[{"day":"09","doi":"10.1038/s41598-023-35979-8","publisher":"Springer Nature","ddc":["570"],"acknowledgement":"We thank N.A. Pertsov White Sea Biological Station of Moscow State University for the help and support in obtaining samples and providing access to all required facilities and equipment of the “Center of Microscopy WSBS MSU”. We are grateful to Dr. Amro Hamdoun for pCS2+8 plasmid (Addgene plasmid # 34931).\r\nWork in the Walentek lab is supported by the Deutsche Forschungsgemeinschaft (DFG) under the Emmy Noether Programme (grant WA3365/2-2) and under Germany’s Excellence Strategy (CIBSS-EXC-2189-Project ID 390939984). SK is supported by the project No. 0088-2021-0009 of the Koltzov Institute of Developmental Biology of the RAS. The study of molecular patterning of D. pumila colony was funded by RFBR, project number 20-04-00978a (to S.K.).","scopus_import":"1","external_id":{"pmid":["37296138"],"isi":["001006690200045"]},"language":[{"iso":"eng"}],"date_created":"2023-06-25T22:00:46Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file_date_updated":"2023-06-26T09:58:53Z","oa":1,"year":"2023","department":[{"_id":"GradSch"}],"intvolume":"        13","status":"public","_id":"13166","publication_identifier":{"eissn":["2045-2322"]},"type":"journal_article","citation":{"apa":"Vetrova, A. A., Kupaeva, D. M., Kizenko, A., Lebedeva, T. S., Walentek, P., Tsikolia, N., &#38; Kremnyov, S. V. (2023). The evolutionary history of Brachyury genes in Hydrozoa involves duplications, divergence, and neofunctionalization. <i>Scientific Reports</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41598-023-35979-8\">https://doi.org/10.1038/s41598-023-35979-8</a>","ama":"Vetrova AA, Kupaeva DM, Kizenko A, et al. The evolutionary history of Brachyury genes in Hydrozoa involves duplications, divergence, and neofunctionalization. <i>Scientific Reports</i>. 2023;13. doi:<a href=\"https://doi.org/10.1038/s41598-023-35979-8\">10.1038/s41598-023-35979-8</a>","ieee":"A. A. Vetrova <i>et al.</i>, “The evolutionary history of Brachyury genes in Hydrozoa involves duplications, divergence, and neofunctionalization,” <i>Scientific Reports</i>, vol. 13. Springer Nature, 2023.","chicago":"Vetrova, Alexandra A., Daria M. Kupaeva, Alena Kizenko, Tatiana S. Lebedeva, Peter Walentek, Nikoloz Tsikolia, and Stanislav V. Kremnyov. “The Evolutionary History of Brachyury Genes in Hydrozoa Involves Duplications, Divergence, and Neofunctionalization.” <i>Scientific Reports</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41598-023-35979-8\">https://doi.org/10.1038/s41598-023-35979-8</a>.","mla":"Vetrova, Alexandra A., et al. “The Evolutionary History of Brachyury Genes in Hydrozoa Involves Duplications, Divergence, and Neofunctionalization.” <i>Scientific Reports</i>, vol. 13, 9382, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41598-023-35979-8\">10.1038/s41598-023-35979-8</a>.","short":"A.A. Vetrova, D.M. Kupaeva, A. Kizenko, T.S. Lebedeva, P. Walentek, N. Tsikolia, S.V. Kremnyov, Scientific Reports 13 (2023).","ista":"Vetrova AA, Kupaeva DM, Kizenko A, Lebedeva TS, Walentek P, Tsikolia N, Kremnyov SV. 2023. The evolutionary history of Brachyury genes in Hydrozoa involves duplications, divergence, and neofunctionalization. Scientific Reports. 13, 9382."},"article_processing_charge":"No","isi":1,"oa_version":"Published Version","has_accepted_license":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"article_type":"original","date_updated":"2023-08-02T06:17:18Z","month":"06","abstract":[{"lang":"eng","text":"Brachyury, a member of T-box gene family, is widely known for its major role in mesoderm specification in bilaterians. It is also present in non-bilaterian metazoans, such as cnidarians, where it acts as a component of an axial patterning system. In this study, we present a phylogenetic analysis of Brachyury genes within phylum Cnidaria, investigate differential expression and address a functional framework of Brachyury paralogs in hydrozoan Dynamena pumila. Our analysis indicates two duplication events of Brachyury within the cnidarian lineage. The first duplication likely appeared in the medusozoan ancestor, resulting in two copies in medusozoans, while the second duplication arose in the hydrozoan ancestor, resulting in three copies in hydrozoans. Brachyury1 and 2 display a conservative expression pattern marking the oral pole of the body axis in D. pumila. On the contrary, Brachyury3 expression was detected in scattered presumably nerve cells of the D. pumila larva. Pharmacological modulations indicated that Brachyury3 is not under regulation of cWnt signaling in contrast to the other two Brachyury genes. Divergence in expression patterns and regulation suggest neofunctionalization of Brachyury3 in hydrozoans."}],"volume":13,"author":[{"last_name":"Vetrova","full_name":"Vetrova, Alexandra A.","first_name":"Alexandra A."},{"full_name":"Kupaeva, Daria M.","last_name":"Kupaeva","first_name":"Daria M."},{"id":"a521c60b-0815-11ed-9b02-b8bd522477c8","first_name":"Alena","last_name":"Kizenko","full_name":"Kizenko, Alena"},{"last_name":"Lebedeva","full_name":"Lebedeva, Tatiana S.","first_name":"Tatiana S."},{"first_name":"Peter","last_name":"Walentek","full_name":"Walentek, Peter"},{"full_name":"Tsikolia, Nikoloz","last_name":"Tsikolia","first_name":"Nikoloz"},{"last_name":"Kremnyov","full_name":"Kremnyov, Stanislav V.","first_name":"Stanislav V."}],"date_published":"2023-06-09T00:00:00Z","article_number":"9382","title":"The evolutionary history of Brachyury genes in Hydrozoa involves duplications, divergence, and neofunctionalization","pmid":1,"quality_controlled":"1","file":[{"date_updated":"2023-06-26T09:58:53Z","relation":"main_file","success":1,"checksum":"baddf6b2fa9adf88263d4a3b0998f0f2","creator":"dernst","content_type":"application/pdf","access_level":"open_access","file_id":"13170","file_name":"2023_ScientificReports_Vetrova.pdf","file_size":4844149,"date_created":"2023-06-26T09:58:53Z"}],"publication":"Scientific Reports","publication_status":"published"},{"external_id":{"isi":["001013172700001"]},"language":[{"iso":"eng"}],"file_date_updated":"2023-06-26T10:15:44Z","oa":1,"date_created":"2023-06-25T22:00:46Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2023","department":[{"_id":"GaNo"}],"intvolume":"        29","day":"15","publisher":"Springer Nature","doi":"10.1038/s41591-023-02365-w","scopus_import":"1","acknowledgement":"This work received support from the European Union-funded Horizon Europe project ‘environMENTAL’ (no. 101057429 to G.S., A.M. and M.M.N.) and cofunding by UK Research and Innovation under the UK Government’s Horizon Europe funding guarantee (nos. 10041392 and 10038599) for study design and data analysis; the Horizon 2020-funded European Research Council Advanced Grant ‘STRATIFY’ (no. 695313 to G.S. for study design and data analysis); the Human Brain Project (HBP SGA3, no. 945539 to G.S. for study design and data analysis); the National Institutes of Health (grant no. R01DA049238 to G.S. for study design and data analysis); the German Research Foundation (COPE; grant no. 675346 to G.S. for study design and data analysis); the National Natural Science Foundation of China (grant no. 82001797 to J.X., grant no. 82030053 to C.Y., grant no. 82202093 to J.T. and grant no. 82150710554 to G.S. for study design, data analysis and preparation of the manuscript); National Key Research and Development Program of China (grant no. 2018YFC1314301 to C.Y. for study design and data analysis); Tianjin Applied Basic Research Diversified Investment Foundation (grant no. 21JCYBJC01360 to J.X. for study design and data analysis); Tianjin Health Technology Project (grant no. TJWJ2021QN002 to J.X. for preparation of the manuscript); Science & Technology Development Fund of the Tianjin Education Commission for Higher Education (grant no. 2019KJ195 to J.X. for preparation of the manuscript); the Tianjin Medical University ‘Clinical Talent Training 123 Climbing Plan’ to J.X. for the preparation of the manuscript; Tianjin Key Medical Discipline (Specialty) Construction Project (grant no. TJYXZDXK-001A to C.Y. for preparation of the manuscript); the National Key R&D Program of China (grant no. 2022YFE0209400 to L.Y. for study design and data analysis); the Tsinghua University Initiative Scientific Research Program (grant no. 2021Z11GHX002 to L.Y. for study design and data analysis); the National Key Scientific and Technological Infrastructure Project ‘Earth System Science Numerical Simulator Facility’ (EarthLab to L.Y. for study design and data analysis); the Chinese National High-end Foreign Expert Recruitment Plan to G.S.; and the Alexander von Humboldt Foundation to G.S. for study design and data analysis.","ddc":["570"],"author":[{"first_name":"Jiayuan","full_name":"Xu, Jiayuan","last_name":"Xu"},{"first_name":"Nana","full_name":"Liu, Nana","last_name":"Liu"},{"full_name":"Polemiti, Elli","last_name":"Polemiti","first_name":"Elli"},{"full_name":"Garcia-Mondragon, Liliana","last_name":"Garcia-Mondragon","first_name":"Liliana"},{"first_name":"Jie","last_name":"Tang","full_name":"Tang, Jie"},{"last_name":"Liu","full_name":"Liu, Xiaoxuan","first_name":"Xiaoxuan"},{"first_name":"Tristram","last_name":"Lett","full_name":"Lett, Tristram"},{"full_name":"Yu, Le","last_name":"Yu","first_name":"Le"},{"first_name":"Markus M.","full_name":"Nöthen, Markus M.","last_name":"Nöthen"},{"full_name":"Feng, Jianfeng","last_name":"Feng","first_name":"Jianfeng"},{"first_name":"Chunshui","last_name":"Yu","full_name":"Yu, Chunshui"},{"last_name":"Marquand","full_name":"Marquand, Andre","first_name":"Andre"},{"first_name":"Gunter","last_name":"Schumann","full_name":"Schumann, Gunter"},{"full_name":"Walter, Henrik","last_name":"Walter","first_name":"Henrik"},{"full_name":"Heinz, Andreas","last_name":"Heinz","first_name":"Andreas"},{"last_name":"Ralser","full_name":"Ralser, Markus","first_name":"Markus"},{"last_name":"Twardziok","full_name":"Twardziok, Sven","first_name":"Sven"},{"first_name":"Nilakshi","last_name":"Vaidya","full_name":"Vaidya, Nilakshi"},{"full_name":"Serin, Emin","last_name":"Serin","first_name":"Emin"},{"first_name":"Marcel","full_name":"Jentsch, Marcel","last_name":"Jentsch"},{"full_name":"Hitchen, Esther","last_name":"Hitchen","first_name":"Esther"},{"first_name":"Roland","last_name":"Eils","full_name":"Eils, Roland"},{"full_name":"Taron, Ulrike Helene","last_name":"Taron","first_name":"Ulrike Helene"},{"full_name":"Schütz, Tatjana","last_name":"Schütz","first_name":"Tatjana"},{"first_name":"Kerstin","last_name":"Schepanski","full_name":"Schepanski, Kerstin"},{"first_name":"Jamie","full_name":"Banks, Jamie","last_name":"Banks"},{"full_name":"Banaschewski, Tobias","last_name":"Banaschewski","first_name":"Tobias"},{"first_name":"Karina","last_name":"Jansone","full_name":"Jansone, Karina"},{"last_name":"Christmann","full_name":"Christmann, Nina","first_name":"Nina"},{"full_name":"Meyer-Lindenberg, Andreas","last_name":"Meyer-Lindenberg","first_name":"Andreas"},{"full_name":"Tost, Heike","last_name":"Tost","first_name":"Heike"},{"first_name":"Nathalie","full_name":"Holz, Nathalie","last_name":"Holz"},{"first_name":"Emanuel","last_name":"Schwarz","full_name":"Schwarz, Emanuel"},{"first_name":"Argyris","full_name":"Stringaris, Argyris","last_name":"Stringaris"},{"first_name":"Maja","last_name":"Neidhart","full_name":"Neidhart, Maja"},{"last_name":"Nees","full_name":"Nees, Frauke","first_name":"Frauke"},{"first_name":"Sebastian","last_name":"Siehl","full_name":"Siehl, Sebastian"},{"first_name":"Ole","last_name":"A. Andreassen","full_name":"A. Andreassen, Ole"},{"full_name":"T. Westlye, Lars","last_name":"T. Westlye","first_name":"Lars"},{"first_name":"Dennis","full_name":"Van Der Meer, Dennis","last_name":"Van Der Meer"},{"last_name":"Fernandez","full_name":"Fernandez, Sara","first_name":"Sara"},{"first_name":"Rikka","full_name":"Kjelkenes, Rikka","last_name":"Kjelkenes"},{"full_name":"Ask, Helga","last_name":"Ask","first_name":"Helga"},{"full_name":"Rapp, Michael","last_name":"Rapp","first_name":"Michael"},{"last_name":"Tschorn","full_name":"Tschorn, Mira","first_name":"Mira"},{"last_name":"Böttger","full_name":"Böttger, Sarah Jane","first_name":"Sarah Jane"},{"id":"3E57A680-F248-11E8-B48F-1D18A9856A87","first_name":"Gaia","last_name":"Novarino","orcid":"0000-0002-7673-7178","full_name":"Novarino, Gaia"},{"full_name":"Marr, Lena","last_name":"Marr","first_name":"Lena","id":"4406F586-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Slater","full_name":"Slater, Mel","first_name":"Mel"},{"last_name":"Viapiana","full_name":"Viapiana, Guillem Feixas","first_name":"Guillem Feixas"},{"last_name":"Orosa","full_name":"Orosa, Francisco Eiroa","first_name":"Francisco Eiroa"},{"first_name":"Jaime","full_name":"Gallego, Jaime","last_name":"Gallego"},{"last_name":"Pastor","full_name":"Pastor, Alvaro","first_name":"Alvaro"},{"first_name":"Andreas","full_name":"Forstner, Andreas","last_name":"Forstner"},{"full_name":"Hoffmann, Per","last_name":"Hoffmann","first_name":"Per"},{"full_name":"M. Nöthen, Markus","last_name":"M. Nöthen","first_name":"Markus"},{"first_name":"Andreas","full_name":"J. Forstner, Andreas","last_name":"J. Forstner"},{"first_name":"Isabelle","last_name":"Claus","full_name":"Claus, Isabelle"},{"first_name":"Abbi","full_name":"Miller, Abbi","last_name":"Miller"},{"first_name":"Stefanie","last_name":"Heilmann-Heimbach","full_name":"Heilmann-Heimbach, Stefanie"},{"last_name":"Sommer","full_name":"Sommer, Peter","first_name":"Peter"},{"full_name":"Boye, Mona","last_name":"Boye","first_name":"Mona"},{"last_name":"Wilbertz","full_name":"Wilbertz, Johannes","first_name":"Johannes"},{"last_name":"Schmitt","full_name":"Schmitt, Karen","first_name":"Karen"},{"full_name":"Jirsa, Viktor","last_name":"Jirsa","first_name":"Viktor"},{"full_name":"Petkoski, Spase","last_name":"Petkoski","first_name":"Spase"},{"last_name":"Pitel","full_name":"Pitel, Séverine","first_name":"Séverine"},{"first_name":"Lisa","last_name":"Otten","full_name":"Otten, Lisa"},{"first_name":"Anastasios Polykarpos","full_name":"Athanasiadis, Anastasios Polykarpos","last_name":"Athanasiadis"},{"last_name":"Pearmund","full_name":"Pearmund, Charlie","first_name":"Charlie"},{"last_name":"Spanlang","full_name":"Spanlang, Bernhard","first_name":"Bernhard"},{"last_name":"Alvarez","full_name":"Alvarez, Elena","first_name":"Elena"},{"first_name":"Mavi","last_name":"Sanchez","full_name":"Sanchez, Mavi"},{"first_name":"Arantxa","full_name":"Giner, Arantxa","last_name":"Giner"},{"last_name":"Hese","full_name":"Hese, Sören","first_name":"Sören"},{"full_name":"Renner, Paul","last_name":"Renner","first_name":"Paul"},{"full_name":"Jia, Tianye","last_name":"Jia","first_name":"Tianye"},{"last_name":"Gong","full_name":"Gong, Yanting","first_name":"Yanting"},{"first_name":"Yunman","last_name":"Xia","full_name":"Xia, Yunman"},{"full_name":"Chang, Xiao","last_name":"Chang","first_name":"Xiao"},{"full_name":"Calhoun, Vince","last_name":"Calhoun","first_name":"Vince"},{"full_name":"Liu, Jingyu","last_name":"Liu","first_name":"Jingyu"},{"first_name":"Paul","full_name":"Thompson, Paul","last_name":"Thompson"},{"full_name":"Clinton, Nicholas","last_name":"Clinton","first_name":"Nicholas"},{"full_name":"Desrivieres, Sylvane","last_name":"Desrivieres","first_name":"Sylvane"},{"first_name":"Allan","full_name":"H. Young, Allan","last_name":"H. Young"},{"full_name":"Stahl, Bernd","last_name":"Stahl","first_name":"Bernd"},{"full_name":"Ogoh, George","last_name":"Ogoh","first_name":"George"}],"date_published":"2023-06-15T00:00:00Z","title":"Effects of urban living environments on mental health in adults","file":[{"date_created":"2023-06-26T10:15:44Z","file_size":7365360,"file_name":"2023_NatureMedicine_Xu.pdf","content_type":"application/pdf","file_id":"13171","access_level":"open_access","relation":"main_file","checksum":"bcd3225b2731c3442fa98987fd3bd46d","creator":"dernst","success":1,"date_updated":"2023-06-26T10:15:44Z"}],"publication":"Nature Medicine","quality_controlled":"1","page":"1456-1467","publication_status":"published","_id":"13168","status":"public","citation":{"ama":"Xu J, Liu N, Polemiti E, et al. Effects of urban living environments on mental health in adults. <i>Nature Medicine</i>. 