxiv":1},{"ddc":["570"],"file":[{"file_name":"2024_PNAS_Godavarthi.pdf","date_updated":"2024-04-23T06:53:14Z","content_type":"application/pdf","file_id":"15340","creator":"dernst","date_created":"2024-04-23T06:53:14Z","checksum":"f3b4ffad4ef3d1c443414edf0cd2392c","success":1,"access_level":"open_access","file_size":16187094,"relation":"main_file"}],"intvolume":"       121","pmid":1,"scopus_import":"1","status":"public","date_created":"2024-04-21T22:00:53Z","publication":"Proceedings of the National Academy of Sciences of the United States of America","language":[{"iso":"eng"}],"has_accepted_license":"1","issue":"15","file_date_updated":"2024-04-23T06:53:14Z","acknowledgement":"We  thank  all  members  of  the  Spitzer  laboratory  for  discussions  and  critical  feedback;  K.  Marek  for  discussions  of  acknowledgment  signals; I. Gregor and R. Aricescu for discussions of receptor pharmacology and transsynaptic  bridges;  C.  Kintner  for  advice  on  Xenopus  blastomere  lineage;  A.  Ray and E. Park for guidance on miniature analysis; A. Glavis- Bloom, S.U. Choi, S. Atkins, M. Gupta, and S. Malladi for technical assistance; and D. K. Berg and L. R. Squire for comments on the manuscript. This work was supported by NSF 2051555 and the Overland Foundation. Microscopy for five- channel imaging utilized the UCSD School of Medicine Microscopy Core, supported by NIH grant NS047101.","author":[{"full_name":"Godavarthi, Swetha K.","last_name":"Godavarthi","first_name":"Swetha K."},{"first_name":"Masaki","full_name":"Hiramoto, Masaki","last_name":"Hiramoto"},{"first_name":"Yuri","full_name":"Ignatyev, Yuri","last_name":"Ignatyev"},{"first_name":"Jacqueline B.","last_name":"Levin","full_name":"Levin, Jacqueline B."},{"full_name":"Li, Hui Quan","last_name":"Li","first_name":"Hui Quan"},{"full_name":"Pratelli, Marta","last_name":"Pratelli","first_name":"Marta"},{"first_name":"Jennifer","last_name":"Borchardt","full_name":"Borchardt, Jennifer"},{"first_name":"Cynthia","full_name":"Czajkowski, Cynthia","last_name":"Czajkowski"},{"first_name":"Laura N.","last_name":"Borodinsky","full_name":"Borodinsky, Laura N."},{"full_name":"Sweeney, Lora Beatrice Jaeger","id":"56BE8254-C4F0-11E9-8E45-0B23E6697425","last_name":"Sweeney","orcid":"0000-0001-9242-5601","first_name":"Lora Beatrice Jaeger"},{"last_name":"Cline","full_name":"Cline, Hollis T.","first_name":"Hollis T."},{"last_name":"Spitzer","full_name":"Spitzer, Nicholas C.","first_name":"Nicholas C."}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","type":"journal_article","oa":1,"_id":"15335","article_type":"original","abstract":[{"lang":"eng","text":"Stable matching of neurotransmitters with their receptors is fundamental to synapse function and reliable communication in neural circuits. Presynaptic neurotransmitters regulate the stabilization of postsynaptic transmitter receptors. Whether postsynaptic receptors regulate stabilization of presynaptic transmitters has received less attention. Here, we show that blockade of endogenous postsynaptic acetylcholine receptors (AChR) at the neuromuscular junction destabilizes the cholinergic phenotype in motor neurons and stabilizes an earlier, developmentally transient glutamatergic phenotype. Further, expression of exogenous postsynaptic gamma-aminobutyric acid type A receptors (GABAA receptors) in muscle cells stabilizes an earlier, developmentally transient GABAergic motor neuron phenotype. Both AChR and GABAA receptors are linked to presynaptic neurons through transsynaptic bridges. Knockdown of specific components of these transsynaptic bridges prevents stabilization of the cholinergic or GABAergic phenotypes. Bidirectional communication can enforce a match between transmitter and receptor and ensure the fidelity of synaptic transmission. Our findings suggest a potential role of dysfunctional transmitter receptors in neurological disorders that involve the loss of the presynaptic transmitter."}],"day":"09","oa_version":"Published Version","volume":121,"quality_controlled":"1","external_id":{"pmid":["38568976"],"isi":["001243892800004"]},"date_updated":"2025-09-04T13:42:01Z","department":[{"_id":"LoSw"}],"month":"04","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"isi":1,"article_number":"e2318041121","title":"Postsynaptic receptors regulate presynaptic transmitter stability through transsynaptic bridges","date_published":"2024-04-09T00:00:00Z","year":"2024","citation":{"ieee":"S. K. Godavarthi <i>et al.</i>, “Postsynaptic receptors regulate presynaptic transmitter stability through transsynaptic bridges,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 121, no. 15. National Academy of Sciences, 2024.","mla":"Godavarthi, Swetha K., et al. “Postsynaptic Receptors Regulate Presynaptic Transmitter Stability through Transsynaptic Bridges.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 121, no. 15, e2318041121, National Academy of Sciences, 2024, doi:<a href=\"https://doi.org/10.1073/pnas.2318041121\">10.1073/pnas.2318041121</a>.","ista":"Godavarthi SK, Hiramoto M, Ignatyev Y, Levin JB, Li HQ, Pratelli M, Borchardt J, Czajkowski C, Borodinsky LN, Sweeney LB, Cline HT, Spitzer NC. 2024. Postsynaptic receptors regulate presynaptic transmitter stability through transsynaptic bridges. Proceedings of the National Academy of Sciences of the United States of America. 121(15), e2318041121.","ama":"Godavarthi SK, Hiramoto M, Ignatyev Y, et al. Postsynaptic receptors regulate presynaptic transmitter stability through transsynaptic bridges. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2024;121(15). doi:<a href=\"https://doi.org/10.1073/pnas.2318041121\">10.1073/pnas.2318041121</a>","chicago":"Godavarthi, Swetha K., Masaki Hiramoto, Yuri Ignatyev, Jacqueline B. Levin, Hui Quan Li, Marta Pratelli, Jennifer Borchardt, et al. “Postsynaptic Receptors Regulate Presynaptic Transmitter Stability through Transsynaptic Bridges.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2024. <a href=\"https://doi.org/10.1073/pnas.2318041121\">https://doi.org/10.1073/pnas.2318041121</a>.","short":"S.K. Godavarthi, M. Hiramoto, Y. Ignatyev, J.B. Levin, H.Q. Li, M. Pratelli, J. Borchardt, C. Czajkowski, L.N. Borodinsky, L.B. Sweeney, H.T. Cline, N.C. Spitzer, Proceedings of the National Academy of Sciences of the United States of America 121 (2024).","apa":"Godavarthi, S. K., Hiramoto, M., Ignatyev, Y., Levin, J. B., Li, H. Q., Pratelli, M., … Spitzer, N. C. (2024). Postsynaptic receptors regulate presynaptic transmitter stability through transsynaptic bridges. <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.2318041121\">https://doi.org/10.1073/pnas.2318041121</a>"},"article_processing_charge":"Yes (in subscription journal)","publisher":"National Academy of Sciences","publication_identifier":{"eissn":["1091-6490"]},"doi":"10.1073/pnas.2318041121","publication_status":"published"},{"publisher":"EDP Sciences","article_processing_charge":"Yes (in subscription journal)","publication_identifier":{"eissn":["1432-0746"],"issn":["0004-6361"]},"doi":"10.1051/0004-6361/202348659","publication_status":"published","year":"2024","date_published":"2024-04-01T00:00:00Z","citation":{"ieee":"A. Pensabene <i>et al.</i>, “ALMA survey of a massive node of the Cosmic Web at z ∼ 3: I. Discovery of a large overdensity of CO emitters,” <i>Astronomy and Astrophysics</i>, vol. 684. EDP Sciences, 2024.","mla":"Pensabene, A., et al. “ALMA Survey of a Massive Node of the Cosmic Web at z ∼ 3: I. Discovery of a Large Overdensity of CO Emitters.” <i>Astronomy and Astrophysics</i>, vol. 684, A119, EDP Sciences, 2024, doi:<a href=\"https://doi.org/10.1051/0004-6361/202348659\">10.1051/0004-6361/202348659</a>.","ista":"Pensabene A, Cantalupo S, Cicone C, Decarli R, Galbiati M, Ginolfi M, De Beer S, Fossati M, Fumagalli M, Lazeyras T, Pezzulli G, Travascio A, Wang W, Matthee JJ, Maseda MV. 2024. ALMA survey of a massive node of the Cosmic Web at z ∼ 3: I. Discovery of a large overdensity of CO emitters. Astronomy and Astrophysics. 684, A119.","ama":"Pensabene A, Cantalupo S, Cicone C, et al. ALMA survey of a massive node of the Cosmic Web at z ∼ 3: I. Discovery of a large overdensity of CO emitters. <i>Astronomy and Astrophysics</i>. 2024;684. doi:<a href=\"https://doi.org/10.1051/0004-6361/202348659\">10.1051/0004-6361/202348659</a>","chicago":"Pensabene, A., S. Cantalupo, C. Cicone, R. Decarli, M. Galbiati, M. Ginolfi, S. De Beer, et al. “ALMA Survey of a Massive Node of the Cosmic Web at z ∼ 3: I. Discovery of a Large Overdensity of CO Emitters.” <i>Astronomy and Astrophysics</i>. EDP Sciences, 2024. <a href=\"https://doi.org/10.1051/0004-6361/202348659\">https://doi.org/10.1051/0004-6361/202348659</a>.","short":"A. Pensabene, S. Cantalupo, C. Cicone, R. Decarli, M. Galbiati, M. Ginolfi, S. De Beer, M. Fossati, M. Fumagalli, T. Lazeyras, G. Pezzulli, A. Travascio, W. Wang, J.J. Matthee, M.V. Maseda, Astronomy and Astrophysics 684 (2024).","apa":"Pensabene, A., Cantalupo, S., Cicone, C., Decarli, R., Galbiati, M., Ginolfi, M., … Maseda, M. V. (2024). ALMA survey of a massive node of the Cosmic Web at z ∼ 3: I. Discovery of a large overdensity of CO emitters. <i>Astronomy and Astrophysics</i>. EDP Sciences. <a href=\"https://doi.org/10.1051/0004-6361/202348659\">https://doi.org/10.1051/0004-6361/202348659</a>"},"isi":1,"article_number":"A119","title":"ALMA survey of a massive node of the Cosmic Web at z ∼ 3: I. Discovery of a large overdensity of CO emitters","date_updated":"2025-09-04T13:42:50Z","department":[{"_id":"JoMa"}],"month":"04","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"quality_controlled":"1","external_id":{"arxiv":["2401.04765"],"isi":["001199982500009"]},"volume":684,"oa_version":"Published Version","day":"01","article_type":"original","abstract":[{"text":"Submillimeter surveys toward overdense regions in the early Universe are essential for uncovering the obscured star formation and the cold gas content of assembling galaxies within massive dark matter halos. In this work, we present deep ALMA mosaic observations covering an area of ∼2′×2′ around MUSE Quasar Nebula 01 (MQN01), one of the largest and brightest Ly-α emitting nebulae discovered thus far; it surrounds a radio-quiet quasar at z ≃ 3.25. Our observations target the 1.2 and the 3 mm dust continuum as well as the carbon monoxide CO(4–3) transition in galaxies in the vicinity of the quasar. We identify a robust sample of 11 CO-line-emitting galaxies (including a closely separated quasar companion) that lie within ±4000 km s−1 of the quasar systemic redshift. A fraction of these objects were missed in previous deep rest-frame optical/UV surveys, which highlights the critical role of (sub)millimeter imaging. We also detect a total of 11 sources revealed in the dust continuum at 1.2 mm; six of them have either high-fidelity spectroscopic redshift information from rest-frame UV metal absorptions or the CO(4–3) line that places them in the same narrow redshift range. A comparison of the CO luminosity function and 1.2 mm number count density with those of the general fields points to a galaxy overdensity of δ > 10. We find evidence of a systematic flattening at the bright end of the CO luminosity function with respect to the trend measured in blank fields. Our findings reveal that galaxies in dense regions at z ∼ 3 are more massive and significantly richer in molecular gas than galaxies in fields, which enables a faster and accelerated assembly. This is the first in a series of studies aimed at characterizing one of the densest regions of the Universe found so far at z > 3.","lang":"eng"}],"arxiv":1,"_id":"15336","oa":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","author":[{"full_name":"Pensabene, A.","last_name":"Pensabene","first_name":"A."},{"full_name":"Cantalupo, S.","last_name":"Cantalupo","first_name":"S."},{"first_name":"C.","full_name":"Cicone, C.","last_name":"Cicone"},{"first_name":"R.","full_name":"Decarli, R.","last_name":"Decarli"},{"last_name":"Galbiati","full_name":"Galbiati, M.","first_name":"M."},{"first_name":"M.","full_name":"Ginolfi, M.","last_name":"Ginolfi"},{"first_name":"S.","full_name":"De Beer, S.","last_name":"De Beer"},{"first_name":"M.","last_name":"Fossati","full_name":"Fossati, M."},{"first_name":"M.","last_name":"Fumagalli","full_name":"Fumagalli, M."