2023;29:1456-1467. doi:<a href=\"https://doi.org/10.1038/s41591-023-02365-w\">10.1038/s41591-023-02365-w</a>","apa":"Xu, J., Liu, N., Polemiti, E., Garcia-Mondragon, L., Tang, J., Liu, X., … Ogoh, G. (2023). Effects of urban living environments on mental health in adults. <i>Nature Medicine</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41591-023-02365-w\">https://doi.org/10.1038/s41591-023-02365-w</a>","short":"J. Xu, N. Liu, E. Polemiti, L. Garcia-Mondragon, J. Tang, X. Liu, T. Lett, L. Yu, M.M. Nöthen, J. Feng, C. Yu, A. Marquand, G. Schumann, H. Walter, A. Heinz, M. Ralser, S. Twardziok, N. Vaidya, E. Serin, M. Jentsch, E. Hitchen, R. Eils, U.H. Taron, T. Schütz, K. Schepanski, J. Banks, T. Banaschewski, K. Jansone, N. Christmann, A. Meyer-Lindenberg, H. Tost, N. Holz, E. Schwarz, A. Stringaris, M. Neidhart, F. Nees, S. Siehl, O. A. Andreassen, L. T. Westlye, D. Van Der Meer, S. Fernandez, R. Kjelkenes, H. Ask, M. Rapp, M. Tschorn, S.J. Böttger, G. Novarino, L. Marr, M. Slater, G.F. Viapiana, F.E. Orosa, J. Gallego, A. Pastor, A. Forstner, P. Hoffmann, M. M. Nöthen, A. J. Forstner, I. Claus, A. Miller, S. Heilmann-Heimbach, P. Sommer, M. Boye, J. Wilbertz, K. Schmitt, V. Jirsa, S. Petkoski, S. Pitel, L. Otten, A.P. Athanasiadis, C. Pearmund, B. Spanlang, E. Alvarez, M. Sanchez, A. Giner, S. Hese, P. Renner, T. Jia, Y. Gong, Y. Xia, X. Chang, V. Calhoun, J. Liu, P. Thompson, N. Clinton, S. Desrivieres, A. H. Young, B. Stahl, G. Ogoh, Nature Medicine 29 (2023) 1456–1467.","ista":"Xu J, Liu N, Polemiti E, Garcia-Mondragon L, Tang J, Liu X, Lett T, Yu L, Nöthen MM, Feng J, Yu C, Marquand A, Schumann G, Walter H, Heinz A, Ralser M, Twardziok S, Vaidya N, Serin E, Jentsch M, Hitchen E, Eils R, Taron UH, Schütz T, Schepanski K, Banks J, Banaschewski T, Jansone K, Christmann N, Meyer-Lindenberg A, Tost H, Holz N, Schwarz E, Stringaris A, Neidhart M, Nees F, Siehl S, A. Andreassen O, T. Westlye L, Van Der Meer D, Fernandez S, Kjelkenes R, Ask H, Rapp M, Tschorn M, Böttger SJ, Novarino G, Marr L, Slater M, Viapiana GF, Orosa FE, Gallego J, Pastor A, Forstner A, Hoffmann P, M. Nöthen M, J. Forstner A, Claus I, Miller A, Heilmann-Heimbach S, Sommer P, Boye M, Wilbertz J, Schmitt K, Jirsa V, Petkoski S, Pitel S, Otten L, Athanasiadis AP, Pearmund C, Spanlang B, Alvarez E, Sanchez M, Giner A, Hese S, Renner P, Jia T, Gong Y, Xia Y, Chang X, Calhoun V, Liu J, Thompson P, Clinton N, Desrivieres S, H. Young A, Stahl B, Ogoh G. 2023. Effects of urban living environments on mental health in adults. Nature Medicine. 29, 1456–1467.","chicago":"Xu, Jiayuan, Nana Liu, Elli Polemiti, Liliana Garcia-Mondragon, Jie Tang, Xiaoxuan Liu, Tristram Lett, et al. “Effects of Urban Living Environments on Mental Health in Adults.” <i>Nature Medicine</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41591-023-02365-w\">https://doi.org/10.1038/s41591-023-02365-w</a>.","ieee":"J. Xu <i>et al.</i>, “Effects of urban living environments on mental health in adults,” <i>Nature Medicine</i>, vol. 29. Springer Nature, pp. 1456–1467, 2023.","mla":"Xu, Jiayuan, et al. “Effects of Urban Living Environments on Mental Health in Adults.” <i>Nature Medicine</i>, vol. 29, Springer Nature, 2023, pp. 1456–67, doi:<a href=\"https://doi.org/10.1038/s41591-023-02365-w\">10.1038/s41591-023-02365-w</a>."},"article_processing_charge":"No","publication_identifier":{"eissn":["1546-170X"],"issn":["1078-8956"]},"type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"oa_version":"Published Version","isi":1,"has_accepted_license":"1","date_updated":"2023-12-13T11:25:55Z","volume":29,"month":"06","abstract":[{"text":"Urban-living individuals are exposed to many environmental factors that may combine and interact to influence mental health. While individual factors of an urban environment have been investigated in isolation, no attempt has been made to model how complex, real-life exposure to living in the city relates to brain and mental health, and how this is moderated by genetic factors. Using the data of 156,075 participants from the UK Biobank, we carried out sparse canonical correlation analyses to investigate the relationships between urban environments and psychiatric symptoms. We found an environmental profile of social deprivation, air pollution, street network and urban land-use density that was positively correlated with an affective symptom group (r = 0.22, Pperm < 0.001), mediated by brain volume differences consistent with reward processing, and moderated by genes enriched for stress response, including CRHR1, explaining 2.01% of the variance in brain volume differences. Protective factors such as greenness and generous destination accessibility were negatively correlated with an anxiety symptom group (r = 0.10, Pperm < 0.001), mediated by brain regions necessary for emotion regulation and moderated by EXD3, explaining 1.65% of the variance. The third urban environmental profile was correlated with an emotional instability symptom group (r = 0.03, Pperm < 0.001). Our findings suggest that different environmental profiles of urban living may influence specific psychiatric symptom groups through distinct neurobiological pathways.","lang":"eng"}],"article_type":"original"},{"related_material":{"record":[{"status":"public","id":"15084","relation":"used_in_publication"}]},"keyword":["medial habenula","GABAB receptor","vesicle release","Flash and Freeze","Flash and Freeze-fracture"],"date_updated":"2025-09-04T12:16:24Z","month":"07","abstract":[{"lang":"eng","text":"GABAB receptor (GBR) activation inhibits neurotransmitter release in axon terminals in the brain, except in medial habenula (MHb) terminals, which show robust potentiation. However, mechanisms underlying this enigmatic potentiation remain elusive. Here, we report that GBR activation on MHb terminals induces an activity-dependent transition from a facilitating, tonic to a depressing, phasic neurotransmitter release mode. This transition is accompanied by a 4.1-fold increase in readily releasable vesicle pool (RRP) size and a 3.5-fold increase of docked synaptic vesicles at the presynaptic active zone (AZ). Strikingly, tonic and phasic release exhibit distinct coupling distances and are selectively affected by deletion of synaptoporin (SPO) and Ca2+-dependent activator protein for secretion 2 (CAPS2), respectively. SPO modulates augmentation, the short-term plasticity associated with tonic release, and CAPS2 retains the increased RRP for initial responses in phasic response trains. Double pre-embedding immunolabeling confirmed the co-localization of CAPS2 and SPO inside the same terminal. The cytosolic protein CAPS2 showed a synaptic vesicle (SV)-associated distribution similar to the vesicular transmembrane protein SPO. A newly developed “Flash and Freeze-fracture” method revealed the release of SPO-associated vesicles in both tonic and phasic modes and activity-dependent recruitment of CAPS2 to the AZ during phasic release, which lasted several minutes. Overall, these results indicate that GBR activation translocates CAPS2 to the AZ along with the fusion of CAPS2-associated SVs, contributing to a persistent RRP increase. Thus, we discovered structural and molecular mechanisms underlying tonic and phasic neurotransmitter release and their transition by GBR activation in MHb terminals."}],"oa_version":"Published Version","ddc":["571"],"has_accepted_license":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)"},"doi":"10.15479/AT:ISTA:13173","type":"research_data","citation":{"mla":"Shigemoto, Ryuichi. <i>Transition from Tonic to Phasic Neurotransmitter Release by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:13173\">10.15479/AT:ISTA:13173</a>.","chicago":"Shigemoto, Ryuichi. “Transition from Tonic to Phasic Neurotransmitter Release by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:13173\">https://doi.org/10.15479/AT:ISTA:13173</a>.","ieee":"R. Shigemoto, “Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals.” Institute of Science and Technology Austria, 2023.","ista":"Shigemoto R. 2023. Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:13173\">10.15479/AT:ISTA:13173</a>.","short":"R. Shigemoto, (2023).","apa":"Shigemoto, R. (2023). Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:13173\">https://doi.org/10.15479/AT:ISTA:13173</a>","ama":"Shigemoto R. Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals. 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:13173\">10.15479/AT:ISTA:13173</a>"},"article_processing_charge":"No","publisher":"Institute of Science and Technology Austria","status":"public","_id":"13173","day":"29","department":[{"_id":"RySh"}],"year":"2023","file":[{"date_updated":"2023-11-17T14:30:44Z","relation":"main_file","checksum":"ed59170869ba621f89f7c1894092192f","creator":"shigemot","description":"After review an updated version of the data is provided","file_id":"13174","content_type":"application/x-zip-compressed","access_level":"closed","file_name":"Raw data for Koppensteiner et al.zip","title":"Outdated Version","file_size":542873672,"date_created":"2023-06-29T13:11:22Z"},{"date_updated":"2023-11-17T14:13:02Z","checksum":"c07860eb82b4d367245f1b589fe5c250","creator":"patrickd","relation":"main_file","success":1,"content_type":"application/vnd.openxmlformats-officedocument.spreadsheetml.sheet","access_level":"open_access","file_id":"14550","file_name":"11-17-23 Updated Koppensteiner et al. raw data.xlsx","date_created":"2023-11-17T14:13:02Z","file_size":915079},{"file_id":"14942","content_type":"application/x-zip-compressed","file_name":"EM_Images.zip","access_level":"open_access","file_size":544868924,"date_created":"2024-02-06T07:21:43Z","date_updated":"2024-02-06T07:21:43Z","success":1,"checksum":"abf84b1699edac4349dc3a92d466fb7b","creator":"dernst","relation":"main_file"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","license":"https://creativecommons.org/licenses/by-nc/4.0/","date_created":"2023-06-29T13:16:42Z","title":"Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals","file_date_updated":"2024-02-06T07:21:43Z","oa":1,"author":[{"full_name":"Shigemoto, Ryuichi","last_name":"Shigemoto","orcid":"0000-0001-8761-9444","first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87"}],"corr_author":"1","date_published":"2023-07-29T00:00:00Z"},{"page":"202","publication_status":"published","file":[{"file_size":18688376,"date_created":"2023-06-30T08:17:25Z","access_level":"open_access","file_id":"13176","file_name":"thesis_pdfa.pdf","content_type":"application/pdf","success":1,"relation":"main_file","creator":"cchlebak","checksum":"7d03f1a5a5258ee43dfc3323dea4e08f","date_updated":"2023-06-30T08:17:25Z"},{"date_updated":"2023-07-06T11:35:15Z","relation":"source_file","checksum":"c3b45317ae58e0527533f98c202d81b7","creator":"cchlebak","content_type":"application/x-zip-compressed","file_name":"thesis.zip","file_id":"13196","access_level":"closed","date_created":"2023-07-06T11:35:15Z","file_size":37847025}],"title":"Cavity quantum electrooptics","author":[{"orcid":"0000-0001-6264-2162","last_name":"Sahu","full_name":"Sahu, Rishabh","id":"47D26E34-F248-11E8-B48F-1D18A9856A87","first_name":"Rishabh"}],"acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"SSU"},{"_id":"NanoFab"}],"date_published":"2023-05-05T00:00:00Z","related_material":{"record":[{"relation":"old_edition","status":"public","id":"12900"},{"id":"10924","status":"public","relation":"part_of_dissertation"},{"id":"9114","status":"public","relation":"part_of_dissertation"}]},"keyword":["quantum optics","electrooptics","quantum networks","quantum communication","transduction"],"date_updated":"2026-04-15T06:43:26Z","month":"05","abstract":[{"text":"About a 100 years ago, we discovered that our universe is inherently noisy, that is, measuring any physical quantity with a precision beyond a certain point is not possible because of an omnipresent inherent noise. We call this - the quantum noise. Certain physical processes allow this quantum noise to get correlated in conjugate physical variables. These quantum correlations can be used to go beyond the potential of our inherently noisy universe and obtain a quantum advantage over the classical applications. \r\n\r\nQuantum noise being inherent also means that, at the fundamental level, the physical quantities are not well defined and therefore, objects can stay in multiple states at the same time. For example, the position of a particle not being well defined means that the particle is in multiple positions at the same time. About 4 decades ago, we started exploring the possibility of using objects which can be in multiple states at the same time to increase the dimensionality in computation. Thus, the field of quantum computing was born. We discovered that using quantum entanglement, a property closely related to quantum correlations, can be used to speed up computation of certain problems, such as factorisation of large numbers, faster than any known classical algorithm. Thus began the pursuit to make quantum computers a reality. \r\n\r\nTill date, we have explored quantum control over many physical systems including photons, spins, atoms, ions and even simple circuits made up of superconducting material. However, there persists one ubiquitous theme. The more readily a system interacts with an external field or matter, the more easily we can control it. But this also means that such a system can easily interact with a noisy environment and quickly lose its coherence. Consequently, such systems like electron spins need to be protected from the environment to ensure the longevity of their coherence. Other systems like nuclear spins are naturally protected as they do not interact easily with the environment. But, due to the same reason, it is harder to interact with such systems. \r\n\r\nAfter decades of experimentation with various systems, we are convinced that no one type of quantum system would be the best for all the quantum applications. We would need hybrid systems which are all interconnected - much like the current internet where all sorts of devices can all talk to each other - but now for quantum devices. A quantum internet. \r\n\r\nOptical photons are the best contenders to carry information for the quantum internet. They can carry quantum information cheaply and without much loss - the same reasons which has made them the backbone of our current internet. Following this direction, many systems, like trapped ions, have already demonstrated successful quantum links over a large distances using optical photons. However, some of the most promising contenders for quantum computing which are based on microwave frequencies have been left behind. This is because high energy optical photons can adversely affect fragile low-energy microwave systems. \r\n\r\nIn this thesis, we present substantial progress on this missing quantum link between microwave and optics using electrooptical nonlinearities in lithium niobate. The nonlinearities are enhanced by using resonant cavities for all the involved modes leading to observation of strong direct coupling between optical and microwave frequencies. With this strong coupling we are not only able to achieve almost 100\\% internal conversion efficiency with low added noise, thus presenting a quantum-enabled transducer, but also we are able to observe novel effects such as cooling of a microwave mode using optics. The strong coupling regime also leads to direct observation of dynamical backaction effect between microwave and optical frequencies which are studied in detail here. Finally, we also report first observation of microwave-optics entanglement in form of two-mode squeezed vacuum squeezed 0.7dB below vacuum level. \r\nWith this new bridge between microwave and optics, the microwave-based quantum technologies can finally be a part of a quantum network which is based on optical photons - putting us one step closer to a future with quantum internet. ","lang":"eng"}],"oa_version":"Published Version","has_accepted_license":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","short":"CC BY-NC-SA (4.0)"},"publication_identifier":{"isbn":["978-3-99078-030-5"],"issn":["2663-337X"]},"type":"dissertation","citation":{"short":"R. Sahu, Cavity Quantum Electrooptics, Institute of Science and Technology Austria, 2023.","ista":"Sahu R. 2023. Cavity quantum electrooptics. Institute of Science and Technology Austria.","ieee":"R. Sahu, “Cavity quantum electrooptics,” Institute of Science and Technology Austria, 2023.","chicago":"Sahu, Rishabh. “Cavity Quantum Electrooptics.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:13175\">https://doi.org/10.15479/at:ista:13175</a>.","mla":"Sahu, Rishabh. <i>Cavity Quantum Electrooptics</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:13175\">10.15479/at:ista:13175</a>.","ama":"Sahu R. Cavity quantum electrooptics. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:13175\">10.15479/at:ista:13175</a>","apa":"Sahu, R. (2023). <i>Cavity quantum electrooptics</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:13175\">https://doi.org/10.15479/at:ista:13175</a>"},"article_processing_charge":"No","_id":"13175","supervisor":[{"first_name":"Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","full_name":"Fink, Johannes M","last_name":"Fink","orcid":"0000-0001-8112-028X"}],"status":"public","ec_funded":1,"project":[{"grant_number":"758053","call_identifier":"H2020","_id":"26336814-B435-11E9-9278-68D0E5697425","name":"A Fiber Optic Transceiver for Superconducting Qubits"},{"_id":"9B868D20-BA93-11EA-9121-9846C619BF3A","name":"Quantum Local Area Networks with Superconducting Qubits","call_identifier":"H2020","grant_number":"899354"},{"grant_number":"F07105","_id":"bdb108fd-d553-11ed-ba76-83dc74a9864f","name":"QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration of Superconducting Quantum Circuits"}],"department":[{"_id":"GradSch"},{"_id":"JoFi"}],"year":"2023","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","date_created":"2023-06-30T08:07:43Z","degree_awarded":"PhD","file_date_updated":"2023-07-06T11:35:15Z","oa":1,"language":[{"iso":"eng"}],"corr_author":"1","OA_place":"publisher","ddc":["537","535","539"],"doi":"10.15479/at:ista:13175","publisher":"Institute of Science and Technology Austria","day":"05","alternative_title":["ISTA Thesis"]},{"external_id":{"isi":["000988204400001"],"arxiv":["1804.08353"]},"language":[{"iso":"eng"}],"corr_author":"1","date_created":"2023-07-02T22:00:43Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"main_file_link":[{"open_access":"1","url":" https://doi.org/10.48550/arXiv.1804.08353"}],"intvolume":"       151","department":[{"_id":"JaMa"}],"year":"2023","day":"01","doi":"10.1090/proc/14361","arxiv":1,"publisher":"American Mathematical Society","acknowledgement":"The second author was supported by the priority program SPP2026 of the German Research Foundation (DFG). The fourth author was supported by the German Academic Scholarship Foundation (Studienstiftung des deutschen Volkes) and by the German Research Foundation (DFG) via RTG 1523/2.","scopus_import":"1","author":[{"first_name":"Bobo","full_name":"Hua, Bobo","last_name":"Hua"},{"first_name":"Matthias","last_name":"Keller","full_name":"Keller, Matthias"},{"full_name":"Schwarz, Michael","last_name":"Schwarz","first_name":"Michael"},{"id":"88644358-0A0E-11EA-8FA5-49A33DDC885E","first_name":"Melchior","last_name":"Wirth","orcid":"0000-0002-0519-4241","full_name":"Wirth, Melchior"}],"date_published":"2023-08-01T00:00:00Z","title":"Sobolev-type inequalities and eigenvalue growth on graphs with finite measure","quality_controlled":"1","publication":"Proceedings of the American Mathematical Society","publication_status":"published","page":"3401-3414","status":"public","_id":"13177","publication_identifier":{"eissn":["1088-6826"],"issn":["0002-9939"]},"type":"journal_article","citation":{"ista":"Hua B, Keller M, Schwarz M, Wirth M. 2023. Sobolev-type inequalities and eigenvalue growth on graphs with finite measure. Proceedings of the American Mathematical Society. 151(8), 3401–3414.","short":"B. Hua, M. Keller, M. Schwarz, M. Wirth, Proceedings of the American Mathematical Society 151 (2023) 3401–3414.","mla":"Hua, Bobo, et al. “Sobolev-Type Inequalities and Eigenvalue Growth on Graphs with Finite Measure.” <i>Proceedings of the American Mathematical Society</i>, vol. 151, no. 8, American Mathematical Society, 2023, pp. 3401–14, doi:<a href=\"https://doi.org/10.1090/proc/14361\">10.1090/proc/14361</a>.","chicago":"Hua, Bobo, Matthias Keller, Michael Schwarz, and Melchior Wirth. “Sobolev-Type Inequalities and Eigenvalue Growth on Graphs with Finite Measure.” <i>Proceedings of the American Mathematical Society</i>. American Mathematical Society, 2023. <a href=\"https://doi.org/10.1090/proc/14361\">https://doi.org/10.1090/proc/14361</a>.","ieee":"B. Hua, M. Keller, M. Schwarz, and M. Wirth, “Sobolev-type inequalities and eigenvalue growth on graphs with finite measure,” <i>Proceedings of the American Mathematical Society</i>, vol. 151, no. 8. American Mathematical Society, pp. 3401–3414, 2023.","ama":"Hua B, Keller M, Schwarz M, Wirth M. Sobolev-type inequalities and eigenvalue growth on graphs with finite measure. <i>Proceedings of the American Mathematical Society</i>. 2023;151(8):3401-3414. doi:<a href=\"https://doi.org/10.1090/proc/14361\">10.1090/proc/14361</a>","apa":"Hua, B., Keller, M., Schwarz, M., &#38; Wirth, M. (2023). Sobolev-type inequalities and eigenvalue growth on graphs with finite measure. <i>Proceedings of the American Mathematical Society</i>. American Mathematical Society. <a href=\"https://doi.org/10.1090/proc/14361\">https://doi.org/10.1090/proc/14361</a>"},"article_processing_charge":"No","isi":1,"oa_version":"Preprint","article_type":"original","date_updated":"2024-10-09T21:05:50Z","issue":"8","abstract":[{"text":"In this note we study the eigenvalue growth of infinite graphs with discrete spectrum. We assume that the corresponding Dirichlet forms satisfy certain Sobolev-type inequalities and that the total measure is finite. In this sense, the associated operators on these graphs display similarities to elliptic operators on bounded domains in the continuum. Specifically, we prove lower bounds on the eigenvalue growth and show by examples that corresponding upper bounds cannot be established.","lang":"eng"}],"volume":151,"month":"08"},{"arxiv":1,"doi":"10.1017/fms.2023.45","publisher":"Cambridge University Press","day":"13","ddc":["500"],"acknowledgement":"This research was supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme grant agreement No. 694227 (R.S.) and the Maria Skłodowska-Curie grant agreement No. 665386 (K.M.).","scopus_import":"1","date_created":"2023-07-02T22:00:43Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","oa":1,"file_date_updated":"2023-07-03T10:36:25Z","language":[{"iso":"eng"}],"external_id":{"isi":["001005008800001"],"arxiv":["2203.02454"]},"corr_author":"1","ec_funded":1,"intvolume":"        11","department":[{"_id":"RoSe"}],"year":"2023","project":[{"_id":"25C6DC12-B435-11E9-9278-68D0E5697425","name":"Analysis of quantum many-body systems","grant_number":"694227","call_identifier":"H2020"}],"type":"journal_article","publication_identifier":{"eissn":["2050-5094"]},"article_processing_charge":"Yes","citation":{"mla":"Mitrouskas, David Johannes, et al. “Optimal Parabolic Upper Bound for the Energy-Momentum Relation of a Strongly Coupled Polaron.” <i>Forum of Mathematics</i>, vol. 11, Cambridge University Press, 2023, pp. 1–52, doi:<a href=\"https://doi.org/10.1017/fms.2023.45\">10.1017/fms.2023.45</a>.","chicago":"Mitrouskas, David Johannes, Krzysztof Mysliwy, and Robert Seiringer. “Optimal Parabolic Upper Bound for the Energy-Momentum Relation of a Strongly Coupled Polaron.” <i>Forum of Mathematics</i>. Cambridge University Press, 2023. <a href=\"https://doi.org/10.1017/fms.2023.45\">https://doi.org/10.1017/fms.2023.45</a>.","ieee":"D. J. Mitrouskas, K. Mysliwy, and R. Seiringer, “Optimal parabolic upper bound for the energy-momentum relation of a strongly coupled polaron,” <i>Forum of Mathematics</i>, vol. 11. Cambridge University Press, pp. 1–52, 2023.","ista":"Mitrouskas DJ, Mysliwy K, Seiringer R. 2023. Optimal parabolic upper bound for the energy-momentum relation of a strongly coupled polaron. Forum of Mathematics. 11, 1–52.","short":"D.J. Mitrouskas, K. Mysliwy, R. Seiringer, Forum of Mathematics 11 (2023) 1–52.","apa":"Mitrouskas, D. J., Mysliwy, K., &#38; Seiringer, R. (2023). Optimal parabolic upper bound for the energy-momentum relation of a strongly coupled polaron. <i>Forum of Mathematics</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/fms.2023.45\">https://doi.org/10.1017/fms.2023.45</a>","ama":"Mitrouskas DJ, Mysliwy K, Seiringer R. Optimal parabolic upper bound for the energy-momentum relation of a strongly coupled polaron. <i>Forum of Mathematics</i>. 