},{"first_name":"T.","full_name":"Lazeyras, T.","last_name":"Lazeyras"},{"first_name":"G.","full_name":"Pezzulli, G.","last_name":"Pezzulli"},{"last_name":"Travascio","full_name":"Travascio, A.","first_name":"A."},{"first_name":"W.","full_name":"Wang, W.","last_name":"Wang"},{"orcid":"0000-0003-2871-127X","first_name":"Jorryt J","last_name":"Matthee","id":"7439a258-f3c0-11ec-9501-9df22fe06720","full_name":"Matthee, Jorryt J"},{"first_name":"M. V.","last_name":"Maseda","full_name":"Maseda, M. V."}],"acknowledgement":"We thank the anonymous referee for the careful reading of the paper and useful suggestions which improved the manuscript. We thank Dr. Leindert Boogaard for sharing data and providing support in the data analysis process. This paper makes use of the following ALMA data: ADS/JAO.ALMA#2021.1.00793.S. ALMA is a partnership of ESO (representing its member states), NSF (USA) and NINS (Japan), together with NRC (Canada), MOST and ASIAA (Taiwan), and KASI (Republic of Korea), in cooperation with the Republic of Chile. The Joint ALMA Observatory is operated by ESO, AUI/NRAO and NAOJ. This project was supported by the European Research Council (ERC) Consolidator Grant 864361 (CosmicWeb) and by Fondazione Cariplo grant no. 2020-0902. M.M. was supported in part by grant HST-GO-17065. This research made use of Astropy (http://www.astropy.org), a community-developed core Python package for Astronomy (Astropy Collaboration 2013, 2018), NumPy (Harris et al. 2020), SciPy (Virtanen et al. 2020), Matplotlib (Hunter 2007), and Statsmodel (Seabold & Perktold 2010).","type":"journal_article","file_date_updated":"2024-04-23T06:59:18Z","publication":"Astronomy and Astrophysics","language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","date_created":"2024-04-21T22:00:53Z","scopus_import":"1","intvolume":"       684","ddc":["520"],"file":[{"date_created":"2024-04-23T06:59:18Z","checksum":"ab48775b6946cebfa27ddded5a68fdd2","access_level":"open_access","success":1,"file_size":4410627,"relation":"main_file","file_name":"2024_AstronomyAstrophysics_Pensabene.pdf","date_updated":"2024-04-23T06:59:18Z","content_type":"application/pdf","file_id":"15341","creator":"dernst"}]},{"article_type":"original","abstract":[{"lang":"eng","text":"We prove the Manin–Peyre conjecture for the number of rational points of bounded height outside of a thin subset on a family of Fano threefolds of bidegree (1, 2)."}],"OA_type":"hybrid","volume":390,"day":"01","oa_version":"Published Version","external_id":{"isi":["001204670500001"],"arxiv":["2204.09322"]},"quality_controlled":"1","project":[{"call_identifier":"FWF","_id":"26AEDAB2-B435-11E9-9278-68D0E5697425","name":"New frontiers of the Manin conjecture","grant_number":"P32428"}],"date_updated":"2025-09-04T13:41:19Z","month":"11","department":[{"_id":"TiBr"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"isi":1,"title":"Density of rational points on some quadric bundle threefolds","year":"2024","date_published":"2024-11-01T00:00:00Z","citation":{"ama":"Bonolis D, Browning TD, Huang Z. Density of rational points on some quadric bundle threefolds. <i>Mathematische Annalen</i>. 2024;390:4123-4207. doi:<a href=\"https://doi.org/10.1007/s00208-024-02854-4\">10.1007/s00208-024-02854-4</a>","chicago":"Bonolis, Dante, Timothy D Browning, and Zhizhong Huang. “Density of Rational Points on Some Quadric Bundle Threefolds.” <i>Mathematische Annalen</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/s00208-024-02854-4\">https://doi.org/10.1007/s00208-024-02854-4</a>.","short":"D. Bonolis, T.D. Browning, Z. Huang, Mathematische Annalen 390 (2024) 4123–4207.","apa":"Bonolis, D., Browning, T. D., &#38; Huang, Z. (2024). Density of rational points on some quadric bundle threefolds. <i>Mathematische Annalen</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00208-024-02854-4\">https://doi.org/10.1007/s00208-024-02854-4</a>","ieee":"D. Bonolis, T. D. Browning, and Z. Huang, “Density of rational points on some quadric bundle threefolds,” <i>Mathematische Annalen</i>, vol. 390. Springer Nature, pp. 4123–4207, 2024.","mla":"Bonolis, Dante, et al. “Density of Rational Points on Some Quadric Bundle Threefolds.” <i>Mathematische Annalen</i>, vol. 390, Springer Nature, 2024, pp. 4123–207, doi:<a href=\"https://doi.org/10.1007/s00208-024-02854-4\">10.1007/s00208-024-02854-4</a>.","ista":"Bonolis D, Browning TD, Huang Z. 2024. Density of rational points on some quadric bundle threefolds. Mathematische Annalen. 390, 4123–4207."},"publisher":"Springer Nature","publication_identifier":{"issn":["0025-5831"],"eissn":["1432-1807"]},"article_processing_charge":"Yes (via OA deal)","doi":"10.1007/s00208-024-02854-4","publication_status":"published","ddc":["510"],"file":[{"date_created":"2025-01-09T09:08:14Z","checksum":"5dd51531deb1e4760c38c3c0c7d5aedc","access_level":"open_access","success":1,"file_size":1019116,"relation":"main_file","file_name":"2024_MathAnnalen_Bonolis.pdf","date_updated":"2025-01-09T09:08:14Z","content_type":"application/pdf","file_id":"18796","creator":"dernst"}],"page":"4123-4207","intvolume":"       390","date_created":"2024-04-21T22:00:53Z","scopus_import":"1","status":"public","publication":"Mathematische Annalen","language":[{"iso":"eng"}],"has_accepted_license":"1","corr_author":"1","file_date_updated":"2025-01-09T09:08:14Z","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","author":[{"full_name":"Bonolis, Dante","id":"6A459894-5FDD-11E9-AF35-BB24E6697425","last_name":"Bonolis","first_name":"Dante"},{"first_name":"Timothy D","orcid":"0000-0002-8314-0177","last_name":"Browning","id":"35827D50-F248-11E8-B48F-1D18A9856A87","full_name":"Browning, Timothy D"},{"id":"21f1b52f-2fd1-11eb-a347-a4cdb9b18a51","full_name":"Huang, Zhizhong","last_name":"Huang","first_name":"Zhizhong"}],"acknowledgement":"Open access funding provided by Institute of Science and Technology (IST Austria).The authors are grateful to Florian Wilsch for useful comments. While working on this paper the authors were supported by FWF grant P 32428.","type":"journal_article","oa":1,"arxiv":1,"_id":"15337","OA_place":"publisher"},{"scopus_import":"1","status":"public","date_created":"2024-04-21T22:00:53Z","language":[{"iso":"eng"}],"publication":"Journal of the Institute of Mathematics of Jussieu","has_accepted_license":"1","ddc":["510"],"file":[{"checksum":"b300541d581a71d92314df5ae8c4cc09","date_created":"2025-01-09T08:56:33Z","relation":"main_file","file_size":690974,"success":1,"access_level":"open_access","content_type":"application/pdf","file_name":"2024_JournInstMathJussieu_Browning.pdf","date_updated":"2025-01-09T08:56:33Z","creator":"dernst","file_id":"18793"}],"intvolume":"        23","page":"2859-2912","oa":1,"arxiv":1,"OA_place":"publisher","_id":"15338","issue":"6","corr_author":"1","file_date_updated":"2025-01-09T08:56:33Z","type":"journal_article","acknowledgement":"The authors are grateful to Jayce Getz for asking questions that set this project in motion and to the anonymous referee for useful comments. T.B. was supported by a FWF grant (DOI 10.55776/P32428) and by a grant from the Institute for Advanced Study School of Mathematics. L.B.P. was partially supported by NSF DMS-2200470 and DMS-1652173, and thanks the Hausdorff Centre for Mathematics for hosting research visits.","author":[{"last_name":"Browning","id":"35827D50-F248-11E8-B48F-1D18A9856A87","full_name":"Browning, Timothy D","orcid":"0000-0002-8314-0177","first_name":"Timothy D"},{"full_name":"Pierce, Lillian B.","last_name":"Pierce","first_name":"Lillian B."},{"last_name":"Schindler","full_name":"Schindler, Damaris","first_name":"Damaris"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","day":"01","oa_version":"Published Version","volume":23,"project":[{"grant_number":"P32428","name":"New frontiers of the Manin conjecture","_id":"26AEDAB2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"external_id":{"isi":["001200337400001"],"arxiv":["2212.11038"]},"quality_controlled":"1","article_type":"original","abstract":[{"text":"We introduce a new class of generalised quadratic forms over totally real number fields, which is rich enough to capture the arithmetic of arbitrary systems of quadrics over the rational numbers. We explore this connection through a version of the Hardy–Littlewood circle method over number fields.","lang":"eng"}],"OA_type":"hybrid","citation":{"ieee":"T. D. Browning, L. B. Pierce, and D. Schindler, “Generalised quadratic forms over totally real number fields,” <i>Journal of the Institute of Mathematics of Jussieu</i>, vol. 23, no. 6. Cambridge University Press, pp. 2859–2912, 2024.","mla":"Browning, Timothy D., et al. “Generalised Quadratic Forms over Totally Real Number Fields.” <i>Journal of the Institute of Mathematics of Jussieu</i>, vol. 23, no. 6, Cambridge University Press, 2024, pp. 2859–912, doi:<a href=\"https://doi.org/10.1017/S1474748024000161\">10.1017/S1474748024000161</a>.","ista":"Browning TD, Pierce LB, Schindler D. 2024. Generalised quadratic forms over totally real number fields. Journal of the Institute of Mathematics of Jussieu. 23(6), 2859–2912.","ama":"Browning TD, Pierce LB, Schindler D. Generalised quadratic forms over totally real number fields. <i>Journal of the Institute of Mathematics of Jussieu</i>. 2024;23(6):2859-2912. doi:<a href=\"https://doi.org/10.1017/S1474748024000161\">10.1017/S1474748024000161</a>","chicago":"Browning, Timothy D, Lillian B. Pierce, and Damaris Schindler. “Generalised Quadratic Forms over Totally Real Number Fields.” <i>Journal of the Institute of Mathematics of Jussieu</i>. Cambridge University Press, 2024. <a href=\"https://doi.org/10.1017/S1474748024000161\">https://doi.org/10.1017/S1474748024000161</a>.","short":"T.D. Browning, L.B. Pierce, D. Schindler, Journal of the Institute of Mathematics of Jussieu 23 (2024) 2859–2912.","apa":"Browning, T. D., Pierce, L. B., &#38; Schindler, D. (2024). Generalised quadratic forms over totally real number fields. <i>Journal of the Institute of Mathematics of Jussieu</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/S1474748024000161\">https://doi.org/10.1017/S1474748024000161</a>"},"date_published":"2024-11-01T00:00:00Z","year":"2024","doi":"10.1017/S1474748024000161","article_processing_charge":"Yes (via OA deal)","publisher":"Cambridge University Press","publication_identifier":{"issn":["1474-7480"],"eissn":["1475-3030"]},"publication_status":"published","department":[{"_id":"TiBr"}],"month":"11","date_updated":"2025-09-04T13:44:16Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"isi":1,"title":"Generalised quadratic forms over totally real number fields"},{"day":"04","oa_version":"Preprint","volume":35,"external_id":{"arxiv":["2303.01404"],"isi":["001251179200003"]},"quality_controlled":"1","project":[{"grant_number":"P35847","name":"Geometry of the tip of the global nilpotent cone","_id":"34b2c9cb-11ca-11ed-8bc3-a50ba74ca4a3"}],"article_type":"original","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2303.01404"}],"abstract":[{"lang":"eng","text":"We define even very stable Higgs bundles and study the Hitchin map restricted to their upward flows. In the GLn case, we classify the type (1,…,1) examples, and find that they are governed by a root system formed by the roots of even height. We discuss how the spectrum of equivariant cohomology of real and quaternionic Grassmannians, 4n-spheres and the real Cayley plane appear to describe the Hitchin map on even cominuscule upward flows. The even upward flows in question are the same as upward flows in Higgs bundle moduli spaces for quasi-split inner real forms. The latter spaces have been pioneered by Oscar García-Prada and his collaborators."}],"year":"2024","date_published":"2024-04-04T00:00:00Z","citation":{"ieee":"M. González and T. Hausel, “Hitchin map on even very stable upward flows,” <i>International Journal of Mathematics</i>, vol. 35, no. 09. World Scientific Publishing, 2024.","mla":"González, Miguel, and Tamás Hausel. “Hitchin Map on Even Very Stable Upward Flows.” <i>International Journal of Mathematics</i>, vol. 35, no. 09, 2441009, World Scientific Publishing, 2024, doi:<a href=\"https://doi.org/10.1142/S0129167X2441009X\">10.1142/S0129167X2441009X</a>.","ista":"González M, Hausel T. 2024. Hitchin map on even very stable upward flows. International Journal of Mathematics. 35(09), 2441009.","ama":"González M, Hausel T. Hitchin map on even very stable upward flows. <i>International Journal of Mathematics</i>. 2024;35(09). doi:<a href=\"https://doi.org/10.1142/S0129167X2441009X\">10.1142/S0129167X2441009X</a>","chicago":"González, Miguel, and Tamás Hausel. “Hitchin Map on Even Very Stable Upward Flows.” <i>International Journal of Mathematics</i>. World Scientific Publishing, 2024. <a href=\"https://doi.org/10.1142/S0129167X2441009X\">https://doi.org/10.1142/S0129167X2441009X</a>.","short":"M. González, T. Hausel, International Journal of Mathematics 35 (2024).","apa":"González, M., &#38; Hausel, T. (2024). Hitchin map on even very stable upward flows. <i>International Journal of Mathematics</i>. World Scientific Publishing. <a href=\"https://doi.org/10.1142/S0129167X2441009X\">https://doi.org/10.1142/S0129167X2441009X</a>"},"publisher":"World Scientific Publishing","article_processing_charge":"No","publication_identifier":{"issn":["0129-167X"],"eissn":["1793-6519"]},"doi":"10.1142/S0129167X2441009X","publication_status":"published","date_updated":"2025-09-04T13:40:37Z","month":"04","department":[{"_id":"TaHa"}],"article_number":"2441009","isi":1,"title":"Hitchin map on even very stable upward flows","status":"public","date_created":"2024-04-21T22:00:54Z","scopus_import":"1","publication":"International Journal of Mathematics","language":[{"iso":"eng"}],"intvolume":"        35","oa":1,"arxiv":1,"_id":"15339","issue":"09","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","acknowledgement":"Most of the research for this paper was done when the first author visited the second author's group at IST Austria as a summer intern in 2022. The second author was supported by an FWF grant \"Geometry of the top of the nilpotent cone\" number P35847.","author":[{"first_name":"Miguel","last_name":"González","full_name":"González, Miguel"},{"first_name":"Tamás","orcid":"0000-0002-9582-2634","last_name":"Hausel","full_name":"Hausel, Tamás","id":"4A0666D8-F248-11E8-B48F-1D18A9856A87"}],"type":"journal_article"},{"_id":"15348","corr_author":"1","type":"journal_article","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","acknowledgement":"This research was supported by the Korea Evaluation Institute of Industrial Technology (No. 200116167, Development of Battery Safety Diagnosis System (BDS) SoC that predicts the internal state, explosion risk, remaining useful life, and replacement timing of electric vehicle batteries).","author":[{"first_name":"Neelima","last_name":"Mahato","full_name":"Mahato, Neelima"},{"full_name":"Singh, Saurabh","id":"12d625da-9cb3-11ed-9667-af09d37d3f0a","last_name":"Singh","orcid":"0000-0003-2209-5269","first_name":"Saurabh"},{"first_name":"T. V.M.","full_name":"Sreekanth, T. V.M.","last_name":"Sreekanth"},{"first_name":"Kisoo","last_name":"Yoo","full_name":"Yoo, Kisoo"},{"first_name":"Jonghoon","full_name":"Kim, Jonghoon","last_name":"Kim"}],"status":"public","date_created":"2024-04-28T22:00:56Z","scopus_import":"1","language":[{"iso":"eng"}],"publication":"Materials Letters","intvolume":"       365","citation":{"ista":"Mahato N, Singh S, Sreekanth TVM, Yoo K, Kim J. 2024. In-situ engineered highly crystalline polythiophene empowered electrochemical capacitor-I: Synthesis, characterization, and electrochemical charge storage. Materials Letters. 365, 136483.","ieee":"N. Mahato, S. Singh, T. V. M. Sreekanth, K. Yoo, and J. Kim, “In-situ engineered highly crystalline polythiophene empowered electrochemical capacitor-I: Synthesis, characterization, and electrochemical charge storage,” <i>Materials Letters</i>, vol. 365. Elsevier, 2024.","mla":"Mahato, Neelima, et al. “In-Situ Engineered Highly Crystalline Polythiophene Empowered Electrochemical Capacitor-I: Synthesis, Characterization, and Electrochemical Charge Storage.” <i>Materials Letters</i>, vol. 365, 136483, Elsevier, 2024, doi:<a href=\"https://doi.org/10.1016/j.matlet.2024.136483\">10.1016/j.matlet.2024.136483</a>.","short":"N. Mahato, S. Singh, T.V.M. Sreekanth, K. Yoo, J. Kim, Materials Letters 365 (2024).","apa":"Mahato, N., Singh, S., Sreekanth, T. V. M., Yoo, K., &#38; Kim, J. (2024). In-situ engineered highly crystalline polythiophene empowered electrochemical capacitor-I: Synthesis, characterization, and electrochemical charge storage. <i>Materials Letters</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.matlet.2024.136483\">https://doi.org/10.1016/j.matlet.2024.136483</a>","ama":"Mahato N, Singh S, Sreekanth TVM, Yoo K, Kim J. In-situ engineered highly crystalline polythiophene empowered electrochemical capacitor-I: Synthesis, characterization, and electrochemical charge storage. <i>Materials Letters</i>. 2024;365. doi:<a href=\"https://doi.org/10.1016/j.matlet.2024.136483\">10.1016/j.matlet.2024.136483</a>","chicago":"Mahato, Neelima, Saurabh Singh, T. V.M. Sreekanth, Kisoo Yoo, and Jonghoon Kim. “In-Situ Engineered Highly Crystalline Polythiophene Empowered Electrochemical Capacitor-I: Synthesis, Characterization, and Electrochemical Charge Storage.” <i>Materials Letters</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.matlet.2024.136483\">https://doi.org/10.1016/j.matlet.2024.136483</a>."},"date_published":"2024-06-15T00:00:00Z","year":"2024","doi":"10.1016/j.matlet.2024.136483","article_processing_charge":"No","publication_identifier":{"eissn":["1873-4979"],"issn":["0167-577X"]},"publisher":"Elsevier","publication_status":"published","month":"06","department":[{"_id":"MaIb"}],"date_updated":"2025-09-04T13:49:05Z","isi":1,"article_number":"136483","title":"In-situ engineered highly crystalline polythiophene empowered electrochemical capacitor-I: Synthesis, characterization, and electrochemical charge storage","oa_version":"None","day":"15","volume":365,"external_id":{"isi":["001300025600001"]},"quality_controlled":"1","article_type":"original","abstract":[{"lang":"eng","text":"We report on synthesis of highly crystalline polythiophene and its application in supercapacitor electrodes. The material exhibits a remarkably stable electrochemical behavior and an excellent device performance. The device delivers an electrode specific capacitance (Csp) of 129.13F g−1, Cell Csp of 32.28F g−1 at 0.5 A/g; energy, and power densities of ∼ 3 Wh kg−1 and 250 W kg -1, respectively at 0.5 A/g. Also, it exhibits an excellent retention of Cell Csp and coulombic efficiency up to ∼ 95 % over 10,000 continuous galvanostatic charge discharge (GCD) cycles indicating a remarkable performance by a standalone, pristine and undoped polythiophene. Electrochemical impedance spectroscopy (EIS) studies further suggest material’s stable capacitive behavior. The material’s enhanced electrochemical properties, stable behavior and outstanding performance in device application are attributed to the crystalline phases present in the polymer matrix achievable via a slow rate of synthesis; overall, an edge over other conventional synthesis methods."}],"OA_type":"closed access"},{"file":[{"file_name":"2024_CommMathPhysics_Rouze.pdf","date_updated":"2024-05-06T06:18:45Z","content_type":"application/pdf","file_id":"15365","creator":"dernst","date_created":"2024-05-06T06:18:45Z","checksum":"8ecd168755f0d40ebd7cd0b71063acfc","access_level":"open_access","success":1,"relation":"main_file","file_size":653676}],"ddc":["510"],"intvolume":"       405","pmid":1,"date_created":"2024-04-29T08:47:28Z","scopus_import":"1","status":"public","has_accepted_license":"1","language":[{"iso":"eng"}],"publication":"Communications in Mathematical Physics","file_date_updated":"2024-05-06T06:18:45Z","issue":"4","corr_author":"1","type":"journal_article","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","author":[{"first_name":"Cambyse","full_name":"Rouzé, Cambyse","last_name":"Rouzé"},{"first_name":"Melchior","orcid":"0000-0002-0519-4241","id":"88644358-0A0E-11EA-8FA5-49A33DDC885E","full_name":"Wirth, Melchior","last_name":"Wirth"},{"last_name":"Zhang","full_name":"Zhang, Haonan","id":"D8F41E38-9E66-11E9-A9E2-65C2E5697425","first_name":"Haonan"}],"acknowledgement":"Open access funding provided by the Carolinas Consortium.\r\nH.Z. is supported by the Lise Meitner fellowship, Austrian Science Fund (FWF) M3337. H.Z. would like to thank the American Institute of Mathematics and the AIM workshop Analysis on the hypercube with applications to quantum computing. He is also grateful to the organizers and other participants for creating an active atmosphere. The research of C.R. has been supported by ANR project QTraj (ANR-20-CE40-0024-01) of the French National Research Agency (ANR). C.R. acknowledges the support of the Munich Center for Quantum Sciences and Technology, as well as the Humboldt Foundation. C.R. would like to thank Amanda Young for fruitful discussion on the applications of Friedgut’s Junta theorem to learning quantum dynamics. The research of M.W. was funded by the Austrian Science Fund (FWF) under the Esprit Programme [ESP 156]. For the purpose of Open Access, the authors have applied a CC BY public copyright licence to any Author Accepted Manuscript (AAM) version arising from this submission. The authors want to thank Francisco Escudero Gutierrez and Hsin-Yuan Huang for helpful comments on an earlier version of the paper. They are grateful to the referees for the careful reading and helpful comments.","oa":1,"_id":"15350","arxiv":1,"abstract":[{"text":"We extend three related results from the analysis of influences of Boolean functions to the quantum setting, namely the KKL theorem, Friedgut’s Junta theorem and Talagrand’s variance inequality for geometric influences. Our results are derived by a joint use of recently studied hypercontractivity and gradient estimates. These generic tools also allow us to derive generalizations of these results in a general von Neumann algebraic setting beyond the case of the quantum hypercube, including examples in infinite dimensions relevant to quantum information theory such as continuous variables quantum systems. Finally, we comment on the implications of our results as regards to noncommutative extensions of isoperimetric type inequalities, quantum circuit complexity lower bounds and the learnability of quantum observables.","lang":"eng"}],"article_type":"original","volume":405,"oa_version":"Published Version","day":"09","project":[{"name":"Curvature-dimension in noncommutative analysis","_id":"eb958bca-77a9-11ec-83b8-c565cb50d8d6","grant_number":"M03337"},{"grant_number":"ESP156_N","name":"Gradient flow techniques for quantum Markov semigroups","_id":"34c6ea2d-11ca-11ed-8bc3-c04f3c502833"}],"quality_controlled":"1","external_id":{"pmid":["38606337"],"arxiv":["2209.07279"],"isi":["001199509500004"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"department":[{"_id":"JaMa"}],"month":"04","date_updated":"2025-09-04T13:50:22Z","title":"Quantum Talagrand, KKL and Friedgut’s theorems and the learnability of quantum boolean functions","article_number":"95","isi":1,"citation":{"short":"C. Rouzé, M. Wirth, H. Zhang, Communications in Mathematical Physics 405 (2024).","apa":"Rouzé, C., Wirth, M., &#38; Zhang, H. (2024). Quantum Talagrand, KKL and Friedgut’s theorems and the learnability of quantum boolean functions. <i>Communications in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00220-024-04981-0\">https://doi.org/10.1007/s00220-024-04981-0</a>","ama":"Rouzé C, Wirth M, Zhang H. Quantum Talagrand, KKL and Friedgut’s theorems and the learnability of quantum boolean functions. <i>Communications in Mathematical Physics</i>. 2024;405(4). doi:<a href=\"https://doi.org/10.1007/s00220-024-04981-0\">10.1007/s00220-024-04981-0</a>","chicago":"Rouzé, Cambyse, Melchior Wirth, and Haonan Zhang. “Quantum Talagrand, KKL and Friedgut’s Theorems and the Learnability of Quantum Boolean Functions.” <i>Communications in Mathematical Physics</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/s00220-024-04981-0\">https://doi.org/10.1007/s00220-024-04981-0</a>.","ista":"Rouzé C, Wirth M, Zhang H. 2024. Quantum Talagrand, KKL and Friedgut’s theorems and the learnability of quantum boolean functions. Communications in Mathematical Physics. 405(4), 95.","ieee":"C. Rouzé, M. Wirth, and H. Zhang, “Quantum Talagrand, KKL and Friedgut’s theorems and the learnability of quantum boolean functions,” <i>Communications in Mathematical Physics</i>, vol. 405, no. 4. Springer Nature, 2024.","mla":"Rouzé, Cambyse, et al. “Quantum Talagrand, KKL and Friedgut’s Theorems and the Learnability of Quantum Boolean Functions.” <i>Communications in Mathematical Physics</i>, vol. 405, no. 4, 95, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1007/s00220-024-04981-0\">10.1007/s00220-024-04981-0</a>."