2023;11:1-52. doi:<a href=\"https://doi.org/10.1017/fms.2023.45\">10.1017/fms.2023.45</a>"},"status":"public","_id":"13178","article_type":"original","volume":11,"month":"06","abstract":[{"text":"We consider the large polaron described by the Fröhlich Hamiltonian and study its energy-momentum relation defined as the lowest possible energy as a function of the total momentum. Using a suitable family of trial states, we derive an optimal parabolic upper bound for the energy-momentum relation in the limit of strong coupling. The upper bound consists of a momentum independent term that agrees with the predicted two-term expansion for the ground state energy of the strongly coupled polaron at rest and a term that is quadratic in the momentum with coefficient given by the inverse of twice the classical effective mass introduced by Landau and Pekar.","lang":"eng"}],"date_updated":"2025-04-14T07:26:58Z","has_accepted_license":"1","isi":1,"oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"title":"Optimal parabolic upper bound for the energy-momentum relation of a strongly coupled polaron","date_published":"2023-06-13T00:00:00Z","author":[{"last_name":"Mitrouskas","full_name":"Mitrouskas, David Johannes","id":"cbddacee-2b11-11eb-a02e-a2e14d04e52d","first_name":"David Johannes"},{"id":"316457FC-F248-11E8-B48F-1D18A9856A87","first_name":"Krzysztof","last_name":"Mysliwy","full_name":"Mysliwy, Krzysztof"},{"first_name":"Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","full_name":"Seiringer, Robert","orcid":"0000-0002-6781-0521","last_name":"Seiringer"}],"publication_status":"published","page":"1-52","quality_controlled":"1","publication":"Forum of Mathematics","file":[{"success":1,"relation":"main_file","creator":"alisjak","checksum":"f672eb7dd015c472c9a04f1b9bf9df7d","date_updated":"2023-07-03T10:36:25Z","date_created":"2023-07-03T10:36:25Z","file_size":943192,"content_type":"application/pdf","file_name":"2023_ForumofMathematics.Sigma_Mitrouskas.pdf","file_id":"13186","access_level":"open_access"}]},{"publisher":"American Physical Society","doi":"10.1103/physrevmaterials.7.065601","arxiv":1,"day":"13","scopus_import":"1","ddc":["537"],"acknowledgement":"This project has received funding from the European Research Council Grant Agreement No. 949120 and from\r\nthe European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie Grant\r\nAgreement No. 754411. ","file_date_updated":"2023-07-07T12:49:51Z","oa":1,"date_created":"2023-07-07T12:48:01Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","corr_author":"1","external_id":{"arxiv":["2304.12861"],"isi":["001019565900002"]},"language":[{"iso":"eng"}],"project":[{"name":"Tribocharge: a multi-scale approach to an enduring problem in physics","_id":"0aa60e99-070f-11eb-9043-a6de6bdc3afa","grant_number":"949120","call_identifier":"H2020"},{"_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","call_identifier":"H2020"}],"department":[{"_id":"ScWa"}],"year":"2023","intvolume":"         7","ec_funded":1,"citation":{"mla":"Grosjean, Galien M., and Scott R. Waitukaitis. “Asymmetries in Triboelectric Charging: Generalizing Mosaic Models to Different-Material Samples and Sliding Contacts.” <i>Physical Review Materials</i>, vol. 7, no. 6, 065601, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/physrevmaterials.7.065601\">10.1103/physrevmaterials.7.065601</a>.","ieee":"G. M. Grosjean and S. R. Waitukaitis, “Asymmetries in triboelectric charging: Generalizing mosaic models to different-material samples and sliding contacts,” <i>Physical Review Materials</i>, vol. 7, no. 6. American Physical Society, 2023.","chicago":"Grosjean, Galien M, and Scott R Waitukaitis. “Asymmetries in Triboelectric Charging: Generalizing Mosaic Models to Different-Material Samples and Sliding Contacts.” <i>Physical Review Materials</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/physrevmaterials.7.065601\">https://doi.org/10.1103/physrevmaterials.7.065601</a>.","ista":"Grosjean GM, Waitukaitis SR. 2023. Asymmetries in triboelectric charging: Generalizing mosaic models to different-material samples and sliding contacts. Physical Review Materials. 7(6), 065601.","short":"G.M. Grosjean, S.R. Waitukaitis, Physical Review Materials 7 (2023).","apa":"Grosjean, G. M., &#38; Waitukaitis, S. R. (2023). Asymmetries in triboelectric charging: Generalizing mosaic models to different-material samples and sliding contacts. <i>Physical Review Materials</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevmaterials.7.065601\">https://doi.org/10.1103/physrevmaterials.7.065601</a>","ama":"Grosjean GM, Waitukaitis SR. Asymmetries in triboelectric charging: Generalizing mosaic models to different-material samples and sliding contacts. <i>Physical Review Materials</i>. 2023;7(6). doi:<a href=\"https://doi.org/10.1103/physrevmaterials.7.065601\">10.1103/physrevmaterials.7.065601</a>"},"article_processing_charge":"No","publication_identifier":{"issn":["2475-9953"]},"type":"journal_article","_id":"13197","status":"public","date_updated":"2025-04-14T07:43:55Z","issue":"6","volume":7,"month":"06","abstract":[{"text":"Nominally identical materials exchange net electric charge during contact through a mechanism that is still debated. ‘Mosaic models’, in which surfaces are presumed to consist of a random patchwork of microscopic donor/acceptor sites, offer an appealing explanation for this phenomenon. However, recent experiments have shown that global differences persist even between same-material samples, which the standard mosaic framework does not account for. Here, we expand the mosaic framework by incorporating global differences in the densities of donor/acceptor sites. We develop\r\nan analytical model, backed by numerical simulations, that smoothly connects the global and deterministic charge transfer of different materials to the local and stochastic mosaic picture normally associated with identical materials. Going further, we extend our model to explain the effect of contact asymmetries during sliding, providing a plausible explanation for reversal of charging sign that has been observed experimentally.","lang":"eng"}],"keyword":["Physics and Astronomy (miscellaneous)","General Materials Science"],"article_type":"original","isi":1,"oa_version":"Submitted Version","has_accepted_license":"1","title":"Asymmetries in triboelectric charging: Generalizing mosaic models to different-material samples and sliding contacts","author":[{"full_name":"Grosjean, Galien M","orcid":"0000-0001-5154-417X","last_name":"Grosjean","first_name":"Galien M","id":"0C5FDA4A-9CF6-11E9-8939-FF05E6697425"},{"full_name":"Waitukaitis, Scott R","last_name":"Waitukaitis","orcid":"0000-0002-2299-3176","first_name":"Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87"}],"article_number":"065601","date_published":"2023-06-13T00:00:00Z","publication_status":"published","file":[{"relation":"main_file","checksum":"75584730d9cdd50eeccb4c52c509776d","creator":"ggrosjea","success":1,"date_updated":"2023-07-07T12:49:51Z","date_created":"2023-07-07T12:49:51Z","file_size":1127040,"file_name":"Mosaic_asymmetries.pdf","content_type":"application/pdf","file_id":"13198","access_level":"open_access"}],"publication":"Physical Review Materials","quality_controlled":"1"},{"ec_funded":1,"department":[{"_id":"RySh"}],"intvolume":"        43","year":"2023","project":[{"call_identifier":"H2020","grant_number":"793482","name":"Ultrastructural analysis of phosphoinositides in nerve terminals: distribution, dynamics and physiological roles in synaptic transmission","_id":"2659CC84-B435-11E9-9278-68D0E5697425"},{"_id":"25CA28EA-B435-11E9-9278-68D0E5697425","name":"In situ analysis of single channel subunit composition in neurons: physiological implication in synaptic plasticity and behaviour","grant_number":"694539","call_identifier":"H2020"}],"language":[{"iso":"eng"}],"external_id":{"pmid":["37160366"],"isi":["001020132100005"]},"corr_author":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2023-07-09T22:01:12Z","oa":1,"file_date_updated":"2023-07-10T09:04:58Z","ddc":["570"],"acknowledgement":"This work was supported by The Institute of Science and Technology (IST) Austria, the European Union's Horizon 2020 Research and Innovation Program under the Marie Skłodowska-Curie Grant Agreement No. 793482 (to K.E.) and by the European Research Council (ERC) Grant Agreement No. 694539 (to R.S.). We thank Nicoleta Condruz (IST Austria, Klosterneuburg, Austria) for technical assistance with sample preparation, the Electron Microscopy Facility of IST Austria (Klosterneuburg, Austria) for technical support with EM works, Natalia Baranova (University of Vienna, Vienna, Austria) and Martin Loose (IST Austria, Klosterneuburg, Austria) for advice on liposome preparation, and Yugo Fukazawa (University of Fukui, Fukui, Japan) for comments.","scopus_import":"1","day":"07","doi":"10.1523/JNEUROSCI.1514-22.2023","publisher":"Society for Neuroscience","quality_controlled":"1","pmid":1,"publication":"The Journal of Neuroscience","file":[{"checksum":"70b2141870e0bf1c94fd343e18fdbc32","success":1,"creator":"alisjak","relation":"main_file","date_updated":"2023-07-10T09:04:58Z","file_size":7794425,"date_created":"2023-07-10T09:04:58Z","access_level":"open_access","content_type":"application/pdf","file_name":"2023_JN_Eguchi.pdf","file_id":"13205"}],"page":"4197-4216","publication_status":"published","date_published":"2023-06-07T00:00:00Z","author":[{"id":"2B7846DC-F248-11E8-B48F-1D18A9856A87","first_name":"Kohgaku","orcid":"0000-0002-6170-2546","last_name":"Eguchi","full_name":"Eguchi, Kohgaku"},{"full_name":"Le Monnier, Elodie","last_name":"Le Monnier","first_name":"Elodie","id":"3B59276A-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","full_name":"Shigemoto, Ryuichi","orcid":"0000-0001-8761-9444","last_name":"Shigemoto"}],"acknowledged_ssus":[{"_id":"EM-Fac"}],"title":"Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons","has_accepted_license":"1","isi":1,"oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"article_type":"original","month":"06","abstract":[{"text":"Phosphatidylinositol-4,5-bisphosphate (PI(4,5)P2) plays an essential role in neuronal activities through interaction with various proteins involved in signaling at membranes. However, the distribution pattern of PI(4,5)P2 and the association with these proteins on the neuronal cell membranes remain elusive. In this study, we established a method for visualizing PI(4,5)P2 by SDS-digested freeze-fracture replica labeling (SDS-FRL) to investigate the quantitative nanoscale distribution of PI(4,5)P2 in cryo-fixed brain. We demonstrate that PI(4,5)P2 forms tiny clusters with a mean size of ∼1000 nm2 rather than randomly distributed in cerebellar neuronal membranes in male C57BL/6J mice. These clusters show preferential accumulation in specific membrane compartments of different cell types, in particular, in Purkinje cell (PC) spines and granule cell (GC) presynaptic active zones. Furthermore, we revealed extensive association of PI(4,5)P2 with CaV2.1 and GIRK3 across different membrane compartments, whereas its association with mGluR1α was compartment specific. These results suggest that our SDS-FRL method provides valuable insights into the physiological functions of PI(4,5)P2 in neurons.","lang":"eng"}],"volume":43,"date_updated":"2025-04-14T07:27:15Z","issue":"23","_id":"13202","status":"public","type":"journal_article","publication_identifier":{"eissn":["1529-2401"],"issn":["0270-6474"]},"article_processing_charge":"No","citation":{"ieee":"K. Eguchi, E. Le Monnier, and R. Shigemoto, “Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons,” <i>The Journal of Neuroscience</i>, vol. 43, no. 23. Society for Neuroscience, pp. 4197–4216, 2023.","chicago":"Eguchi, Kohgaku, Elodie Le Monnier, and Ryuichi Shigemoto. “Nanoscale Phosphoinositide Distribution on Cell Membranes of Mouse Cerebellar Neurons.” <i>The Journal of Neuroscience</i>. Society for Neuroscience, 2023. <a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">https://doi.org/10.1523/JNEUROSCI.1514-22.2023</a>.","mla":"Eguchi, Kohgaku, et al. “Nanoscale Phosphoinositide Distribution on Cell Membranes of Mouse Cerebellar Neurons.” <i>The Journal of Neuroscience</i>, vol. 43, no. 23, Society for Neuroscience, 2023, pp. 4197–216, doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">10.1523/JNEUROSCI.1514-22.2023</a>.","short":"K. Eguchi, E. Le Monnier, R. Shigemoto, The Journal of Neuroscience 43 (2023) 4197–4216.","ista":"Eguchi K, Le Monnier E, Shigemoto R. 2023. Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons. The Journal of Neuroscience. 43(23), 4197–4216.","apa":"Eguchi, K., Le Monnier, E., &#38; Shigemoto, R. (2023). Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons. <i>The Journal of Neuroscience</i>. Society for Neuroscience. <a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">https://doi.org/10.1523/JNEUROSCI.1514-22.2023</a>","ama":"Eguchi K, Le Monnier E, Shigemoto R. Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons. <i>The Journal of Neuroscience</i>. 2023;43(23):4197-4216. doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">10.1523/JNEUROSCI.1514-22.2023</a>"}},{"intvolume":"        12","department":[{"_id":"GradSch"},{"_id":"RoSe"}],"year":"2023","project":[{"name":"Analysis of quantum many-body systems","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"694227"}],"ec_funded":1,"corr_author":"1","language":[{"iso":"eng"}],"external_id":{"isi":["000997933500008"],"arxiv":["2201.08090"]},"oa":1,"file_date_updated":"2023-07-11T08:19:15Z","date_created":"2023-07-10T16:35:45Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","scopus_import":"1","ddc":["530"],"acknowledgement":"We thank Egor Babaev for encouraging us to study this problem, and Rupert Frank for many fruitful discussions. scussions. Funding. Funding from the European Union’s Horizon 2020 research and innovation programme under the ERC grant agreement No. 694227 (Barbara Roos and Robert Seiringer) is gratefully acknowledged.","day":"18","publisher":"EMS Press","arxiv":1,"doi":"10.4171/JST/439","publication":"Journal of Spectral Theory","file":[{"access_level":"open_access","content_type":"application/pdf","file_id":"13208","file_name":"2023_EMS_Hainzl.pdf","file_size":304619,"date_created":"2023-07-11T08:19:15Z","date_updated":"2023-07-11T08:19:15Z","creator":"alisjak","checksum":"5501da33be010b5c81440438287584d5","success":1,"relation":"main_file"}],"quality_controlled":"1","page":"1507–1540","publication_status":"published","date_published":"2023-05-18T00:00:00Z","author":[{"full_name":"Hainzl, Christian","last_name":"Hainzl","first_name":"Christian"},{"id":"5DA90512-D80F-11E9-8994-2E2EE6697425","first_name":"Barbara","last_name":"Roos","orcid":"0000-0002-9071-5880","full_name":"Roos, Barbara"},{"id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","first_name":"Robert","last_name":"Seiringer","orcid":"0000-0002-6781-0521","full_name":"Seiringer, Robert"}],"title":"Boundary superconductivity in the BCS model","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"has_accepted_license":"1","oa_version":"Published Version","isi":1,"volume":12,"month":"05","abstract":[{"text":"We consider the linear BCS equation, determining the BCS critical temperature, in the presence of a boundary, where Dirichlet boundary conditions are imposed. In the one-dimensional case with point interactions, we prove that the critical temperature is strictly larger than the bulk value, at least at weak coupling. In particular, the Cooper-pair wave function localizes near the boundary, an effect that cannot be modeled by effective Neumann boundary conditions on the order parameter as often imposed in Ginzburg–Landau theory. We also show that the relative shift in critical temperature vanishes if the coupling constant either goes to zero or to infinity.","lang":"eng"}],"date_updated":"2026-04-07T13:27:39Z","issue":"4","article_type":"original","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"14374"}]},"status":"public","_id":"13207","article_processing_charge":"No","citation":{"short":"C. Hainzl, B. Roos, R. Seiringer, Journal of Spectral Theory 12 (2023) 1507–1540.","ista":"Hainzl C, Roos B, Seiringer R. 2023. Boundary superconductivity in the BCS model. Journal of Spectral Theory. 