},"year":"2024","date_published":"2024-04-09T00:00:00Z","publication_status":"published","doi":"10.1007/s00220-024-04981-0","article_processing_charge":"Yes (via OA deal)","publisher":"Springer Nature","publication_identifier":{"eissn":["1432-0916"],"issn":["0010-3616"]}},{"oa":1,"_id":"15356","type":"journal_article","author":[{"first_name":"Jinyan","last_name":"Zhao","full_name":"Zhao, Jinyan"},{"full_name":"Yao, Zihao","last_name":"Yao","first_name":"Zihao"},{"last_name":"Bunting","full_name":"Bunting, Rhys","id":"91deeae8-1207-11ec-b130-c194ad5b50c6","orcid":"0000-0001-6928-074X","first_name":"Rhys"},{"last_name":"Wang","full_name":"Wang, Yaqiu","first_name":"Yaqiu"},{"last_name":"Wang","full_name":"Wang, Jianguo","first_name":"Jianguo"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","acknowledgement":"The authors acknowledge the financial support from the National Key Research and Development Project of China (2021YFA1500900, 2022YFE0113800), the National Natural Science Foundation of China (22141001, U21A20298), Zhejiang Innovation Team (2017R5203).","date_created":"2024-05-05T22:01:02Z","scopus_import":"1","status":"public","language":[{"iso":"eng"}],"publication":"Chemical Engineering Science","intvolume":"       295","citation":{"chicago":"Zhao, Jinyan, Zihao Yao, Rhys Bunting, Yaqiu Wang, and Jianguo Wang. “Identifying Pd9OX as the Optimum Catalyst for the Direct Synthesis of H2O2 through Microkinetic Modeling with Coverage Effects.” <i>Chemical Engineering Science</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.ces.2024.120199\">https://doi.org/10.1016/j.ces.2024.120199</a>.","ama":"Zhao J, Yao Z, Bunting R, Wang Y, Wang J. Identifying Pd9OX as the optimum catalyst for the direct synthesis of H2O2 through microkinetic modeling with coverage effects. <i>Chemical Engineering Science</i>. 2024;295. doi:<a href=\"https://doi.org/10.1016/j.ces.2024.120199\">10.1016/j.ces.2024.120199</a>","apa":"Zhao, J., Yao, Z., Bunting, R., Wang, Y., &#38; Wang, J. (2024). Identifying Pd9OX as the optimum catalyst for the direct synthesis of H2O2 through microkinetic modeling with coverage effects. <i>Chemical Engineering Science</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ces.2024.120199\">https://doi.org/10.1016/j.ces.2024.120199</a>","short":"J. Zhao, Z. Yao, R. Bunting, Y. Wang, J. Wang, Chemical Engineering Science 295 (2024).","mla":"Zhao, Jinyan, et al. “Identifying Pd9OX as the Optimum Catalyst for the Direct Synthesis of H2O2 through Microkinetic Modeling with Coverage Effects.” <i>Chemical Engineering Science</i>, vol. 295, 120199, Elsevier, 2024, doi:<a href=\"https://doi.org/10.1016/j.ces.2024.120199\">10.1016/j.ces.2024.120199</a>.","ieee":"J. Zhao, Z. Yao, R. Bunting, Y. Wang, and J. Wang, “Identifying Pd9OX as the optimum catalyst for the direct synthesis of H2O2 through microkinetic modeling with coverage effects,” <i>Chemical Engineering Science</i>, vol. 295. Elsevier, 2024.","ista":"Zhao J, Yao Z, Bunting R, Wang Y, Wang J. 2024. Identifying Pd9OX as the optimum catalyst for the direct synthesis of H2O2 through microkinetic modeling with coverage effects. Chemical Engineering Science. 295, 120199."},"date_published":"2024-08-05T00:00:00Z","year":"2024","publication_status":"published","doi":"10.1016/j.ces.2024.120199","publisher":"Elsevier","publication_identifier":{"issn":["0009-2509"]},"article_processing_charge":"No","department":[{"_id":"MaIb"}],"month":"08","date_updated":"2025-09-04T13:54:17Z","title":"Identifying Pd9OX as the optimum catalyst for the direct synthesis of H2O2 through microkinetic modeling with coverage effects","article_number":"120199","isi":1,"oa_version":"None","day":"05","volume":295,"quality_controlled":"1","external_id":{"isi":["001236643300001"]},"main_file_link":[{"url":"https://doi.org/10.1016/j.ces.2024.120199","open_access":"1"}],"abstract":[{"lang":"eng","text":"Identifying efficient active sites for the direct synthesis of hydrogen peroxide over Pd-based catalysts has been a subject of considerable debate. In this study, we employ particle swarm optimization method and density functional theory to explore the H2O2 synthesis mechanism on Pd, PdO, and the partially oxidized surface (Pd9OX). A comprehensive mechanism for Pd9OX is elucidated, and subsequent coverage-dependent kinetic analysis allows for a quantitative assessment of catalytic performance at the interphase. Our findings conclusively establish that the interphase between Pd and PdO represents the optimal active site. Phase diagram analysis further aids in determining stable structures under reaction conditions. At 298.15 K and under oxygen balance, the Pd9O6 surface remains stable throughout the reaction, demonstrating high activity and selectivity. This work underscores the significance of the interphase in comprehending catalytic performance and unveils promising avenues for optimizing catalyst performance by controlling reaction conditions and surface composition."}],"article_type":"original","OA_type":"free access"},{"corr_author":"1","file_date_updated":"2024-05-13T08:22:21Z","acknowledgement":"We thank Emmanuel Schertzer and two reviewers for comments on this manuscript. NB thanks the European Research Council for support via the grant “HaplotypeStructure” 101055327. We would also like to give our sincere thanks to Alison Etheridge for her insight, inspiration and support over the years.","author":[{"orcid":"0000-0002-8548-5240","first_name":"Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H"},{"first_name":"Himani","id":"42377A0A-F248-11E8-B48F-1D18A9856A87","full_name":"Sachdeva, Himani","last_name":"Sachdeva"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","type":"journal_article","oa":1,"_id":"15358","ddc":["570"],"file":[{"creator":"dernst","file_id":"15383","file_name":"2024_TheorPopulationBiology_Barton.pdf","date_updated":"2024-05-13T08:22:21Z","content_type":"application/pdf","success":1,"access_level":"open_access","relation":"main_file","file_size":1098292,"date_created":"2024-05-13T08:22:21Z","checksum":"78f36488d24f868d5913624e9c8d88bf"}],"intvolume":"       157","pmid":1,"page":"129-137","status":"public","scopus_import":"1","date_created":"2024-05-05T22:01:03Z","publication":"Theoretical Population Biology","language":[{"iso":"eng"}],"has_accepted_license":"1","date_updated":"2025-09-04T13:56:11Z","department":[{"_id":"NiBa"}],"month":"06","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"isi":1,"title":"Limits to selection on standing variation in an asexual population","year":"2024","date_published":"2024-06-01T00:00:00Z","citation":{"apa":"Barton, N. H., &#38; Sachdeva, H. (2024). Limits to selection on standing variation in an asexual population. <i>Theoretical Population Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tpb.2024.04.001\">https://doi.org/10.1016/j.tpb.2024.04.001</a>","short":"N.H. Barton, H. Sachdeva, Theoretical Population Biology 157 (2024) 129–137.","chicago":"Barton, Nicholas H, and Himani Sachdeva. “Limits to Selection on Standing Variation in an Asexual Population.” <i>Theoretical Population Biology</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.tpb.2024.04.001\">https://doi.org/10.1016/j.tpb.2024.04.001</a>.","ama":"Barton NH, Sachdeva H. Limits to selection on standing variation in an asexual population. <i>Theoretical Population Biology</i>. 2024;157:129-137. doi:<a href=\"https://doi.org/10.1016/j.tpb.2024.04.001\">10.1016/j.tpb.2024.04.001</a>","ista":"Barton NH, Sachdeva H. 2024. Limits to selection on standing variation in an asexual population. Theoretical Population Biology. 157, 129–137.","mla":"Barton, Nicholas H., and Himani Sachdeva. “Limits to Selection on Standing Variation in an Asexual Population.” <i>Theoretical Population Biology</i>, vol. 157, Elsevier, 2024, pp. 129–37, doi:<a href=\"https://doi.org/10.1016/j.tpb.2024.04.001\">10.1016/j.tpb.2024.04.001</a>.","ieee":"N. H. Barton and H. Sachdeva, “Limits to selection on standing variation in an asexual population,” <i>Theoretical Population Biology</i>, vol. 157. Elsevier, pp. 129–137, 2024."},"article_processing_charge":"Yes (via OA deal)","publication_identifier":{"eissn":["1096-0325"],"issn":["0040-5809"]},"publisher":"Elsevier","doi":"10.1016/j.tpb.2024.04.001","publication_status":"published","article_type":"original","abstract":[{"text":"We consider how a population of N haploid individuals responds to directional selection on standing variation, with no new variation from recombination or mutation. Individuals have trait values z1,…,zN, which are drawn from a distribution ψ; the fitness of individual i is proportional to [Formula: see text] . For illustration, we consider the Laplace and Gaussian distributions, which are parametrised only by the variance V0, and show that for large N, there is a scaling limit which depends on a single parameter NV0. When selection is weak relative to drift (NV0≪1), the variance decreases exponentially at rate 1/N, and the expected ultimate gain in log fitness (scaled by V0), is just NV0, which is the same as Robertson's (1960) prediction for a sexual population. In contrast, when selection is strong relative to drift (NV0≫1), the ultimate gain can be found by approximating the establishment of alleles by a branching process in which each allele competes independently with the population mean and the fittest allele to establish is certain to fix. Then, if the probability of survival to time t∼1/V0 of an allele with value z is P(z), with mean P¯, the winning allele is the fittest of NP¯ survivors drawn from a distribution ψP/P¯. The expected ultimate change is ∼2log(1.15NV0) for a Gaussian distribution, and ∼-12log0.36NV0-log-log0.36NV0 for a Laplace distribution. This approach also predicts the variability of the process, and its dynamics; we show that in the strong selection regime, the expected genetic variance decreases as ∼t-3 at large times. We discuss how these results may be related to selection on standing variation that is spread along a linear chromosome.","lang":"eng"}],"day":"01","oa_version":"Published Version","volume":157,"external_id":{"isi":["001237016800001"],"pmid":["38643838"]},"quality_controlled":"1","project":[{"grant_number":"101055327","_id":"bd6958e0-d553-11ed-ba76-86eba6a76c00","name":"Understanding the evolution of continuous genomes"}]},{"citation":{"ista":"Dong H, Shi Y, Ying P, Xu K, Liang T, Wang Y, Zeng Z, Wu X, Zhou W, Xiong S, Chen S, Fan Z. 2024. Molecular dynamics simulations of heat transport using machine-learned potentials: A mini-review and tutorial on GPUMD with neuroevolution potentials. Journal of Applied Physics. 135(16), 161101.","mla":"Dong, Haikuan, et al. “Molecular Dynamics Simulations of Heat Transport Using Machine-Learned Potentials: A Mini-Review and Tutorial on GPUMD with Neuroevolution Potentials.” <i>Journal of Applied Physics</i>, vol. 135, no. 16, 161101, AIP Publishing, 2024, doi:<a href=\"https://doi.org/10.1063/5.0200833\">10.1063/5.0200833</a>.","ieee":"H. Dong <i>et al.</i>, “Molecular dynamics simulations of heat transport using machine-learned potentials: A mini-review and tutorial on GPUMD with neuroevolution potentials,” <i>Journal of Applied Physics</i>, vol. 135, no. 16. AIP Publishing, 2024.","apa":"Dong, H., Shi, Y., Ying, P., Xu, K., Liang, T., Wang, Y., … Fan, Z. (2024). Molecular dynamics simulations of heat transport using machine-learned potentials: A mini-review and tutorial on GPUMD with neuroevolution potentials. <i>Journal of Applied Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0200833\">https://doi.org/10.1063/5.0200833</a>","short":"H. Dong, Y. Shi, P. Ying, K. Xu, T. Liang, Y. Wang, Z. Zeng, X. Wu, W. Zhou, S. Xiong, S. Chen, Z. Fan, Journal of Applied Physics 135 (2024).","chicago":"Dong, Haikuan, Yongbo Shi, Penghua Ying, Ke Xu, Ting Liang, Yanzhou Wang, Zezhu Zeng, et al. “Molecular Dynamics Simulations of Heat Transport Using Machine-Learned Potentials: A Mini-Review and Tutorial on GPUMD with Neuroevolution Potentials.” <i>Journal of Applied Physics</i>. AIP Publishing, 2024. <a href=\"https://doi.org/10.1063/5.0200833\">https://doi.org/10.1063/5.0200833</a>.","ama":"Dong H, Shi Y, Ying P, et al. Molecular dynamics simulations of heat transport using machine-learned potentials: A mini-review and tutorial on GPUMD with neuroevolution potentials. <i>Journal of Applied Physics</i>. 