12(4), 1507–1540.","ieee":"C. Hainzl, B. Roos, and R. Seiringer, “Boundary superconductivity in the BCS model,” <i>Journal of Spectral Theory</i>, vol. 12, no. 4. EMS Press, pp. 1507–1540, 2023.","chicago":"Hainzl, Christian, Barbara Roos, and Robert Seiringer. “Boundary Superconductivity in the BCS Model.” <i>Journal of Spectral Theory</i>. EMS Press, 2023. <a href=\"https://doi.org/10.4171/JST/439\">https://doi.org/10.4171/JST/439</a>.","mla":"Hainzl, Christian, et al. “Boundary Superconductivity in the BCS Model.” <i>Journal of Spectral Theory</i>, vol. 12, no. 4, EMS Press, 2023, pp. 1507–1540, doi:<a href=\"https://doi.org/10.4171/JST/439\">10.4171/JST/439</a>.","ama":"Hainzl C, Roos B, Seiringer R. Boundary superconductivity in the BCS model. <i>Journal of Spectral Theory</i>. 2023;12(4):1507–1540. doi:<a href=\"https://doi.org/10.4171/JST/439\">10.4171/JST/439</a>","apa":"Hainzl, C., Roos, B., &#38; Seiringer, R. (2023). Boundary superconductivity in the BCS model. <i>Journal of Spectral Theory</i>. EMS Press. <a href=\"https://doi.org/10.4171/JST/439\">https://doi.org/10.4171/JST/439</a>"},"type":"journal_article","publication_identifier":{"eissn":["1664-0403"],"issn":["1664-039X"]}},{"date_created":"2023-07-12T07:32:58Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"file_date_updated":"2023-07-13T13:26:33Z","language":[{"iso":"eng"}],"external_id":{"pmid":["37010107"],"isi":["000971795800001"]},"department":[{"_id":"JiFr"}],"intvolume":"       192","year":"2023","doi":"10.1093/plphys/kiad207","publisher":"American Society of Plant Biologists","day":"01","acknowledgement":"We thank Dong liu for offering iron staining technique; ZhiChang Chen and Zhenbiao Yang for discussion; Dandan Zheng for earlier attempt; Liwen Jiang and Dingquan Huang for initial tests of the TEM experiment; John C. Sedbrook for a donation of sku5 and pSKU5::SKU5-GFP seeds; Catherine Perrot-Rechenmann and Ke Zhou for the donation of sks1, sks2, and sku5 sks1 seeds; Zengyu Liu and Zhongquan Lin for live-imaging microscopy assistance. We are grateful to Can Peng, and Xixia Li for helping with sample preparation, and taking TEM images, at the Center for Biological Imaging (CBI), Institute of Biophysics, Chinese Academy of Science.","ddc":["575"],"scopus_import":"1","title":"Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots","date_published":"2023-07-01T00:00:00Z","author":[{"first_name":"C","full_name":"Chen, C","last_name":"Chen"},{"first_name":"Y","full_name":"Zhang, Y","last_name":"Zhang"},{"first_name":"J","last_name":"Cai","full_name":"Cai, J"},{"full_name":"Qiu, Y","last_name":"Qiu","first_name":"Y"},{"first_name":"L","last_name":"Li","full_name":"Li, L"},{"last_name":"Gao","full_name":"Gao, C","first_name":"C"},{"first_name":"Y","full_name":"Gao, Y","last_name":"Gao"},{"first_name":"M","last_name":"Ke","full_name":"Ke, M"},{"first_name":"S","full_name":"Wu, S","last_name":"Wu"},{"first_name":"C","full_name":"Wei, C","last_name":"Wei"},{"first_name":"J","last_name":"Chen","full_name":"Chen, J"},{"first_name":"T","full_name":"Xu, T","last_name":"Xu"},{"orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří"},{"first_name":"J","last_name":"Wang","full_name":"Wang, J"},{"last_name":"Li","full_name":"Li, R","first_name":"R"},{"first_name":"D","last_name":"Chao","full_name":"Chao, D"},{"first_name":"B","last_name":"Zhang","full_name":"Zhang, B"},{"first_name":"X","last_name":"Chen","full_name":"Chen, X"},{"first_name":"Z","full_name":"Gao, Z","last_name":"Gao"}],"publication_status":"published","page":"2243-2260","quality_controlled":"1","pmid":1,"file":[{"date_updated":"2023-07-13T13:26:33Z","checksum":"5492e1d18ac3eaf202633d210fa0fb75","success":1,"creator":"cchlebak","relation":"main_file","file_id":"13220","access_level":"open_access","file_name":"2023_PlantPhys_Chen.pdf","content_type":"application/pdf","file_size":2076977,"date_created":"2023-07-13T13:26:33Z"}],"publication":"Plant Physiology","type":"journal_article","publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"article_processing_charge":"No","citation":{"ieee":"C. Chen <i>et al.</i>, “Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots,” <i>Plant Physiology</i>, vol. 192, no. 3. American Society of Plant Biologists, pp. 2243–2260, 2023.","chicago":"Chen, C, Y Zhang, J Cai, Y Qiu, L Li, C Gao, Y Gao, et al. “Multi-Copper Oxidases SKU5 and SKS1 Coordinate Cell Wall Formation Using Apoplastic Redox-Based Reactions in Roots.” <i>Plant Physiology</i>. American Society of Plant Biologists, 2023. <a href=\"https://doi.org/10.1093/plphys/kiad207\">https://doi.org/10.1093/plphys/kiad207</a>.","mla":"Chen, C., et al. “Multi-Copper Oxidases SKU5 and SKS1 Coordinate Cell Wall Formation Using Apoplastic Redox-Based Reactions in Roots.” <i>Plant Physiology</i>, vol. 192, no. 3, American Society of Plant Biologists, 2023, pp. 2243–60, doi:<a href=\"https://doi.org/10.1093/plphys/kiad207\">10.1093/plphys/kiad207</a>.","short":"C. Chen, Y. Zhang, J. Cai, Y. Qiu, L. Li, C. Gao, Y. Gao, M. Ke, S. Wu, C. Wei, J. Chen, T. Xu, J. Friml, J. Wang, R. Li, D. Chao, B. Zhang, X. Chen, Z. Gao, Plant Physiology 192 (2023) 2243–2260.","ista":"Chen C, Zhang Y, Cai J, Qiu Y, Li L, Gao C, Gao Y, Ke M, Wu S, Wei C, Chen J, Xu T, Friml J, Wang J, Li R, Chao D, Zhang B, Chen X, Gao Z. 2023. Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots. Plant Physiology. 192(3), 2243–2260.","apa":"Chen, C., Zhang, Y., Cai, J., Qiu, Y., Li, L., Gao, C., … Gao, Z. (2023). Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots. <i>Plant Physiology</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1093/plphys/kiad207\">https://doi.org/10.1093/plphys/kiad207</a>","ama":"Chen C, Zhang Y, Cai J, et al. Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots. <i>Plant Physiology</i>. 2023;192(3):2243-2260. doi:<a href=\"https://doi.org/10.1093/plphys/kiad207\">10.1093/plphys/kiad207</a>"},"_id":"13213","status":"public","article_type":"original","month":"07","abstract":[{"lang":"eng","text":"The primary cell wall is a fundamental plant constituent that is flexible but sufficiently rigid to support the plant cell shape. Although many studies have demonstrated that reactive oxygen species (ROS) serve as important signaling messengers to modify the cell wall structure and affect cellular growth, the regulatory mechanism underlying the spatial-temporal regulation of ROS activity for cell wall maintenance remains largely unclear. Here, we demonstrate the role of the Arabidopsis (Arabidopsis thaliana) multicopper oxidase-like protein skewed 5 (SKU5) and its homolog SKU5-similar 1 (SKS1) in root cell wall formation through modulating ROS homeostasis. Loss of SKU5 and SKS1 function resulted in aberrant division planes, protruding cell walls, ectopic deposition of iron, and reduced nicotinamide adeninedinucleotide phosphate (NADPH) oxidase-dependent ROS overproduction in the root epidermis–cortex and cortex–endodermis junctions. A decrease in ROS level or inhibition of NADPH oxidase activity rescued the cell wall defects of sku5 sks1 double mutants. SKU5 and SKS1 proteins were activated by iron treatment, and iron over-accumulated in the walls between the root epidermis and cortex cell layers of sku5 sks1. The glycosylphosphatidylinositol-anchored motif was crucial for membrane association and functionality of SKU5 and SKS1. Overall, our results identified SKU5 and SKS1 as regulators of ROS at the cell surface for regulation of cell wall structure and root cell growth."}],"volume":192,"date_updated":"2024-10-21T06:01:27Z","issue":"3","has_accepted_license":"1","oa_version":"Published Version","isi":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"}},{"corr_author":"1","language":[{"iso":"eng"}],"external_id":{"pmid":["37371083"],"isi":["001017033600001"]},"oa":1,"file_date_updated":"2023-07-12T10:01:54Z","date_created":"2023-07-12T07:41:25Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"EvBe"}],"year":"2023","intvolume":"        12","project":[{"grant_number":"26130","_id":"62883ed7-2b32-11ec-9570-93580204e56b","name":"Functional asymmetry of medial habenula outputs in mice"}],"day":"13","publisher":"MDPI","doi":"10.3390/cells12121613","scopus_import":"1","ddc":["570"],"acknowledgement":"This work was supported by the Austrian Academy of Sciences ÖAW: Doc fellowship (26130) to Stefan Riegler.","article_number":"1613","date_published":"2023-06-13T00:00:00Z","author":[{"last_name":"Abualia","full_name":"Abualia, R","first_name":"R"},{"orcid":"0000-0003-3413-1343","last_name":"Riegler","full_name":"Riegler, Stefan","id":"FF6018E0-D806-11E9-8E43-0B14E6697425","first_name":"Stefan"},{"first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Benková, Eva","last_name":"Benková","orcid":"0000-0002-8510-9739"}],"title":"Nitrate, auxin and cytokinin - a trio to tango","file":[{"date_updated":"2023-07-12T10:01:54Z","creator":"alisjak","success":1,"relation":"main_file","checksum":"6dc9df5f4f59fc27c509c275060354a5","access_level":"open_access","content_type":"application/pdf","file_name":"2023_cells_Abualia.pdf","file_id":"13218","date_created":"2023-07-12T10:01:54Z","file_size":1066802}],"publication":"Cells","quality_controlled":"1","pmid":1,"publication_status":"published","status":"public","_id":"13214","article_processing_charge":"Yes","citation":{"apa":"Abualia, R., Riegler, S., &#38; Benková, E. (2023). Nitrate, auxin and cytokinin - a trio to tango. <i>Cells</i>. MDPI. <a href=\"https://doi.org/10.3390/cells12121613\">https://doi.org/10.3390/cells12121613</a>","ama":"Abualia R, Riegler S, Benková E. Nitrate, auxin and cytokinin - a trio to tango. <i>Cells</i>. 2023;12(12). doi:<a href=\"https://doi.org/10.3390/cells12121613\">10.3390/cells12121613</a>","mla":"Abualia, R., et al. “Nitrate, Auxin and Cytokinin - a Trio to Tango.” <i>Cells</i>, vol. 12, no. 12, 1613, MDPI, 2023, doi:<a href=\"https://doi.org/10.3390/cells12121613\">10.3390/cells12121613</a>.","ieee":"R. Abualia, S. Riegler, and E. Benková, “Nitrate, auxin and cytokinin - a trio to tango,” <i>Cells</i>, vol. 12, no. 12. MDPI, 2023.","chicago":"Abualia, R, Stefan Riegler, and Eva Benková. “Nitrate, Auxin and Cytokinin - a Trio to Tango.” <i>Cells</i>. MDPI, 2023. <a href=\"https://doi.org/10.3390/cells12121613\">https://doi.org/10.3390/cells12121613</a>.","ista":"Abualia R, Riegler S, Benková E. 2023. Nitrate, auxin and cytokinin - a trio to tango. Cells. 12(12), 1613.","short":"R. Abualia, S. Riegler, E. Benková, Cells 12 (2023)."},"type":"journal_article","publication_identifier":{"issn":["2073-4409"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"has_accepted_license":"1","oa_version":"Published Version","isi":1,"month":"06","volume":12,"abstract":[{"lang":"eng","text":"Nitrogen is an important macronutrient required for plant growth and development, thus directly impacting agricultural productivity. In recent years, numerous studies have shown that nitrogen-driven growth depends on pathways that control nitrate/nitrogen homeostasis and hormonal networks that act both locally and systemically to coordinate growth and development of plant organs. In this review, we will focus on recent advances in understanding the role of the plant hormones auxin and cytokinin and their crosstalk in nitrate-regulated growth and discuss the significance of novel findings and possible missing links."}],"date_updated":"2025-04-15T06:27:18Z","issue":"12","article_type":"review"},{"language":[{"iso":"eng"}],"external_id":{"isi":["001024369000001"],"arxiv":["2106.13185"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2023-07-16T22:01:08Z","oa":1,"file_date_updated":"2023-11-14T13:12:12Z","ec_funded":1,"intvolume":"       247","year":"2023","department":[{"_id":"RoSe"}],"project":[{"grant_number":"694227","call_identifier":"H2020","name":"Analysis of quantum many-body systems","_id":"25C6DC12-B435-11E9-9278-68D0E5697425"}],"day":"01","arxiv":1,"doi":"10.1007/s00205-023-01893-6","publisher":"Springer Nature","ddc":["510"],"acknowledgement":"RS was supported by the European Research Council under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 694227). MP acknowledges financial support from the European Research Council under the European Union’s Horizon 2020 research and innovation programme (ERC StG MaMBoQ, Grant Agreement No. 802901). BS acknowledges financial support from the NCCR SwissMAP, from the Swiss National Science Foundation through the Grant “Dynamical and energetic properties of Bose-Einstein condensates” and from the European Research Council through the ERC AdG CLaQS (Grant Agreement No. 834782). NB and MP were supported by Gruppo Nazionale per la Fisica Matematica (GNFM) of Italy. NB was supported by the European Research Council’s Starting Grant FERMIMATH (Grant Agreement No. 101040991).