2024;135(16). doi:<a href=\"https://doi.org/10.1063/5.0200833\">10.1063/5.0200833</a>"},"year":"2024","date_published":"2024-04-28T00:00:00Z","publication_status":"published","doi":"10.1063/5.0200833","article_processing_charge":"Yes (in subscription journal)","publisher":"AIP Publishing","publication_identifier":{"issn":["0021-8979"],"eissn":["1089-7550"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"department":[{"_id":"BiCh"}],"month":"04","date_updated":"2025-09-04T13:55:06Z","title":"Molecular dynamics simulations of heat transport using machine-learned potentials: A mini-review and tutorial on GPUMD with neuroevolution potentials","isi":1,"article_number":"161101","day":"28","oa_version":"Preprint","volume":135,"ec_funded":1,"project":[{"grant_number":"101034413","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","call_identifier":"H2020","name":"IST-BRIDGE: International postdoctoral program"}],"quality_controlled":"1","external_id":{"isi":["001215967400009"],"arxiv":["2401.16249"]},"abstract":[{"text":"Molecular dynamics (MD) simulations play an important role in understanding and engineering heat transport properties of complex materials. An essential requirement for reliably predicting heat transport properties is the use of accurate and efficient interatomic potentials. Recently, machine-learned potentials (MLPs) have shown great promise in providing the required accuracy for a broad range of materials. In this mini-review and tutorial, we delve into the fundamentals of heat transport, explore pertinent MD simulation methods, and survey the applications of MLPs in MD simulations of heat transport. Furthermore, we provide a step-by-step tutorial on developing MLPs for highly efficient and predictive heat transport simulations, utilizing the neuroevolution potentials as implemented in the GPUMD package. Our aim with this mini-review and tutorial is to empower researchers with valuable insights into cutting-edge methodologies that can significantly enhance the accuracy and efficiency of MD simulations for heat transport studies.","lang":"eng"}],"article_type":"review","related_material":{"link":[{"relation":"software","url":"https://gitlab.com/brucefan1983/nep-data"}]},"oa":1,"_id":"15359","arxiv":1,"file_date_updated":"2024-05-13T08:07:44Z","issue":"16","type":"journal_article","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","acknowledgement":"H.D. is supported by the Science Foundation from the Education Department of Liaoning Province (No. JYTMS20231613) and the Doctoral start-up Fund of Bohai University (No. 0523bs008). P.Y. is supported by the Israel Academy of Sciences and Humanities & Council for Higher Education Excellence Fellowship Program for International Postdoctoral Researchers. K.X. and T.L. acknowledge support from the National Key R&D Project from Ministry of Science and Technology of China (No. 2022YFA1203100), the Research Grants Council of Hong Kong (No. AoE/P-701/20), and RGC GRF (No. 14220022). Z.Z. acknowledges the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101034413. S.X. acknowledges financial support from the National Natural Science Foundation of China (NNSFC) (Grant No. 12174276).","author":[{"full_name":"Dong, Haikuan","last_name":"Dong","first_name":"Haikuan"},{"first_name":"Yongbo","full_name":"Shi, Yongbo","last_name":"Shi"},{"first_name":"Penghua","full_name":"Ying, Penghua","last_name":"Ying"},{"first_name":"Ke","last_name":"Xu","full_name":"Xu, Ke"},{"last_name":"Liang","full_name":"Liang, Ting","first_name":"Ting"},{"full_name":"Wang, Yanzhou","last_name":"Wang","first_name":"Yanzhou"},{"first_name":"Zezhu","last_name":"Zeng","full_name":"Zeng, Zezhu","id":"54a2c730-803f-11ed-ab7e-95b29d2680e7"},{"first_name":"Xin","full_name":"Wu, Xin","last_name":"Wu"},{"first_name":"Wenjiang","full_name":"Zhou, Wenjiang","last_name":"Zhou"},{"first_name":"Shiyun","last_name":"Xiong","full_name":"Xiong, Shiyun"},{"full_name":"Chen, Shunda","last_name":"Chen","first_name":"Shunda"},{"full_name":"Fan, Zheyong","last_name":"Fan","first_name":"Zheyong"}],"scopus_import":"1","date_created":"2024-05-05T22:01:03Z","status":"public","has_accepted_license":"1","language":[{"iso":"eng"}],"publication":"Journal of Applied Physics","file":[{"checksum":"4d6abb3ebe058ce8eebf4fc7e9cdda0d","date_created":"2024-05-13T08:07:44Z","file_size":3240613,"relation":"main_file","success":1,"access_level":"open_access","content_type":"application/pdf","date_updated":"2024-05-13T08:07:44Z","file_name":"2024_JourApplPhysics_Dong.pdf","creator":"dernst","file_id":"15382"}],"ddc":["530"],"intvolume":"       135"},{"oa_version":"Preprint","day":"26","volume":21,"external_id":{"arxiv":["2310.18126"],"isi":["001226579400001"]},"quality_controlled":"1","abstract":[{"lang":"eng","text":"We investigate superradiant enhancements in the refrigeration performance of a set of N three-level systems that are collectively coupled to a hot and a cold thermal reservoir and are additionally subject to collective periodic (circular) driving. Assuming the system-reservoir coupling to be weak, we explore the regime of stronger periodic driving strengths by comparing collective weak driving, Floquet-Lindblad, and Floquet-Redfield master equations. We identify regimes where the power injected by the periodic driving is used to pump heat from the cold to the hot reservoir and derive analytic sufficient conditions for them based on a cycle analysis of the Floquet-Lindblad master equation. In those regimes, we also argue for which parameters collective enhancements like a quadratic scaling of the cooling current with N can be expected and support our arguments by numerical simulations."}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2310.18126"}],"article_type":"original","date_published":"2024-04-26T00:00:00Z","year":"2024","citation":{"short":"D. Kolisnyk, F. Queißer, G. Schaller, R. Schützhold, Physical Review Applied 21 (2024).","apa":"Kolisnyk, D., Queißer, F., Schaller, G., &#38; Schützhold, R. (2024). Floquet analysis of a superradiant many-qutrit refrigerator. <i>Physical Review Applied</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevApplied.21.044050\">https://doi.org/10.1103/PhysRevApplied.21.044050</a>","ama":"Kolisnyk D, Queißer F, Schaller G, Schützhold R. Floquet analysis of a superradiant many-qutrit refrigerator. <i>Physical Review Applied</i>. 2024;21(4). doi:<a href=\"https://doi.org/10.1103/PhysRevApplied.21.044050\">10.1103/PhysRevApplied.21.044050</a>","chicago":"Kolisnyk, Dmytro, Friedemann Queißer, Gernot Schaller, and Ralf Schützhold. “Floquet Analysis of a Superradiant Many-Qutrit Refrigerator.” <i>Physical Review Applied</i>. American Physical Society, 2024. <a href=\"https://doi.org/10.1103/PhysRevApplied.21.044050\">https://doi.org/10.1103/PhysRevApplied.21.044050</a>.","ista":"Kolisnyk D, Queißer F, Schaller G, Schützhold R. 2024. Floquet analysis of a superradiant many-qutrit refrigerator. Physical Review Applied. 21(4), 044050.","ieee":"D. Kolisnyk, F. Queißer, G. Schaller, and R. Schützhold, “Floquet analysis of a superradiant many-qutrit refrigerator,” <i>Physical Review Applied</i>, vol. 21, no. 4. American Physical Society, 2024.","mla":"Kolisnyk, Dmytro, et al. “Floquet Analysis of a Superradiant Many-Qutrit Refrigerator.” <i>Physical Review Applied</i>, vol. 21, no. 4, 044050, American Physical Society, 2024, doi:<a href=\"https://doi.org/10.1103/PhysRevApplied.21.044050\">10.1103/PhysRevApplied.21.044050</a>."},"publication_status":"published","article_processing_charge":"No","publication_identifier":{"eissn":["2331-7019"]},"publisher":"American Physical Society","doi":"10.1103/PhysRevApplied.21.044050","date_updated":"2025-09-04T13:51:06Z","department":[{"_id":"GradSch"}],"month":"04","title":"Floquet analysis of a superradiant many-qutrit refrigerator","isi":1,"article_number":"044050","status":"public","scopus_import":"1","date_created":"2024-05-05T22:01:04Z","publication":"Physical Review Applied","language":[{"iso":"eng"}],"intvolume":"        21","oa":1,"_id":"15360","arxiv":1,"issue":"4","author":[{"first_name":"Dmytro","last_name":"Kolisnyk","id":"530a7320-5355-11ee-ae5a-82a46997aaa7","full_name":"Kolisnyk, Dmytro"},{"first_name":"Friedemann","full_name":"Queißer, Friedemann","last_name":"Queißer"},{"last_name":"Schaller","full_name":"Schaller, Gernot","first_name":"Gernot"},{"last_name":"Schützhold","full_name":"Schützhold, Ralf","first_name":"Ralf"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","acknowledgement":"Financial support by the DFG (project ID 278162697 – SFB 1242) is gratefully acknowledged.\r\n","type":"journal_article"},{"abstract":[{"lang":"eng","text":"Bimolecular fluorescence complementation (BiFC) is a powerful tool for studying protein-protein interactions in living cells. By fusing interacting proteins to fluorescent protein fragments, BiFC allows visualization of spatial localization patterns of protein complexes. This method has been adapted to a variety of expression systems in different organisms and is widely used to study protein interactions in plant cells. The Agrobacterium-mediated transient expression protocol for BiFC assays in Nicotiana benthamiana (N. benthamiana) leaf cells is widely used, but in this chapter, a method for BiFC assay using Arabidopsis thaliana protoplasts is presented."}],"quality_controlled":"1","external_id":{"pmid":["38656499"]},"alternative_title":["Methods in Molecular Biology"],"oa_version":"None","volume":2787,"day":"25","title":"Protein-Protein Interactions Visualized by Bimolecular Fluorescence Complementation in Arabidopsis thaliana Protoplasts from Leaf","date_updated":"2024-05-06T06:39:10Z","month":"04","department":[{"_id":"JiFr"}],"publication_status":"published","publisher":"Springer Nature","article_processing_charge":"No","publication_identifier":{"eissn":["1940-6029"],"isbn":["9781071637777"]},"doi":"10.1007/978-1-0716-3778-4_21","year":"2024","date_published":"2024-04-25T00:00:00Z","citation":{"apa":"Jayasree, A., Salava, H., Nodzynski, T., &#38; Sravankumar, T. (2024). Protein-Protein Interactions Visualized by Bimolecular Fluorescence Complementation in Arabidopsis thaliana Protoplasts from Leaf. In F. Maghuly (Ed.), <i>Plant Functional Genomics</i> (Vol. 2787, pp. 305–313). Springer Nature. <a href=\"https://doi.org/10.1007/978-1-0716-3778-4_21\">https://doi.org/10.1007/978-1-0716-3778-4_21</a>","short":"A. Jayasree, H. Salava, T. Nodzynski, T. Sravankumar, in:, F. Maghuly (Ed.), Plant Functional Genomics, Springer Nature, 2024, pp. 305–313.","chicago":"Jayasree, Aswathy, Hymavathi Salava, Tomasz Nodzynski, and Thula Sravankumar. “Protein-Protein Interactions Visualized by Bimolecular Fluorescence Complementation in Arabidopsis Thaliana Protoplasts from Leaf.” In <i>Plant Functional Genomics</i>, edited by Fatemeh Maghuly, 2787:305–13. MIMB. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/978-1-0716-3778-4_21\">https://doi.org/10.1007/978-1-0716-3778-4_21</a>.","ama":"Jayasree A, Salava H, Nodzynski T, Sravankumar T. Protein-Protein Interactions Visualized by Bimolecular Fluorescence Complementation in Arabidopsis thaliana Protoplasts from Leaf. In: Maghuly F, ed. <i>Plant Functional Genomics</i>. Vol 2787. MIMB. Springer Nature; 2024:305-313. doi:<a href=\"https://doi.org/10.1007/978-1-0716-3778-4_21\">10.1007/978-1-0716-3778-4_21</a>","ista":"Jayasree A, Salava H, Nodzynski T, Sravankumar T. 2024.Protein-Protein Interactions Visualized by Bimolecular Fluorescence Complementation in Arabidopsis thaliana Protoplasts from Leaf. In: Plant Functional Genomics. Methods in Molecular Biology, vol. 2787, 305–313.","mla":"Jayasree, Aswathy, et al. “Protein-Protein Interactions Visualized by Bimolecular Fluorescence Complementation in Arabidopsis Thaliana Protoplasts from Leaf.” <i>Plant Functional Genomics</i>, edited by Fatemeh Maghuly, vol. 2787, Springer Nature, 2024, pp. 305–13, doi:<a href=\"https://doi.org/10.1007/978-1-0716-3778-4_21\">10.1007/978-1-0716-3778-4_21</a>.","ieee":"A. Jayasree, H. Salava, T. Nodzynski, and T. Sravankumar, “Protein-Protein Interactions Visualized by Bimolecular Fluorescence Complementation in Arabidopsis thaliana Protoplasts from Leaf,” in <i>Plant Functional Genomics</i>, vol. 2787, F. Maghuly, Ed. Springer Nature, 2024, pp. 305–313."