\r\nOpen access funding provided by Università degli Studi di Milano within the CRUI-CARE Agreement.","scopus_import":"1","article_number":"65","date_published":"2023-08-01T00:00:00Z","author":[{"full_name":"Benedikter, Niels P","orcid":"0000-0002-1071-6091","last_name":"Benedikter","first_name":"Niels P","id":"3DE6C32A-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Marcello","full_name":"Porta, Marcello","last_name":"Porta"},{"last_name":"Schlein","full_name":"Schlein, Benjamin","first_name":"Benjamin"},{"full_name":"Seiringer, Robert","last_name":"Seiringer","orcid":"0000-0002-6781-0521","first_name":"Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"}],"title":"Correlation energy of a weakly interacting Fermi gas with large interaction potential","quality_controlled":"1","file":[{"date_created":"2023-11-14T13:12:12Z","file_size":851626,"content_type":"application/pdf","file_id":"14535","file_name":"2023_ArchiveRationalMechAnalysis_Benedikter.pdf","access_level":"open_access","checksum":"2b45828d854a253b14bf7aa196ec55e9","relation":"main_file","success":1,"creator":"dernst","date_updated":"2023-11-14T13:12:12Z"}],"publication":"Archive for Rational Mechanics and Analysis","publication_status":"published","status":"public","_id":"13225","type":"journal_article","publication_identifier":{"issn":["0003-9527"],"eissn":["1432-0673"]},"article_processing_charge":"Yes (via OA deal)","citation":{"mla":"Benedikter, Niels P., et al. “Correlation Energy of a Weakly Interacting Fermi Gas with Large Interaction Potential.” <i>Archive for Rational Mechanics and Analysis</i>, vol. 247, no. 4, 65, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s00205-023-01893-6\">10.1007/s00205-023-01893-6</a>.","chicago":"Benedikter, Niels P, Marcello Porta, Benjamin Schlein, and Robert Seiringer. “Correlation Energy of a Weakly Interacting Fermi Gas with Large Interaction Potential.” <i>Archive for Rational Mechanics and Analysis</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00205-023-01893-6\">https://doi.org/10.1007/s00205-023-01893-6</a>.","ieee":"N. P. Benedikter, M. Porta, B. Schlein, and R. Seiringer, “Correlation energy of a weakly interacting Fermi gas with large interaction potential,” <i>Archive for Rational Mechanics and Analysis</i>, vol. 247, no. 4. Springer Nature, 2023.","ista":"Benedikter NP, Porta M, Schlein B, Seiringer R. 2023. Correlation energy of a weakly interacting Fermi gas with large interaction potential. Archive for Rational Mechanics and Analysis. 247(4), 65.","short":"N.P. Benedikter, M. Porta, B. Schlein, R. Seiringer, Archive for Rational Mechanics and Analysis 247 (2023).","apa":"Benedikter, N. P., Porta, M., Schlein, B., &#38; Seiringer, R. (2023). Correlation energy of a weakly interacting Fermi gas with large interaction potential. <i>Archive for Rational Mechanics and Analysis</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00205-023-01893-6\">https://doi.org/10.1007/s00205-023-01893-6</a>","ama":"Benedikter NP, Porta M, Schlein B, Seiringer R. Correlation energy of a weakly interacting Fermi gas with large interaction potential. <i>Archive for Rational Mechanics and Analysis</i>. 2023;247(4). doi:<a href=\"https://doi.org/10.1007/s00205-023-01893-6\">10.1007/s00205-023-01893-6</a>"},"has_accepted_license":"1","isi":1,"oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"article_type":"original","abstract":[{"lang":"eng","text":"Recently the leading order of the correlation energy of a Fermi gas in a coupled mean-field and semiclassical scaling regime has been derived, under the assumption of an interaction potential with a small norm and with compact support in Fourier space. We generalize this result to large interaction potentials, requiring only |⋅|V^∈ℓ1(Z3). Our proof is based on approximate, collective bosonization in three dimensions. Significant improvements compared to recent work include stronger bounds on non-bosonizable terms and more efficient control on the bosonization of the kinetic energy."}],"month":"08","volume":247,"issue":"4","date_updated":"2025-04-14T07:26:58Z"},{"type":"journal_article","publication_identifier":{"issn":["0377-9017"],"eissn":["1573-0530"]},"article_processing_charge":"Yes (via OA deal)","citation":{"ista":"Bossmann L, Petrat SP. 2023. Weak Edgeworth expansion for the mean-field Bose gas. Letters in Mathematical Physics. 113(4), 77.","short":"L. Bossmann, S.P. Petrat, Letters in Mathematical Physics 113 (2023).","mla":"Bossmann, Lea, and Sören P. Petrat. “Weak Edgeworth Expansion for the Mean-Field Bose Gas.” <i>Letters in Mathematical Physics</i>, vol. 113, no. 4, 77, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s11005-023-01698-4\">10.1007/s11005-023-01698-4</a>.","chicago":"Bossmann, Lea, and Sören P Petrat. “Weak Edgeworth Expansion for the Mean-Field Bose Gas.” <i>Letters in Mathematical Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s11005-023-01698-4\">https://doi.org/10.1007/s11005-023-01698-4</a>.","ieee":"L. Bossmann and S. P. Petrat, “Weak Edgeworth expansion for the mean-field Bose gas,” <i>Letters in Mathematical Physics</i>, vol. 113, no. 4. Springer Nature, 2023.","ama":"Bossmann L, Petrat SP. Weak Edgeworth expansion for the mean-field Bose gas. <i>Letters in Mathematical Physics</i>. 2023;113(4). doi:<a href=\"https://doi.org/10.1007/s11005-023-01698-4\">10.1007/s11005-023-01698-4</a>","apa":"Bossmann, L., &#38; Petrat, S. P. (2023). Weak Edgeworth expansion for the mean-field Bose gas. <i>Letters in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11005-023-01698-4\">https://doi.org/10.1007/s11005-023-01698-4</a>"},"_id":"13226","status":"public","article_type":"original","volume":113,"month":"07","abstract":[{"lang":"eng","text":"We consider the ground state and the low-energy excited states of a system of N identical bosons with interactions in the mean-field scaling regime. For the ground state, we derive a weak Edgeworth expansion for the fluctuations of bounded one-body operators, which yields corrections to a central limit theorem to any order in 1/N−−√. For suitable excited states, we show that the limiting distribution is a polynomial times a normal distribution, and that higher-order corrections are given by an Edgeworth-type expansion."}],"date_updated":"2025-06-25T06:20:15Z","issue":"4","has_accepted_license":"1","oa_version":"Published Version","isi":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"title":"Weak Edgeworth expansion for the mean-field Bose gas","article_number":"77","date_published":"2023-07-03T00:00:00Z","author":[{"last_name":"Bossmann","orcid":"0000-0002-6854-1343","full_name":"Bossmann, Lea","id":"A2E3BCBE-5FCC-11E9-AA4B-76F3E5697425","first_name":"Lea"},{"id":"40AC02DC-F248-11E8-B48F-1D18A9856A87","first_name":"Sören P","orcid":"0000-0002-9166-5889","last_name":"Petrat","full_name":"Petrat, Sören P"}],"publication_status":"published","quality_controlled":"1","file":[{"content_type":"application/pdf","file_id":"19898","access_level":"open_access","file_name":"2023_LettersMathPhysics_Bossmann.pdf","file_size":586698,"date_created":"2025-06-25T06:20:02Z","date_updated":"2025-06-25T06:20:02Z","success":1,"relation":"main_file","checksum":"995c902a989a6769fd3db456cfd41111","creator":"dernst"}],"publication":"Letters in Mathematical Physics","arxiv":1,"doi":"10.1007/s11005-023-01698-4","publisher":"Springer Nature","OA_type":"hybrid","day":"03","acknowledgement":"It is a pleasure to thank Martin Kolb, Simone Rademacher, Robert Seiringer and Stefan Teufel for helpful discussions. Moreover, we thank the referee for many constructive comments. L.B. gratefully acknowledges funding from the German Research Foundation within the Munich Center of Quantum Science and Technology (EXC 2111) and from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411. We thank the Mathematical Research Institute Oberwolfach, where part of this work was done, for their hospitality.\r\nOpen Access funding enabled and organized by Projekt DEAL.","ddc":["510"],"scopus_import":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2023-07-16T22:01:08Z","oa":1,"file_date_updated":"2025-06-25T06:20:02Z","language":[{"iso":"eng"}],"external_id":{"isi":["001022878900002"],"arxiv":["2208.00199"]},"OA_place":"publisher","corr_author":"1","ec_funded":1,"department":[{"_id":"RoSe"}],"intvolume":"       113","year":"2023","project":[{"call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"}]},{"has_accepted_license":"1","oa_version":"Published Version","isi":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"article_type":"original","related_material":{"record":[{"id":"17133","status":"public","relation":"dissertation_contains"}]},"abstract":[{"text":"Currently available quantum processors are dominated by noise, which severely limits their applicability and motivates the search for new physical qubit encodings. In this work, we introduce the inductively shunted transmon, a weakly flux-tunable superconducting qubit that offers charge offset protection for all levels and a 20-fold reduction in flux dispersion compared to the state-of-the-art resulting in a constant coherence over a full flux quantum. The parabolic confinement provided by the inductive shunt as well as the linearity of the geometric superinductor facilitates a high-power readout that resolves quantum jumps with a fidelity and QND-ness of >90% and without the need for a Josephson parametric amplifier. Moreover, the device reveals quantum tunneling physics between the two prepared fluxon ground states with a measured average decay time of up to 3.5 h. In the future, fast time-domain control of the transition matrix elements could offer a new path forward to also achieve full qubit control in the decay-protected fluxon basis.","lang":"eng"}],"month":"07","volume":14,"date_updated":"2026-04-15T06:39:57Z","_id":"13227","status":"public","type":"journal_article","publication_identifier":{"eissn":["2041-1723"]},"article_processing_charge":"No","citation":{"chicago":"Hassani, Farid, Matilda Peruzzo, Lucky Kapoor, Andrea Trioni, Martin Zemlicka, and Johannes M Fink. “Inductively Shunted Transmons Exhibit Noise Insensitive Plasmon States and a Fluxon Decay Exceeding 3 Hours.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-39656-2\">https://doi.org/10.1038/s41467-023-39656-2</a>.","ieee":"F. Hassani, M. Peruzzo, L. Kapoor, A. Trioni, M. Zemlicka, and J. M. Fink, “Inductively shunted transmons exhibit noise insensitive plasmon states and a fluxon decay exceeding 3 hours,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","mla":"Hassani, Farid, et al. “Inductively Shunted Transmons Exhibit Noise Insensitive Plasmon States and a Fluxon Decay Exceeding 3 Hours.” <i>Nature Communications</i>, vol. 14, 3968, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-39656-2\">10.1038/s41467-023-39656-2</a>.","short":"F. Hassani, M. Peruzzo, L. Kapoor, A. Trioni, M. Zemlicka, J.M. Fink, Nature Communications 14 (2023).","ista":"Hassani F, Peruzzo M, Kapoor L, Trioni A, Zemlicka M, Fink JM. 2023. Inductively shunted transmons exhibit noise insensitive plasmon states and a fluxon decay exceeding 3 hours. Nature Communications. 14, 3968.","apa":"Hassani, F., Peruzzo, M., Kapoor, L., Trioni, A., Zemlicka, M., &#38; Fink, J. M. (2023). Inductively shunted transmons exhibit noise insensitive plasmon states and a fluxon decay exceeding 3 hours. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-39656-2\">https://doi.org/10.1038/s41467-023-39656-2</a>","ama":"Hassani F, Peruzzo M, Kapoor L, Trioni A, Zemlicka M, Fink JM. Inductively shunted transmons exhibit noise insensitive plasmon states and a fluxon decay exceeding 3 hours. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-39656-2\">10.1038/s41467-023-39656-2</a>"},"quality_controlled":"1","pmid":1,"publication":"Nature Communications","file":[{"date_updated":"2023-07-18T08:43:07Z","relation":"main_file","creator":"dernst","checksum":"a85773b5fe23516f60f7d5d31b55c200","success":1,"content_type":"application/pdf","file_name":"2023_NatureComm_Hassani.pdf","file_id":"13248","access_level":"open_access","file_size":2899592,"date_created":"2023-07-18T08:43:07Z"}],"publication_status":"published","article_number":"3968","date_published":"2023-07-05T00:00:00Z","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"NanoFab"}],"author":[{"id":"2AED110C-F248-11E8-B48F-1D18A9856A87","first_name":"Farid","last_name":"Hassani","orcid":"0000-0001-6937-5773","full_name":"Hassani, Farid"},{"full_name":"Peruzzo, Matilda","last_name":"Peruzzo","orcid":"0000-0002-3415-4628","first_name":"Matilda","id":"3F920B30-F248-11E8-B48F-1D18A9856A87"},{"id":"84b9700b-15b2-11ec-abd3-831089e67615","first_name":"Lucky","last_name":"Kapoor","orcid":"0000-0001-8319-2148","full_name":"Kapoor, Lucky"},{"id":"42F71B44-F248-11E8-B48F-1D18A9856A87","first_name":"Andrea","last_name":"Trioni","full_name":"Trioni, Andrea"},{"full_name":"Zemlicka, Martin","orcid":"0009-0005-0878-3032","last_name":"Zemlicka","first_name":"Martin","id":"2DCF8DE6-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","full_name":"Fink, Johannes M","orcid":"0000-0001-8112-028X","last_name":"Fink"}],"title":"Inductively shunted transmons exhibit noise insensitive plasmon states and a fluxon decay exceeding 3 hours","acknowledgement":"The authors thank J. Koch for discussions and support with the scQubits python package, I. Rozhansky and A. Poddubny for important insights into photon-assisted tunneling, S. Barzanjeh and G. Arnold for theory, E. Redchenko, S. Pepic, the MIBA workshop and the IST nanofabrication facility for technical contributions, as well as L. Drmic, P. Zielinski and R. Sett for software development. We acknowledge the prompt support of Quantum Machines to implement active state preparation with their OPX+. This work was supported by a NOMIS foundation research grant (J.F.), the Austrian Science Fund (FWF) through BeyondC F7105 (J.F.) and IST Austria.","ddc":["530"],"scopus_import":"1","day":"05","doi":"10.1038/s41467-023-39656-2","publisher":"Springer Nature","intvolume":"        14","year":"2023","department":[{"_id":"JoFi"}],"project":[{"_id":"2622978C-B435-11E9-9278-68D0E5697425","name":"Hybrid Semiconductor - Superconductor Quantum Devices"},{"grant_number":"F07105","name":"QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration of Superconducting Quantum Circuits","_id":"bdb108fd-d553-11ed-ba76-83dc74a9864f"}],"language":[{"iso":"eng"}],"external_id":{"isi":["001024729900009"],"pmid":["37407570"]},"corr_author":"1","date_created":"2023-07-16T22:01:08Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"file_date_updated":"2023-07-18T08:43:07Z"},{"status":"public","_id":"13228","article_processing_charge":"Yes (via OA deal)","citation":{"ieee":"T. A. Henzinger, M. Karimi, K. Kueffner, and K. Mallik, “Runtime monitoring of dynamic fairness properties,” in <i>FAccT ’23: Proceedings of the 2023 ACM Conference on Fairness, Accountability, and Transparency</i>, Chicago, IL, United States, 2023, pp. 604–614.","chicago":"Henzinger, Thomas A, Mahyar Karimi, Konstantin Kueffner, and Kaushik Mallik. “Runtime Monitoring of Dynamic Fairness Properties.” In <i>FAccT ’23: Proceedings of the 2023 ACM Conference on Fairness, Accountability, and Transparency</i>, 604–14. Association for Computing Machinery, 2023. <a href=\"https://doi.org/10.1145/3593013.3594028\">https://doi.org/10.1145/3593013.3594028</a>.","mla":"Henzinger, Thomas A., et al. “Runtime Monitoring of Dynamic Fairness Properties.” <i>FAccT ’23: Proceedings of the 2023 ACM Conference on Fairness, Accountability, and Transparency</i>, Association for Computing Machinery, 2023, pp. 604–14, doi:<a href=\"https://doi.org/10.1145/3593013.3594028\">10.1145/3593013.3594028</a>.","short":"T.A. Henzinger, M. Karimi, K. Kueffner, K. Mallik, in:, FAccT ’23: Proceedings of the 2023 ACM Conference on Fairness, Accountability, and Transparency, Association for Computing Machinery, 2023, pp. 604–614.","ista":"Henzinger TA, Karimi M, Kueffner K, Mallik K. 2023. Runtime monitoring of dynamic fairness properties. FAccT ’23: Proceedings of the 2023 ACM Conference on Fairness, Accountability, and Transparency. FAccT: Conference on Fairness, Accountability and Transparency, 604–614.","apa":"Henzinger, T. A., Karimi, M., Kueffner, K., &#38; Mallik, K. (2023). Runtime monitoring of dynamic fairness properties. In <i>FAccT ’23: Proceedings of the 2023 ACM Conference on Fairness, Accountability, and Transparency</i> (pp. 604–614). Chicago, IL, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3593013.3594028\">https://doi.org/10.1145/3593013.3594028</a>","ama":"Henzinger TA, Karimi M, Kueffner K, Mallik K. Runtime monitoring of dynamic fairness properties. In: <i>FAccT ’23: Proceedings of the 2023 ACM Conference on Fairness, Accountability, and Transparency</i>. Association for Computing Machinery; 2023:604-614. doi:<a href=\"https://doi.org/10.1145/3593013.3594028\">10.1145/3593013.3594028</a>"},"type":"conference","publication_identifier":{"isbn":["9781450372527"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"has_accepted_license":"1","isi":1,"oa_version":"Published Version","month":"06","abstract":[{"text":"A machine-learned system that is fair in static decision-making tasks may have biased societal impacts in the long-run. This may happen when the system interacts with humans and feedback patterns emerge, reinforcing old biases in the system and creating new biases. While existing works try to identify and mitigate long-run biases through smart system design, we introduce techniques for monitoring fairness in real time. Our goal is to build and deploy a monitor that will continuously observe a long sequence of events generated by the system in the wild, and will output, with each event, a verdict on how fair the system is at the current point in time. The advantages of monitoring are two-fold. Firstly, fairness is evaluated at run-time, which is important because unfair behaviors may not be eliminated a priori, at design-time, due to partial knowledge about the system and the environment, as well as uncertainties and dynamic changes in the system and the environment, such as the unpredictability of human behavior. Secondly, monitors are by design oblivious to how the monitored system is constructed, which makes them suitable to be used as trusted third-party fairness watchdogs. They function as computationally lightweight statistical estimators, and their correctness proofs rely on the rigorous analysis of the stochastic process that models the assumptions about the underlying dynamics of the system. We show, both in theory and experiments, how monitors can warn us (1) if a bank’s credit policy over time has created an unfair distribution of credit scores among the population, and (2) if a resource allocator’s allocation policy over time has made unfair allocations. Our experiments demonstrate that the monitors introduce very low overhead. We believe that runtime monitoring is an important and mathematically rigorous new addition to the fairness toolbox.","lang":"eng"}],"date_updated":"2026-01-21T07:23:43Z","date_published":"2023-06-12T00:00:00Z","author":[{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","last_name":"Henzinger","orcid":"0000-0002-2985-7724","full_name":"Henzinger, Thomas A"},{"id":"6e5417ba-5355-11ee-ae5a-94c2e510b26b","first_name":"Mahyar","last_name":"Karimi","orcid":"0009-0005-0820-1696","full_name":"Karimi, Mahyar"},{"first_name":"Konstantin","id":"8121a2d0-dc85-11ea-9058-af578f3b4515","full_name":"Kueffner, Konstantin","orcid":"0000-0001-8974-2542","last_name":"Kueffner"},{"id":"0834ff3c-6d72-11ec-94e0-b5b0a4fb8598","first_name":"Kaushik","orcid":"0000-0001-9864-7475","last_name":"Mallik","full_name":"Mallik, Kaushik"}],"conference":{"end_date":"2023-06-15","name":"FAccT: Conference on Fairness, Accountability and Transparency","start_date":"2023-06-12","location":"Chicago, IL, United States"},"title":"Runtime monitoring of dynamic fairness properties","file":[{"file_size":4100596,"date_created":"2023-07-18T07:43:10Z","content_type":"application/pdf","access_level":"open_access","file_name":"2023_ACM_HenzingerT.pdf","file_id":"13245","checksum":"96c759db9cdf94b81e37871a66a6ff48","relation":"main_file","success":1,"creator":"dernst","date_updated":"2023-07-18T07:43:10Z"}],"publication":"FAccT '23: Proceedings of the 2023 ACM Conference on Fairness, Accountability, and Transparency","quality_controlled":"1","page":"604-614","publication_status":"published","day":"12","publisher":"Association for Computing Machinery","arxiv":1,"doi":"10.1145/3593013.3594028","scopus_import":"1","ddc":["000"],"acknowledgement":"The authors would like to thank the anonymous reviewers for their valuable comments and helpful suggestions. This work is supported by the European Research Council under Grant No.: ERC-2020-AdG 101020093.","corr_author":"1","language":[{"iso":"eng"}],"external_id":{"arxiv":["2305.04699"],"isi":["001062819300057"]},"oa":1,"file_date_updated":"2023-07-18T07:43:10Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2023-07-16T22:01:09Z","year":"2023","department":[{"_id":"ToHe"}],"project":[{"name":"Vigilant Algorithmic Monitoring of Software","_id":"62781420-2b32-11ec-9570-8d9b63373d4d","grant_number":"101020093","call_identifier":"H2020"}],"ec_funded":1},{"page":"e3002146","publication_status":"published","publication":"PLoS Biology","file":[{"relation":"main_file","success":1,"checksum":"8e88cb0e5a6433a2f1939a9030bed384","creator":"dernst","date_updated":"2023-07-18T07:59:58Z","date_created":"2023-07-18T07:59:58Z","file_size":4431723,"access_level":"open_access","content_type":"application/pdf","file_name":"2023_PloSBiology_Shamipour.pdf","file_id":"13246"}],"quality_controlled":"1","pmid":1,"title":"Yolk granule fusion and microtubule aster formation regulate cortical granule translocation and exocytosis in zebrafish oocytes","date_published":"2023-06-08T00:00:00Z","author":[{"last_name":"Shamipour","full_name":"Shamipour, Shayan","id":"40B34FE2-F248-11E8-B48F-1D18A9856A87","first_name":"Shayan"},{"full_name":"Hofmann, Laura","last_name":"Hofmann","first_name":"Laura","id":"b88d43f2-dc74-11ea-a0a7-e41b7912e031"},{"first_name":"Irene","id":"2705C766-9FE2-11EA-B224-C6773DDC885E","full_name":"Steccari, Irene","last_name":"Steccari"},{"full_name":"Kardos, Roland","last_name":"Kardos","first_name":"Roland","id":"4039350E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87","full_name":"Heisenberg, Carl-Philipp J","last_name":"Heisenberg","orcid":"0000-0002-0912-4566"}],"month":"06","volume":21,"abstract":[{"lang":"eng","text":"Dynamic reorganization of the cytoplasm is key to many core cellular processes, such as cell division, cell migration, and cell polarization. Cytoskeletal rearrangements are thought to constitute the main drivers of cytoplasmic flows and reorganization. In contrast, remarkably little is known about how dynamic changes in size and shape of cell organelles affect cytoplasmic organization. Here, we show that within the maturing zebrafish oocyte, the surface localization of exocytosis-competent cortical granules (Cgs) upon germinal vesicle breakdown (GVBD) is achieved by the combined activities of yolk granule (Yg) fusion and microtubule aster formation and translocation. We find that Cgs are moved towards the oocyte surface through radially outward cytoplasmic flows induced by Ygs fusing and compacting towards the oocyte center in response to GVBD. We further show that vesicles decorated with the small Rab GTPase Rab11, a master regulator of vesicular trafficking and exocytosis, accumulate together with Cgs at the oocyte surface. This accumulation is achieved by Rab11-positive vesicles being transported by acentrosomal microtubule asters, the formation of which is induced by the release of CyclinB/Cdk1 upon GVBD, and which display a net movement towards the oocyte surface by preferentially binding to the oocyte actin cortex. We finally demonstrate that the decoration of Cgs by Rab11 at the oocyte surface is needed for Cg exocytosis and subsequent chorion elevation, a process central in egg activation. Collectively, these findings unravel a yet unrecognized role of organelle fusion, functioning together with cytoskeletal rearrangements, in orchestrating cytoplasmic organization during oocyte maturation."}],"issue":"6","date_updated":"2025-04-14T07:46:59Z","article_type":"original","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"has_accepted_license":"1","isi":1,"oa_version":"Published Version","article_processing_charge":"No","citation":{"ieee":"S. Shamipour, L. Hofmann, I. Steccari, R. Kardos, and C.-P. J. Heisenberg, “Yolk granule fusion and microtubule aster formation regulate cortical granule translocation and exocytosis in zebrafish oocytes,” <i>PLoS Biology</i>, vol. 21, no. 6. Public Library of Science, p. e3002146, 2023.","chicago":"Shamipour, Shayan, Laura Hofmann, Irene Steccari, Roland Kardos, and Carl-Philipp J Heisenberg. “Yolk Granule Fusion and Microtubule Aster Formation Regulate Cortical Granule Translocation and Exocytosis in Zebrafish Oocytes.” <i>PLoS Biology</i>. Public Library of Science, 2023. <a href=\"https://doi.org/10.1371/journal.pbio.3002146\">https://doi.org/10.1371/journal.pbio.3002146</a>.","mla":"Shamipour, Shayan, et al. “Yolk Granule Fusion and Microtubule Aster Formation Regulate Cortical Granule Translocation and Exocytosis in Zebrafish Oocytes.” <i>PLoS Biology</i>, vol. 21, no. 6, Public Library of Science, 2023, p. e3002146, doi:<a href=\"https://doi.org/10.1371/journal.pbio.3002146\">10.1371/journal.pbio.3002146</a>.","short":"S. Shamipour, L. Hofmann, I. Steccari, R. Kardos, C.-P.J. Heisenberg, PLoS Biology 21 (2023) e3002146.","ista":"Shamipour S, Hofmann L, Steccari I, Kardos R, Heisenberg C-PJ. 2023. Yolk granule fusion and microtubule aster formation regulate cortical granule translocation and exocytosis in zebrafish oocytes. PLoS Biology. 21(6), e3002146.","apa":"Shamipour, S., Hofmann, L., Steccari, I., Kardos, R., &#38; Heisenberg, C.-P. J. (2023). Yolk granule fusion and microtubule aster formation regulate cortical granule translocation and exocytosis in zebrafish oocytes. <i>PLoS Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pbio.3002146\">https://doi.org/10.1371/journal.pbio.3002146</a>","ama":"Shamipour S, Hofmann L, Steccari I, Kardos R, Heisenberg C-PJ. Yolk granule fusion and microtubule aster formation regulate cortical granule translocation and exocytosis in zebrafish oocytes. <i>PLoS Biology</i>. 2023;21(6):e3002146. doi:<a href=\"https://doi.org/10.1371/journal.pbio.3002146\">10.1371/journal.pbio.3002146</a>"},"type":"journal_article","publication_identifier":{"eissn":["1545-7885"]},"_id":"13229","status":"public","year":"2023","intvolume":"        21","department":[{"_id":"CaHe"}],"project":[{"grant_number":"742573","call_identifier":"H2020","_id":"260F1432-B435-11E9-9278-68D0E5697425","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation"}],"ec_funded":1,"oa":1,"file_date_updated":"2023-07-18T07:59:58Z","date_created":"2023-07-16T22:01:09Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","corr_author":"1","language":[{"iso":"eng"}],"external_id":{"pmid":["37289834"],"isi":["001003199100005"]},"scopus_import":"1","ddc":["570"],"acknowledgement":"This work was supported by funding from the European Union (European Research Council Advanced grant 742573) to C.-P.H. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.","publisher":"Public Library of Science","doi":"10.1371/journal.pbio.3002146","day":"08"},{"publication_status":"published","publication":"PLoS Computational Biology","file":[{"content_type":"application/pdf","file_id":"13247","file_name":"2023_PloSCompBio_Charlton.pdf","access_level":"open_access","file_size":2281868,"date_created":"2023-07-18T08:07:59Z","date_updated":"2023-07-18T08:07:59Z","relation":"main_file","checksum":"800761fa2c647fabd6ad034589bc526e","creator":"dernst","success":1}],"quality_controlled":"1","pmid":1,"title":"Environmental dynamics shape perceptual decision bias","article_number":"e1011104","date_published":"2023-06-08T00:00:00Z","author":[{"full_name":"Charlton, Julie A.","last_name":"Charlton","first_name":"Julie A."},{"id":"358A453A-F248-11E8-B48F-1D18A9856A87","first_name":"Wiktor F","last_name":"Mlynarski","full_name":"Mlynarski, Wiktor F"},{"first_name":"Yoon H.","full_name":"Bai, Yoon H.","last_name":"Bai"},{"full_name":"Hermundstad, Ann M.","last_name":"Hermundstad","first_name":"Ann M."},{"first_name":"Robbe L.T.","last_name":"Goris","full_name":"Goris, Robbe L.T."