},"page":"305-313","intvolume":"      2787","pmid":1,"series_title":"MIMB","publication":"Plant Functional Genomics","language":[{"iso":"eng"}],"scopus_import":"1","date_created":"2024-05-05T22:01:04Z","status":"public","author":[{"last_name":"Jayasree","full_name":"Jayasree, Aswathy","first_name":"Aswathy"},{"first_name":"Hymavathi","last_name":"Salava","full_name":"Salava, Hymavathi"},{"full_name":"Nodzynski, Tomasz","last_name":"Nodzynski","first_name":"Tomasz"},{"orcid":"0000-0001-6925-6950","first_name":"Thula","last_name":"Sravankumar","full_name":"Sravankumar, Thula","id":"055b7938-0b72-11ef-94eb-d14136011bb5"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"Special thanks to Dr. Marta Zwiewka for the support. Thanks to the Czech Science Foundation GA 20-20860Y for financial aid and support of A.S.S., respectively. Thanks go to Core Facility Cellular Imaging (CELLIM), and Plant Sciences Core Facility of CEITEC Masaryk University is acknowledged for the technical support.","type":"book_chapter","_id":"15361","editor":[{"first_name":"Fatemeh","full_name":"Maghuly, Fatemeh","last_name":"Maghuly"}]},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_updated":"2025-09-04T13:53:20Z","month":"05","department":[{"_id":"MaSe"},{"_id":"AnHi"}],"title":"Proximity-induced gapless superconductivity in two-dimensional Rashba semiconductor in magnetic field","article_number":"115","isi":1,"date_published":"2024-05-01T00:00:00Z","year":"2024","citation":{"ieee":"S. Babkin, A. P. Higginbotham, and M. Serbyn, “Proximity-induced gapless superconductivity in two-dimensional Rashba semiconductor in magnetic field,” <i>SciPost Physics</i>, vol. 16, no. 5. SciPost Foundation, 2024.","mla":"Babkin, Serafim, et al. “Proximity-Induced Gapless Superconductivity in Two-Dimensional Rashba Semiconductor in Magnetic Field.” <i>SciPost Physics</i>, vol. 16, no. 5, 115, SciPost Foundation, 2024, doi:<a href=\"https://doi.org/10.21468/scipostphys.16.5.115\">10.21468/scipostphys.16.5.115</a>.","ista":"Babkin S, Higginbotham AP, Serbyn M. 2024. Proximity-induced gapless superconductivity in two-dimensional Rashba semiconductor in magnetic field. SciPost Physics. 16(5), 115.","ama":"Babkin S, Higginbotham AP, Serbyn M. Proximity-induced gapless superconductivity in two-dimensional Rashba semiconductor in magnetic field. <i>SciPost Physics</i>. 2024;16(5). doi:<a href=\"https://doi.org/10.21468/scipostphys.16.5.115\">10.21468/scipostphys.16.5.115</a>","chicago":"Babkin, Serafim, Andrew P Higginbotham, and Maksym Serbyn. “Proximity-Induced Gapless Superconductivity in Two-Dimensional Rashba Semiconductor in Magnetic Field.” <i>SciPost Physics</i>. SciPost Foundation, 2024. <a href=\"https://doi.org/10.21468/scipostphys.16.5.115\">https://doi.org/10.21468/scipostphys.16.5.115</a>.","short":"S. Babkin, A.P. Higginbotham, M. Serbyn, SciPost Physics 16 (2024).","apa":"Babkin, S., Higginbotham, A. P., &#38; Serbyn, M. (2024). Proximity-induced gapless superconductivity in two-dimensional Rashba semiconductor in magnetic field. <i>SciPost Physics</i>. SciPost Foundation. <a href=\"https://doi.org/10.21468/scipostphys.16.5.115\">https://doi.org/10.21468/scipostphys.16.5.115</a>"},"publication_status":"published","publisher":"SciPost Foundation","article_processing_charge":"Yes","publication_identifier":{"issn":["2542-4653"]},"doi":"10.21468/scipostphys.16.5.115","abstract":[{"lang":"eng","text":"Two-dimensional semiconductor-superconductor heterostructures form the foundation of numerous nanoscale physical systems. However, measuring the properties of such heterostructures, and characterizing the semiconductor in-situ is challenging. A recent experimental study by [Phys. Rev. Lett. 128, 107701 (2022)] was able to probe the semiconductor within the heterostructure using microwave measurements of the superfluid density. This work revealed a rapid depletion of superfluid density in semiconductor, caused by the in-plane magnetic field which in presence of spin-orbit coupling creates so-called Bogoliubov Fermi surfaces. The experimental work used a simplified theoretical model that neglected the presence of non-magnetic disorder in the semiconductor, hence describing the data only qualitatively. Motivated by experiments, we introduce a theoretical model describing a disordered semiconductor with strong spin-orbit coupling that is proximitized by a superconductor. Our model provides specific predictions for the density of states and superfluid density. Presence of disorder leads to the emergence of a gapless superconducting phase, that may be viewed as a manifestation of Bogoliubov Fermi surface. When applied to real experimental data, our model showcases excellent quantitative agreement, enabling the extraction of material parameters such as mean free path and mobility, and estimating g-tensor after taking into account the orbital contribution of magnetic field. Our model can be used to probe in-situ parameters of other superconductor-semiconductor heterostructures and can be further extended to give access to transport properties."}],"article_type":"original","volume":16,"day":"01","oa_version":"Published Version","external_id":{"arxiv":["2311.09347"],"isi":["001215855200002"]},"quality_controlled":"1","project":[{"name":"Protected states of quantum matter","_id":"eb9b30ac-77a9-11ec-83b8-871f581d53d2"},{"grant_number":"F8609","_id":"34a7f947-11ca-11ed-8bc3-c5dc2bbaae25","name":"Center for Correlated Quantum Materials and Solid State Quantum Systems:  Probing topology in circuits and quantum materials"}],"file_date_updated":"2024-05-07T12:58:47Z","corr_author":"1","issue":"5","author":[{"id":"41e64307-6672-11ee-b9ad-cc7a0075a479","full_name":"Babkin, Serafim","last_name":"Babkin","first_name":"Serafim","orcid":"0009-0003-7382-8036"},{"id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","full_name":"Higginbotham, Andrew P","last_name":"Higginbotham","orcid":"0000-0003-2607-2363","first_name":"Andrew P"},{"first_name":"Maksym","orcid":"0000-0002-2399-5827","last_name":"Serbyn","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","full_name":"Serbyn, Maksym"}],"acknowledgement":"We acknowledge useful discussions with M. Geier, A. Levchenko, B. Ramshaw, T. Scaffidi, and\r\nJ. Shabani. This research was funded by the Austrian Science Fund (FWF) F 86.\r\nFor the purpose of open access, authors have applied a CC BY public copyright licence to any\r\nAuthor Accepted Manuscript version arising from this submission. MS acknowledges hospitality of KITP supported in part by the National Science Foundation under Grants No. NSF\r\nPHY-1748958 and PHY-2309135. APH acknowledges the support of the NOMIS foundation.","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","type":"journal_article","oa":1,"_id":"15367","arxiv":1,"file":[{"content_type":"application/pdf","file_name":"2024_SciPostPhys_Babkin.pdf","date_updated":"2024-05-07T12:58:47Z","creator":"dernst","file_id":"15369","checksum":"f999204856417dcf5a736ac8df432b96","date_created":"2024-05-07T12:58:47Z","file_size":2733685,"relation":"main_file","access_level":"open_access","success":1}],"ddc":["530"],"intvolume":"        16","scopus_import":"1","date_created":"2024-05-06T09:02:18Z","status":"public","has_accepted_license":"1","publication":"SciPost Physics","language":[{"iso":"eng"}]},{"abstract":[{"text":"CRISPR-Cas9 is a powerful tool for genome editing, but the strict requirement for an NGG protospacer-adjacent motif (PAM) sequence immediately next to the DNA target limits the number of editable genes. Recently developed Cas9 variants have been engineered with relaxed PAM requirements, including SpG-Cas9 (SpG) and the nearly PAM-less SpRY-Cas9 (SpRY). However, the molecular mechanisms of how SpRY recognizes all potential PAM sequences remains unclear. Here, we combine structural and biochemical approaches to determine how SpRY interrogates DNA and recognizes target sites. Divergent PAM sequences can be accommodated through conformational flexibility within the PAM-interacting region, which facilitates tight binding to off-target DNA sequences. Nuclease activation occurs ~1000-fold slower than for Streptococcus pyogenes Cas9, enabling us to directly visualize multiple on-pathway intermediate states. Experiments with SpG position it as an intermediate enzyme between Cas9 and SpRY. Our findings shed light on the molecular mechanisms of PAMless genome editing.","lang":"eng"}],"article_type":"original","volume":15,"day":"30","oa_version":"Published Version","quality_controlled":"1","external_id":{"pmid":["38688943"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_updated":"2025-05-14T09:33:21Z","month":"04","department":[{"_id":"JaBr"}],"title":"Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9","article_number":"3663","date_published":"2024-04-30T00:00:00Z","year":"2024","citation":{"ieee":"G. N. Hibshman <i>et al.</i>, “Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9,” <i>Nature Communications</i>, vol. 15. Springer Nature, 2024.","mla":"Hibshman, Grace N., et al. “Unraveling the Mechanisms of PAMless DNA Interrogation by SpRY-Cas9.” <i>Nature Communications</i>, vol. 15, 3663, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1038/s41467-024-47830-3\">10.1038/s41467-024-47830-3</a>.","ista":"Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW. 2024. Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9. Nature Communications. 15, 3663.","ama":"Hibshman GN, Bravo JPK, Hooper MM, et al. Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9. <i>Nature Communications</i>. 2024;15. doi:<a href=\"https://doi.org/10.1038/s41467-024-47830-3\">10.1038/s41467-024-47830-3</a>","chicago":"Hibshman, Grace N., Jack Peter Kelly Bravo, Matthew M. Hooper, Tyler L. Dangerfield, Hongshan Zhang, Ilya J. Finkelstein, Kenneth A. Johnson, and David W. Taylor. “Unraveling the Mechanisms of PAMless DNA Interrogation by SpRY-Cas9.” <i>Nature Communications</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41467-024-47830-3\">https://doi.org/10.1038/s41467-024-47830-3</a>.","short":"G.N. Hibshman, J.P.K. Bravo, M.M. Hooper, T.L. Dangerfield, H. Zhang, I.J. Finkelstein, K.A. Johnson, D.W. Taylor, Nature Communications 15 (2024).","apa":"Hibshman, G. N., Bravo, J. P. K., Hooper, M. M., Dangerfield, T. L., Zhang, H., Finkelstein, I. J., … Taylor, D. W. (2024). Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-024-47830-3\">https://doi.org/10.1038/s41467-024-47830-3</a>"},"publication_status":"published","publisher":"Springer Nature","publication_identifier":{"eissn":["2041-1723"]},"article_processing_charge":"Yes","doi":"10.1038/s41467-024-47830-3","file":[{"creator":"dernst","file_id":"15386","content_type":"application/pdf","file_name":"2024_NatureComm_Hibshman.pdf","date_updated":"2024-05-13T11:46:19Z","file_size":7477013,"relation":"main_file","access_level":"open_access","success":1,"checksum":"509c65919067a03ef8ad65c7192cd860","date_created":"2024-05-13T11:46:19Z"}],"ddc":["570"],"intvolume":"        15","pmid":1,"status":"public","scopus_import":"1","date_created":"2024-05-12T22:01:00Z","has_accepted_license":"1","publication":"Nature Communications","language":[{"iso":"eng"}],"file_date_updated":"2024-05-13T11:46:19Z","corr_author":"1","acknowledgement":"We thank I. Stohkendl in the Taylor group for insightful discussions. This work was supported in part by Welch Foundation grants F-1808 (to I.J.F.), and F-1938 (to D.W.T.), the National Institutes of Health R01GM124141 (to I.J.F.), R01AI110577 (to K.A.J.), and R35GM138348 (to D.W.T.), and a Robert J. Kleberg, Jr. and Helen C. Kleberg Foundation Medical Research Grant (to D.W.T.). The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.","author":[{"first_name":"Grace N.","full_name":"Hibshman, Grace N.","last_name":"Hibshman"},{"orcid":"0000-0003-0456-0753","first_name":"Jack Peter Kelly","last_name":"Bravo","id":"96aecfa5-8931-11ee-af30-aa6a5d6eee0e","full_name":"Bravo, Jack Peter Kelly"},{"first_name":"Matthew M.","full_name":"Hooper, Matthew M.","last_name":"Hooper"},{"first_name":"Tyler L.","last_name":"Dangerfield","full_name":"Dangerfield, Tyler L."},{"full_name":"Zhang, Hongshan","last_name":"Zhang","first_name":"Hongshan"},{"last_name":"Finkelstein","full_name":"Finkelstein, Ilya J.","first_name":"Ilya J."},{"first_name":"Kenneth A.","last_name":"Johnson","full_name":"Johnson, Kenneth A."},{"last_name":"Taylor","full_name":"Taylor, David W.","first_name":"David W."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","oa":1,"_id":"15372","DOAJ_listed":"1"},{"external_id":{"isi":["001237916800001"]},"quality_controlled":"1","volume":287,"day":"01","oa_version":"Published Version","OA_type":"hybrid","abstract":[{"text":"In this article we prove a refined version of the Christensen–Evans theorem for generators of uniformly continuous GNS-symmetric quantum Markov semigroups. We use this result to show the existence of GNS-symmetric extensions of GNS-symmetric quantum Markov semigroups. In particular, this implies that the generators of GNS-symmetric quantum Markov semigroups on finite-dimensional von Neumann algebra can be written in the form specified by Alicki's theorem.","lang":"eng"}],"article_type":"original","publication_status":"published","doi":"10.1016/j.jfa.2024.110475","publication_identifier":{"eissn":["1096-0783"],"issn":["0022-1236"]},"publisher":"Elsevier","article_processing_charge":"Yes (via OA deal)","citation":{"ieee":"M. Wirth, “Christensen–Evans theorem and extensions of GNS-symmetric quantum Markov semigroups,” <i>Journal of Functional Analysis</i>, vol. 287, no. 3. Elsevier, 2024.","mla":"Wirth, Melchior. “Christensen–Evans Theorem and Extensions of GNS-Symmetric Quantum Markov Semigroups.” <i>Journal of Functional Analysis</i>, vol. 287, no. 3, 110475, Elsevier, 2024, doi:<a href=\"https://doi.org/10.1016/j.jfa.2024.110475\">10.1016/j.jfa.2024.110475</a>.","ista":"Wirth M. 2024. Christensen–Evans theorem and extensions of GNS-symmetric quantum Markov semigroups. Journal of Functional Analysis. 287(3), 110475.","ama":"Wirth M. Christensen–Evans theorem and extensions of GNS-symmetric quantum Markov semigroups. <i>Journal of Functional Analysis</i>. 2024;287(3). doi:<a href=\"https://doi.org/10.1016/j.jfa.2024.110475\">10.1016/j.jfa.2024.110475</a>","chicago":"Wirth, Melchior. “Christensen–Evans Theorem and Extensions of GNS-Symmetric Quantum Markov Semigroups.” <i>Journal of Functional Analysis</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.jfa.2024.110475\">https://doi.org/10.1016/j.jfa.2024.110475</a>.","short":"M. Wirth, Journal of Functional Analysis 287 (2024).","apa":"Wirth, M. (2024). Christensen–Evans theorem and extensions of GNS-symmetric quantum Markov semigroups. <i>Journal of Functional Analysis</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jfa.2024.110475\">https://doi.org/10.1016/j.jfa.2024.110475</a>"},"year":"2024","date_published":"2024-08-01T00:00:00Z","title":"Christensen–Evans theorem and extensions of GNS-symmetric quantum Markov semigroups","article_number":"110475","isi":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"department":[{"_id":"JaMa"}],"month":"08","date_updated":"2025-09-08T07:24:07Z","has_accepted_license":"1","language":[{"iso":"eng"}],"publication":"Journal of Functional Analysis","scopus_import":"1","date_created":"2024-05-12T22:01:01Z","status":"public","intvolume":"       287","file":[{"date_updated":"2025-01-09T09:33:56Z","file_name":"2024_JourFunctAnalysis_Wirth.pdf","content_type":"application/pdf","file_id":"18802","creator":"dernst","date_created":"2025-01-09T09:33:56Z","checksum":"657c9f77dd30bb31ce43a591f58126a2","access_level":"open_access","success":1,"file_size":503148,"relation":"main_file"}],"ddc":["510"],"OA_place":"publisher","_id":"15373","oa":1,"type":"journal_article","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","author":[{"first_name":"Melchior","orcid":"0000-0002-0519-4241","id":"88644358-0A0E-11EA-8FA5-49A33DDC885E","full_name":"Wirth, Melchior","last_name":"Wirth"}],"file_date_updated":"2025-01-09T09:33:56Z","issue":"3","corr_author":"1"},{"file_date_updated":"2024-05-13T12:11:22Z","issue":"5","corr_author":"1","type":"journal_article","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","author":[{"last_name":"Adamowski","full_name":"Adamowski, Maciek","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6463-5257","first_name":"Maciek"},{"first_name":"Marek","id":"6ac4636d-15b2-11ec-abd3-fb8df79972ae","full_name":"Randuch, Marek","last_name":"Randuch"},{"id":"83c17ce3-15b2-11ec-abd3-f486545870bd","full_name":"Matijevic, Ivana","last_name":"Matijevic","first_name":"Ivana"},{"full_name":"Narasimhan, Madhumitha","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","last_name":"Narasimhan","orcid":"0000-0002-8600-0671","first_name":"Madhumitha"},{"orcid":"0000-0002-8302-7596","first_name":"Jiří","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml"}],"acknowledgement":"The authors wish to acknowledge Dr. Daniel van Damme for mRuby3/pDONRP2rP3 and Prof. Qi-Jun Chen for sharing plasmids used for CRISPR-Cas9 mutagenesis. This work was supported by the Austrian Science Fund (FWF): I 3630-B25.","oa":1,"_id":"15374","file":[{"content_type":"application/pdf","date_updated":"2024-05-13T12:11:22Z","file_name":"2024_CellReports_Adamowski.pdf","file_id":"15387","creator":"dernst","checksum":"a06bb85be4fc765c51554d27ee2da802","date_created":"2024-05-13T12:11:22Z","relation":"main_file","file_size":5698598,"success":1,"access_level":"open_access"}],"ddc":["580"],"intvolume":"        43","pmid":1,"date_created":"2024-05-12T22:01:01Z","status":"public","scopus_import":"1","has_accepted_license":"1","language":[{"iso":"eng"}],"publication":"Cell Reports","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"department":[{"_id":"JiFr"},{"_id":"MaLo"}],"month":"05","date_updated":"2025-09-08T07:23:07Z","title":"SH3Ps recruit auxilin-like vesicle uncoating factors for clathrin-mediated endocytosis","isi":1,"article_number":"114195","citation":{"apa":"Adamowski, M., Randuch, M., Matijevic, I., Narasimhan, M., &#38; Friml, J. (2024). SH3Ps recruit auxilin-like vesicle uncoating factors for clathrin-mediated endocytosis. <i>Cell Reports</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.celrep.2024.114195\">https://doi.org/10.1016/j.celrep.2024.114195</a>","short":"M. Adamowski, M. Randuch, I. Matijevic, M. Narasimhan, J. Friml, Cell Reports 43 (2024).","chicago":"Adamowski, Maciek, Marek Randuch, Ivana Matijevic, Madhumitha Narasimhan, and Jiří Friml. “SH3Ps Recruit Auxilin-like Vesicle Uncoating Factors for Clathrin-Mediated Endocytosis.” <i>Cell Reports</i>. Cell Press, 2024. <a href=\"https://doi.org/10.1016/j.celrep.2024.114195\">https://doi.org/10.1016/j.celrep.2024.114195</a>.","ama":"Adamowski M, Randuch M, Matijevic I, Narasimhan M, Friml J. SH3Ps recruit auxilin-like vesicle uncoating factors for clathrin-mediated endocytosis. <i>Cell Reports</i>. 2024;43(5). doi:<a href=\"https://doi.org/10.1016/j.celrep.2024.114195\">10.1016/j.celrep.2024.114195</a>","ista":"Adamowski M, Randuch M, Matijevic I, Narasimhan M, Friml J. 2024. SH3Ps recruit auxilin-like vesicle uncoating factors for clathrin-mediated endocytosis. Cell Reports. 43(5), 114195.","mla":"Adamowski, Maciek, et al. “SH3Ps Recruit Auxilin-like Vesicle Uncoating Factors for Clathrin-Mediated Endocytosis.” <i>Cell Reports</i>, vol. 43, no. 5, 114195, Cell Press, 2024, doi:<a href=\"https://doi.org/10.1016/j.celrep.2024.114195\">10.1016/j.celrep.2024.114195</a>.","ieee":"M. Adamowski, M. Randuch, I. Matijevic, M. Narasimhan, and J. Friml, “SH3Ps recruit auxilin-like vesicle uncoating factors for clathrin-mediated endocytosis,” <i>Cell Reports</i>, vol. 43, no. 5. Cell Press, 2024."},"date_published":"2024-05-28T00:00:00Z","year":"2024","publication_status":"published","doi":"10.1016/j.celrep.2024.114195","publication_identifier":{"eissn":["2211-1247"]},"publisher":"Cell Press","article_processing_charge":"Yes","abstract":[{"lang":"eng","text":"Clathrin-mediated endocytosis (CME) is an essential process of cargo uptake operating in all eukaryotes. In animals and yeast, BAR-SH3 domain proteins, endophilins and amphiphysins, function at the conclusion of CME to recruit factors for vesicle scission and uncoating. Arabidopsis thaliana contains the BAR-SH3 domain proteins SH3P1–SH3P3, but their role is poorly understood. Here, we identify SH3Ps as functional homologs of endophilin/amphiphysin. SH3P1–SH3P3 bind to discrete foci at the plasma membrane (PM), and SH3P2 recruits late to a subset of clathrin-coated pits. The SH3P2 PM recruitment pattern is nearly identical to its interactor, a putative uncoating factor, AUXILIN-LIKE1. Notably, SH3P1–SH3P3 are required for most of AUXILIN-LIKE1 recruitment to the PM. This indicates a plant-specific modification of CME, where BAR-SH3 proteins recruit auxilin-like uncoating factors rather than the uncoating phosphatases, synaptojanins. SH3P1–SH3P3 act redundantly in overall CME with the plant-specific endocytic adaptor TPLATE complex but not due to an SH3 domain in its TASH3 subunit."}],"article_type":"original","volume":43,"day":"28","oa_version":"Published Version","project":[{"grant_number":"I03630","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants"}],"quality_controlled":"1","external_id":{"isi":["001240362800001"],"pmid":["38717900"]}},{"status":"public","date_created":"2024-05-12T22:01:01Z","scopus_import":"1","acknowledged_ssus":[{"_id":"Bio"},{"_id":"ScienComp"}],"has_accepted_license":"1","publication":"The Plant Cell","language":[{"iso":"eng"}],"file":[{"file_id":"19611","creator":"dernst","file_name":"2024_PlantCell_He.pdf","date_updated":"2025-04-23T07:43:12Z","content_type":"application/pdf","access_level":"open_access","success":1,"file_size":50791962,"relation":"main_file","date_created":"2025-04-23T07:43:12Z","checksum":"eed76c848fe3d8fe9a53943181aaa53c"}],"ddc":["580"],"page":"1829-1843","pmid":1,"intvolume":"        36","oa":1,"_id":"15375","OA_place":"publisher","file_date_updated":"2025-04-23T07:43:12Z","corr_author":"1","issue":"5","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","acknowledgement":"This work was funded by ISTA core support (Y.Y. and X.F.) and grants from the National Natural Science Foundation of China (31871443 to L.W. and P.L.; 32100417 to L.W.).\r\nWe thank the ISTA Imaging and Optics Facility for assistance with microscopy and the ISTA Scientific Computing Facility for high-performance computing resources.","author":[{"last_name":"He","full_name":"He, Shengbo","first_name":"Shengbo"},{"id":"318e643b-8b61-11ed-b69e-aafa103ec8dd","full_name":"Yu, Yiming","last_name":"Yu","first_name":"Yiming"},{"first_name":"Liang","full_name":"Wang, Liang","last_name":"Wang"},{"last_name":"Zhang","full_name":"Zhang, Jingyi","first_name":"Jingyi"},{"last_name":"Bai","full_name":"Bai, Zhengyong","first_name":"Zhengyong"},{"full_name":"Li, Guohong","last_name":"Li","first_name":"Guohong"},{"full_name":"Li, Pilong","last_name":"Li","first_name":"Pilong"},{"id":"e0164712-22ee-11ed-b12a-d80fcdf35958","full_name":"Feng, Xiaoqi","last_name":"Feng","first_name":"Xiaoqi","orcid":"0000-0002-4008-1234"}],"type":"journal_article","volume":36,"day":"01","oa_version":"Published Version","external_id":{"pmid":["38309957"],"isi":["001180817000001"]},"quality_controlled":"1","abstract":[{"lang":"eng","text":"In the eukaryotic nucleus, heterochromatin forms highly condensed, visible foci known as heterochromatin foci (HF). These HF are enriched with linker histone H1, a key player in heterochromatin condensation and silencing. However, it is unknown how H1 aggregates HF and condenses heterochromatin. In this study, we established that H1 facilitates heterochromatin condensation by enhancing inter- and intrachromosomal interactions between and within heterochromatic regions of the Arabidopsis (Arabidopsis thaliana) genome. We demonstrated that H1 drives HF formation via phase separation, which requires its C-terminal intrinsically disordered region (C-IDR). A truncated H1 lacking the C-IDR fails to form foci or recover HF in the h1 mutant background, whereas C-IDR with a short stretch of the globular domain (18 out of 71 amino acids) is sufficient to rescue both defects. In addition, C-IDR is essential for H1's roles in regulating nucleosome repeat length and DNA methylation in Arabidopsis, indicating that phase separation capability is required for chromatin functions of H1. Our data suggest that bacterial H1-like proteins, which have been shown to condense DNA, are intrinsically disordered and capable of mediating phase separation. Therefore, we propose that phase separation mediated by H1 or H1-like proteins may represent an ancient mechanism for condensing chromatin and DNA."}],"article_type":"original","OA_type":"hybrid","year":"2024","date_published":"2024-05-01T00:00:00Z","citation":{"chicago":"He, Shengbo, Yiming Yu, Liang Wang, Jingyi Zhang, Zhengyong Bai, Guohong Li, Pilong Li, and Xiaoqi Feng. “Linker Histone H1 Drives Heterochromatin Condensation via Phase Separation in Arabidopsis.” <i>The Plant Cell</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/plcell/koae034\">https://doi.org/10.1093/plcell/koae034</a>.","ama":"He S, Yu Y, Wang L, et al. Linker histone H1 drives heterochromatin condensation via phase separation in Arabidopsis. <i>The Plant Cell</i>. 2024;36(5):1829-1843. doi:<a href=\"https://doi.org/10.1093/plcell/koae034\">10.1093/plcell/koae034</a>","apa":"He, S., Yu, Y., Wang, L., Zhang, J., Bai, Z., Li, G., … Feng, X. (2024). Linker histone H1 drives heterochromatin condensation via phase separation in Arabidopsis. <i>The Plant Cell</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/plcell/koae034\">https://doi.org/10.1093/plcell/koae034</a>","short":"S. He, Y. Yu, L. Wang, J. Zhang, Z. Bai, G. Li, P. Li, X. Feng, The Plant Cell 36 (2024) 1829–1843.","mla":"He, Shengbo, et al. “Linker Histone H1 Drives Heterochromatin Condensation via Phase Separation in Arabidopsis.” <i>The Plant Cell</i>, vol. 36, no. 5, Oxford University Press, 2024, pp. 1829–43, doi:<a href=\"https://doi.org/10.1093/plcell/koae034\">10.1093/plcell/koae034</a>.","ieee":"S. He <i>et al.</i>, “Linker histone H1 drives heterochromatin condensation via phase separation in Arabidopsis,” <i>The Plant Cell</i>, vol. 36, no. 5. Oxford University Press, pp. 1829–1843, 2024.","ista":"He S, Yu Y, Wang L, Zhang J, Bai Z, Li G, Li P, Feng X. 2024. Linker histone H1 drives heterochromatin condensation via phase separation in Arabidopsis. The Plant Cell. 36(5), 1829–1843."},"publication_status":"published","article_processing_charge":"Yes (via OA deal)","publication_identifier":{"eissn":["1532-298X"]},"publisher":"Oxford University Press","doi":"10.1093/plcell/koae034","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_updated":"2025-09-08T07:21:17Z","department":[{"_id":"XiFe"}],"month":"05","title":"Linker histone H1 drives heterochromatin condensation via phase separation in Arabidopsis","isi":1},{"ec_funded":1,"day":"05","oa_version":"Published Version","volume":14572,"alternative_title":["LNCS"],"external_id":{"isi":["001284187100008"],"arxiv":["2310.11798"]},"quality_controlled":"1","project":[{"_id":"62781420-2b32-11ec-9570-8d9b63373d4d","name":"Vigilant Algorithmic Monitoring of Software","call_identifier":"H2020","grant_number":"101020093"}],"abstract":[{"lang":"eng","text":"Sequential decision-making tasks often require satisfaction of multiple, partially-contradictory objectives. Existing approaches are monolithic, where a single policy fulfills all objectives. We present auction-based scheduling, a decentralized framework for multi-objective sequential decision making. Each objective is fulfilled using a separate and independent policy. Composition of policies is performed at runtime, where at each step, the policies simultaneously bid from pre-allocated budgets for the privilege of choosing the next action. The framework allows policies to be independently created, modified, and replaced. We study path planning problems on finite graphs with two temporal objectives and present algorithms to synthesize policies together with bidding policies in a decentralized manner. We consider three categories of decentralized synthesis problems, parameterized by the assumptions that the policies make on each other. We identify a class of assumptions called assume-admissible for which synthesis is always possible for graphs whose every vertex has at most two outgoing edges."}],"conference":{"location":"Luxembourg City, Luxembourg","start_date":"2024-04-06","name":"TACAS: Tools and Algorithms for the Construction and Analysis of Systems","end_date":"2024-04-11"},"year":"2024","date_published":"2024-04-05T00:00:00Z","citation":{"chicago":"Avni, Guy, Kaushik Mallik, and Suman Sadhukhan. “Auction-Based Scheduling.” In <i>30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>, 14572:153–72. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/978-3-031-57256-2_8\">https://doi.org/10.1007/978-3-031-57256-2_8</a>.","ama":"Avni G, Mallik K, Sadhukhan S. Auction-based scheduling. In: <i>30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>. Vol 14572. Springer Nature; 2024:153-172. doi:<a href=\"https://doi.org/10.1007/978-3-031-57256-2_8\">10.1007/978-3-031-57256-2_8</a>","apa":"Avni, G., Mallik, K., &#38; Sadhukhan, S. (2024). Auction-based scheduling. In <i>30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i> (Vol. 14572, pp. 153–172). Luxembourg City, Luxembourg: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-031-57256-2_8\">https://doi.org/10.1007/978-3-031-57256-2_8</a>","short":"G. Avni, K. Mallik, S. Sadhukhan, in:, 30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems, Springer Nature, 2024, pp. 153–172.","mla":"Avni, Guy, et al. “Auction-Based Scheduling.” <i>30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>, vol. 14572, Springer Nature, 2024, pp. 153–72, doi:<a href=\"https://doi.org/10.1007/978-3-031-57256-2_8\">10.1007/978-3-031-57256-2_8</a>.","ieee":"G. Avni, K. Mallik, and S. Sadhukhan, “Auction-based scheduling,” in <i>30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>, Luxembourg City, Luxembourg, 2024, vol. 14572, pp. 153–172.","ista":"Avni G, Mallik K, Sadhukhan S. 2024. Auction-based scheduling. 30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems. TACAS: Tools and Algorithms for the Construction and Analysis of Systems, LNCS, vol. 14572, 153–172."},"publication_identifier":{"eissn":["1611-3349"],"issn":["0302-9743"],"isbn":["9783031572555"]},"article_processing_charge":"Yes (in subscription journal)","publisher":"Springer Nature","doi":"10.1007/978-3-031-57256-2_8","publication_status":"published","date_updated":"2025-09-08T07:33:43Z","month":"04","department":[{"_id":"ToHe"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"isi":1,"title":"Auction-based scheduling","date_created":"2024-05-12T22:01:02Z","scopus_import":"1","status":"public","publication":"30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems","language":[{"iso":"eng"}],"has_accepted_license":"1","ddc":["000"],"file":[{"file_id":"15414","creator":"dernst","date_updated":"2024-05-22T07:09:24Z","file_name":"2024_LNCS_Avni.pdf","content_type":"application/pdf","access_level":"open_access","success":1,"relation":"main_file","file_size":508191,"date_created":"2024-05-22T07:09:24Z","checksum":"dbeb123510997886d11925aedbf9c400"}],"intvolume":"     14572","page":"153-172","oa":1,"arxiv":1,"_id":"15376","corr_author":"1","file_date_updated":"2024-05-22T07:09:24Z","author":[{"last_name":"Avni","id":"463C8BC2-F248-11E8-B48F-1D18A9856A87","full_name":"Avni, Guy","first_name":"Guy","orcid":"0000-0001-5588-8287"},{"full_name":"Mallik, Kaushik","id":"0834ff3c-6d72-11ec-94e0-b5b0a4fb8598","last_name":"Mallik","first_name":"Kaushik","orcid":"0000-0001-9864-7475"},{"last_name":"Sadhukhan","full_name":"Sadhukhan, Suman","first_name":"Suman"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","acknowledgement":"This work was supported in part by the ERC project ERC-2020-AdG 101020093 and by ISF grant no. 1679/21.","type":"conference"},{"oa_version":"Published Version","day":"06","volume":14572,"ec_funded":1,"external_id":{"arxiv":["2401.07548"],"isi":["001284187100011"]},"quality_controlled":"1","project":[{"grant_number":"101020093","call_identifier":"H2020","name":"Vigilant Algorithmic Monitoring of Software","_id":"62781420-2b32-11ec-9570-8d9b63373d4d"}],"alternative_title":["LNCS"],"abstract":[{"lang":"eng","text":"We provide an algorithmto solve Rabin and Streett games over graphs\r\nwith n vertices,m edges, and k colours that runs in ˜O³mn(k!)1+o(1)´time and\r\nO(nk logk logn) space, where ˜O hides poly-logarithmic factors. Our algorithm\r\nis an improvement by a super quadratic dependence on k! from the currently\r\nbest known run time of O³mn2(k!)2+o(1)´, obtained by converting a Rabin\r\ngameinto a parity game,while simultaneously improving its exponential space\r\nrequirement.\r\nOur main technical ingredient is a characterisation of progress measures for\r\nRabin games using colourful trees and a combinatorial construction of succinctlyrepresented,\r\nuniversal colourful trees. Colourful universal trees are generalisations\r\nof universal trees used by Jurdzi´nski and Lazi´c (2017) to solve parity\r\ngames, as well as of Rabin progress measures of Klarlund and Kozen (1991).\r\nOur algorithm for Rabin games is a progress measure lifting algorithm where\r\nthe lifting is performed on succinct, colourful, universal trees."}],"date_published":"2024-04-06T00:00:00Z","year":"2024","citation":{"ieee":"R. Majumdar, I. Sağlam, and K. S. Thejaswini, “Rabin games and colourful universal trees,” in <i>30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>, 2024, vol. 14572, pp. 213–231.","mla":"Majumdar, Rupak, et al. “Rabin Games and Colourful Universal Trees.” <i>30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>, vol. 14572, Springer Nature, 2024, pp. 213–31, doi:<a href=\"https://doi.org/10.1007/978-3-031-57256-2_11\">10.1007/978-3-031-57256-2_11</a>.","ista":"Majumdar R, Sağlam I, Thejaswini KS. 2024. Rabin games and colourful universal trees. 30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems. , LNCS, vol. 14572, 213–231.","ama":"Majumdar R, Sağlam I, Thejaswini KS. Rabin games and colourful universal trees. In: <i>30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>. Vol 14572. Springer Nature; 2024:213-231. doi:<a href=\"https://doi.org/10.1007/978-3-031-57256-2_11\">10.1007/978-3-031-57256-2_11</a>","chicago":"Majumdar, Rupak, Irmak Sağlam, and K. S. Thejaswini. “Rabin Games and Colourful Universal Trees.” In <i>30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i>, 14572:213–31. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/978-3-031-57256-2_11\">https://doi.org/10.1007/978-3-031-57256-2_11</a>.","short":"R. Majumdar, I. Sağlam, K.S. Thejaswini, in:, 30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems, Springer Nature, 2024, pp. 213–231.","apa":"Majumdar, R., Sağlam, I., &#38; Thejaswini, K. S. (2024). Rabin games and colourful universal trees. In <i>30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems</i> (Vol. 14572, pp. 213–231). Springer Nature. <a href=\"https://doi.org/10.1007/978-3-031-57256-2_11\">https://doi.org/10.1007/978-3-031-57256-2_11</a>"},"publication_status":"published","article_processing_charge":"Yes (in subscription journal)","publication_identifier":{"issn":["0302-9743"],"eissn":["1611-3349"],"isbn":["9783031572555"]},"publisher":"Springer Nature","doi":"10.1007/978-3-031-57256-2_11","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_updated":"2025-09-08T07:34:49Z","month":"04","department":[{"_id":"ToHe"}],"title":"Rabin games and colourful universal trees","isi":1,"scopus_import":"1","status":"public","date_created":"2024-05-12T22:01:02Z","has_accepted_license":"1","publication":"30th International Conference on Tools and Algorithms for the Construction and Analysis of Systems","language":[{"iso":"eng"}],"file":[{"content_type":"application/pdf","file_name":"2024_LNCS_Majumdar.pdf","date_updated":"2024-05-22T07:24:45Z","file_id":"15415","creator":"dernst","checksum":"492be74f69cd6ea42d38681082d0b521","date_created":"2024-05-22T07:24:45Z","relation":"main_file","file_size":462173,"access_level":"open_access","success":1}],"ddc":["000"],"page":"213-231","intvolume":"     14572","oa":1,"_id":"15377","arxiv":1,"file_date_updated":"2024-05-22T07:24:45Z","corr_author":"1","author":[{"full_name":"Majumdar, Rupak","last_name":"Majumdar","first_name":"Rupak"},{"first_name":"Irmak","full_name":"Sağlam, Irmak","last_name":"Sağlam"},{"first_name":"K. S.","full_name":"Thejaswini, K. S.","id":"3807fb92-fdc1-11ee-bb4a-b4d8a431c753","last_name":"Thejaswini"}],"acknowledgement":"This work is a part of the project VAMOS that has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme, grant agreements No 101020093. Rupak Majumdar was partially supported by the DFG project 389792660 TRR 248-CPEC.","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","type":"conference"}]