}],"volume":19,"abstract":[{"text":"To interpret the sensory environment, the brain combines ambiguous sensory measurements with knowledge that reflects context-specific prior experience. But environmental contexts can change abruptly and unpredictably, resulting in uncertainty about the current context. Here we address two questions: how should context-specific prior knowledge optimally guide the interpretation of sensory stimuli in changing environments, and do human decision-making strategies resemble this optimum? We probe these questions with a task in which subjects report the orientation of ambiguous visual stimuli that were drawn from three dynamically switching distributions, representing different environmental contexts. We derive predictions for an ideal Bayesian observer that leverages knowledge about the statistical structure of the task to maximize decision accuracy, including knowledge about the dynamics of the environment. We show that its decisions are biased by the dynamically changing task context. The magnitude of this decision bias depends on the observer’s continually evolving belief about the current context. The model therefore not only predicts that decision bias will grow as the context is indicated more reliably, but also as the stability of the environment increases, and as the number of trials since the last context switch grows. Analysis of human choice data validates all three predictions, suggesting that the brain leverages knowledge of the statistical structure of environmental change when interpreting ambiguous sensory signals.","lang":"eng"}],"month":"06","date_updated":"2023-08-02T06:33:50Z","issue":"6","article_type":"original","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"has_accepted_license":"1","isi":1,"oa_version":"Published Version","article_processing_charge":"No","citation":{"mla":"Charlton, Julie A., et al. “Environmental Dynamics Shape Perceptual Decision Bias.” <i>PLoS Computational Biology</i>, vol. 19, no. 6, e1011104, Public Library of Science, 2023, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1011104\">10.1371/journal.pcbi.1011104</a>.","chicago":"Charlton, Julie A., Wiktor F Mlynarski, Yoon H. Bai, Ann M. Hermundstad, and Robbe L.T. Goris. “Environmental Dynamics Shape Perceptual Decision Bias.” <i>PLoS Computational Biology</i>. Public Library of Science, 2023. <a href=\"https://doi.org/10.1371/journal.pcbi.1011104\">https://doi.org/10.1371/journal.pcbi.1011104</a>.","ieee":"J. A. Charlton, W. F. Mlynarski, Y. H. Bai, A. M. Hermundstad, and R. L. T. Goris, “Environmental dynamics shape perceptual decision bias,” <i>PLoS Computational Biology</i>, vol. 19, no. 6. Public Library of Science, 2023.","ista":"Charlton JA, Mlynarski WF, Bai YH, Hermundstad AM, Goris RLT. 2023. Environmental dynamics shape perceptual decision bias. PLoS Computational Biology. 19(6), e1011104.","short":"J.A. Charlton, W.F. Mlynarski, Y.H. Bai, A.M. Hermundstad, R.L.T. Goris, PLoS Computational Biology 19 (2023).","apa":"Charlton, J. A., Mlynarski, W. F., Bai, Y. H., Hermundstad, A. M., &#38; Goris, R. L. T. (2023). Environmental dynamics shape perceptual decision bias. <i>PLoS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1011104\">https://doi.org/10.1371/journal.pcbi.1011104</a>","ama":"Charlton JA, Mlynarski WF, Bai YH, Hermundstad AM, Goris RLT. Environmental dynamics shape perceptual decision bias. <i>PLoS Computational Biology</i>. 2023;19(6). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1011104\">10.1371/journal.pcbi.1011104</a>"},"type":"journal_article","publication_identifier":{"eissn":["1553-7358"]},"_id":"13230","status":"public","department":[{"_id":"MaJö"}],"year":"2023","intvolume":"        19","oa":1,"file_date_updated":"2023-07-18T08:07:59Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_created":"2023-07-16T22:01:09Z","language":[{"iso":"eng"}],"external_id":{"isi":["001003410200003"],"pmid":["37289753"]},"scopus_import":"1","ddc":["570"],"acknowledgement":"The authors thank Corey Ziemba and Zoe Boundy-Singer for valuable discussion and feedback.","publisher":"Public Library of Science","doi":"10.1371/journal.pcbi.1011104","day":"08"},{"publication_status":"published","publication":"Vaccines","file":[{"relation":"main_file","success":1,"creator":"dernst","checksum":"8f484c0f30f8699c589b1c29a0fd7d7f","date_updated":"2023-07-18T07:25:43Z","file_size":2339746,"date_created":"2023-07-18T07:25:43Z","file_name":"2023_Vaccines_Dormeshkin.pdf","content_type":"application/pdf","file_id":"13244","access_level":"open_access"}],"pmid":1,"quality_controlled":"1","title":"Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein","author":[{"full_name":"Dormeshkin, Dmitri","last_name":"Dormeshkin","first_name":"Dmitri"},{"first_name":"Mikalai","last_name":"Katsin","full_name":"Katsin, Mikalai"},{"first_name":"Maria","full_name":"Stegantseva, Maria","last_name":"Stegantseva"},{"first_name":"Sergey","last_name":"Golenchenko","full_name":"Golenchenko, Sergey"},{"last_name":"Shapira","full_name":"Shapira, Michail","first_name":"Michail"},{"first_name":"Simon","last_name":"Dubovik","full_name":"Dubovik, Simon"},{"first_name":"Dzmitry","full_name":"Lutskovich, Dzmitry","last_name":"Lutskovich"},{"first_name":"Anton","id":"62304f89-eb97-11eb-a6c2-8903dd183976","full_name":"Kavaleuski, Anton","orcid":"0000-0003-2091-526X","last_name":"Kavaleuski"},{"first_name":"Alexander","last_name":"Meleshko","full_name":"Meleshko, Alexander"}],"article_number":"1014","date_published":"2023-06-01T00:00:00Z","date_updated":"2025-04-23T13:01:23Z","issue":"6","month":"06","abstract":[{"lang":"eng","text":"The potential of immune-evasive mutation accumulation in the SARS-CoV-2 virus has led to its rapid spread, causing over 600 million confirmed cases and more than 6.5 million confirmed deaths. The huge demand for the rapid development and deployment of low-cost and effective vaccines against emerging variants has renewed interest in DNA vaccine technology. Here, we report the rapid generation and immunological evaluation of novel DNA vaccine candidates against the Wuhan-Hu-1 and Omicron variants based on the RBD protein fused with the Potato virus X coat protein (PVXCP). The delivery of DNA vaccines using electroporation in a two-dose regimen induced high-antibody titers and profound cellular responses in mice. The antibody titers induced against the Omicron variant of the vaccine were sufficient for effective protection against both Omicron and Wuhan-Hu-1 virus infections. The PVXCP protein in the vaccine construct shifted the immune response to the favorable Th1-like type and provided the oligomerization of RBD-PVXCP protein. Naked DNA delivery by needle-free injection allowed us to achieve antibody titers comparable with mRNA-LNP delivery in rabbits. These data identify the RBD-PVXCP DNA vaccine platform as a promising solution for robust and effective SARS-CoV-2 protection, supporting further translational study."}],"volume":11,"article_type":"original","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"oa_version":"Published Version","isi":1,"has_accepted_license":"1","citation":{"short":"D. Dormeshkin, M. Katsin, M. Stegantseva, S. Golenchenko, M. Shapira, S. Dubovik, D. Lutskovich, A. Kavaleuski, A. Meleshko, Vaccines 11 (2023).","ista":"Dormeshkin D, Katsin M, Stegantseva M, Golenchenko S, Shapira M, Dubovik S, Lutskovich D, Kavaleuski A, Meleshko A. 2023. Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein. Vaccines. 11(6), 1014.","chicago":"Dormeshkin, Dmitri, Mikalai Katsin, Maria Stegantseva, Sergey Golenchenko, Michail Shapira, Simon Dubovik, Dzmitry Lutskovich, Anton Kavaleuski, and Alexander Meleshko. “Design and Immunogenicity of SARS-CoV-2 DNA Vaccine Encoding RBD-PVXCP Fusion Protein.” <i>Vaccines</i>. MDPI, 2023. <a href=\"https://doi.org/10.3390/vaccines11061014\">https://doi.org/10.3390/vaccines11061014</a>.","ieee":"D. Dormeshkin <i>et al.</i>, “Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein,” <i>Vaccines</i>, vol. 11, no. 6. MDPI, 2023.","mla":"Dormeshkin, Dmitri, et al. “Design and Immunogenicity of SARS-CoV-2 DNA Vaccine Encoding RBD-PVXCP Fusion Protein.” <i>Vaccines</i>, vol. 11, no. 6, 1014, MDPI, 2023, doi:<a href=\"https://doi.org/10.3390/vaccines11061014\">10.3390/vaccines11061014</a>.","ama":"Dormeshkin D, Katsin M, Stegantseva M, et al. Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein. <i>Vaccines</i>. 2023;11(6). doi:<a href=\"https://doi.org/10.3390/vaccines11061014\">10.3390/vaccines11061014</a>","apa":"Dormeshkin, D., Katsin, M., Stegantseva, M., Golenchenko, S., Shapira, M., Dubovik, S., … Meleshko, A. (2023). Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein. <i>Vaccines</i>. MDPI. <a href=\"https://doi.org/10.3390/vaccines11061014\">https://doi.org/10.3390/vaccines11061014</a>"},"article_processing_charge":"No","publication_identifier":{"eissn":["2076-393X"]},"type":"journal_article","_id":"13232","status":"public","department":[{"_id":"LeSa"}],"year":"2023","intvolume":"        11","file_date_updated":"2023-07-18T07:25:43Z","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2023-07-16T22:01:10Z","external_id":{"isi":["001017740000001"],"pmid":["37376403"]},"language":[{"iso":"eng"}],"scopus_import":"1","ddc":["570"],"acknowledgement":"The authors declare that this study received funding from Immunofusion. The funder was not involved in the study design, collection, analysis, interpretation of data, the writing of this article, or the decision to submit it for publication. The authors express their gratitude to the Institute of Physiology of the National Academy of Sciences of Belarus for providing assistance in keeping laboratory animals.","publisher":"MDPI","doi":"10.3390/vaccines11061014","day":"01"},{"day":"01","doi":"10.1007/s10009-023-00711-4","arxiv":1,"publisher":"Springer Nature","ddc":["000"],"acknowledgement":"This work was supported in part by the ERC-2020-AdG 101020093, by DIREC - Digital Research Centre Denmark, and by the Villum Investigator Grant S4OS.","scopus_import":"1","external_id":{"isi":["001020160000001"],"arxiv":["2009.06429"]},"language":[{"iso":"eng"}],"corr_author":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2023-07-16T22:01:11Z","file_date_updated":"2024-01-30T12:06:07Z","oa":1,"ec_funded":1,"project":[{"_id":"62781420-2b32-11ec-9570-8d9b63373d4d","name":"Vigilant Algorithmic Monitoring of Software","call_identifier":"H2020","grant_number":"101020093"}],"intvolume":"        25","year":"2023","department":[{"_id":"ToHe"}],"status":"public","_id":"13234","publication_identifier":{"eissn":["1433-2787"],"issn":["1433-2779"]},"type":"journal_article","citation":{"chicago":"Kueffner, Konstantin, Anna Lukina, Christian Schilling, and Thomas A Henzinger. “Into the Unknown: Active Monitoring of Neural Networks (Extended Version).” <i>International Journal on Software Tools for Technology Transfer</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s10009-023-00711-4\">https://doi.org/10.1007/s10009-023-00711-4</a>.","ieee":"K. Kueffner, A. Lukina, C. Schilling, and T. A. Henzinger, “Into the unknown: Active monitoring of neural networks (extended version),” <i>International Journal on Software Tools for Technology Transfer</i>, vol. 25. Springer Nature, pp. 575–592, 2023.","mla":"Kueffner, Konstantin, et al. “Into the Unknown: Active Monitoring of Neural Networks (Extended Version).” <i>International Journal on Software Tools for Technology Transfer</i>, vol. 25, Springer Nature, 2023, pp. 575–92, doi:<a href=\"https://doi.org/10.1007/s10009-023-00711-4\">10.1007/s10009-023-00711-4</a>.","short":"K. Kueffner, A. Lukina, C. Schilling, T.A. Henzinger, International Journal on Software Tools for Technology Transfer 25 (2023) 575–592.","ista":"Kueffner K, Lukina A, Schilling C, Henzinger TA. 2023. Into the unknown: Active monitoring of neural networks (extended version). International Journal on Software Tools for Technology Transfer. 25, 575–592.","apa":"Kueffner, K., Lukina, A., Schilling, C., &#38; Henzinger, T. A. (2023). Into the unknown: Active monitoring of neural networks (extended version). <i>International Journal on Software Tools for Technology Transfer</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10009-023-00711-4\">https://doi.org/10.1007/s10009-023-00711-4</a>","ama":"Kueffner K, Lukina A, Schilling C, Henzinger TA. Into the unknown: Active monitoring of neural networks (extended version). <i>International Journal on Software Tools for Technology Transfer</i>. 2023;25:575-592. doi:<a href=\"https://doi.org/10.1007/s10009-023-00711-4\">10.1007/s10009-023-00711-4</a>"},"article_processing_charge":"Yes (in subscription journal)","oa_version":"Published Version","isi":1,"has_accepted_license":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"related_material":{"record":[{"relation":"shorter_version","status":"public","id":"10206"}]},"article_type":"original","date_updated":"2025-04-15T06:55:00Z","month":"08","abstract":[{"text":"Neural-network classifiers achieve high accuracy when predicting the class of an input that they were trained to identify. Maintaining this accuracy in dynamic environments, where inputs frequently fall outside the fixed set of initially known classes, remains a challenge. We consider the problem of monitoring the classification decisions of neural networks in the presence of novel classes. For this purpose, we generalize our recently proposed abstraction-based monitor from binary output to real-valued quantitative output. This quantitative output enables new applications, two of which we investigate in the paper. As our first application, we introduce an algorithmic framework for active monitoring of a neural network, which allows us to learn new classes dynamically and yet maintain high monitoring performance. As our second application, we present an offline procedure to retrain the neural network to improve the monitor’s detection performance without deteriorating the network’s classification accuracy. Our experimental evaluation demonstrates both the benefits of our active monitoring framework in dynamic scenarios and the effectiveness of the retraining procedure.","lang":"eng"}],"volume":25,"author":[{"first_name":"Konstantin","id":"8121a2d0-dc85-11ea-9058-af578f3b4515","full_name":"Kueffner, Konstantin","orcid":"0000-0001-8974-2542","last_name":"Kueffner"},{"full_name":"Lukina, Anna","last_name":"Lukina","first_name":"Anna","id":"CBA4D1A8-0FE8-11E9-BDE6-07BFE5697425"},{"first_name":"Christian","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87","full_name":"Schilling, Christian","orcid":"0000-0003-3658-1065","last_name":"Schilling"},{"full_name":"Henzinger, Thomas A","last_name":"Henzinger","orcid":"0000-0002-2985-7724","first_name":"Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2023-08-01T00:00:00Z","title":"Into the unknown: Active monitoring of neural networks (extended version)","quality_controlled":"1","file":[{"file_name":"2023_JourSoftwareTools_Kueffner.pdf","content_type":"application/pdf","file_id":"14903","access_level":"open_access","date_created":"2024-01-30T12:06:07Z","file_size":13387667,"date_updated":"2024-01-30T12:06:07Z","creator":"dernst","relation":"main_file","success":1,"checksum":"3c4b347f39412a76872f9a6f30101f94"}],"publication":"International Journal on Software Tools for Technology Transfer","page":"575-592","publication_status":"published"},{"title":"Surface chemistry and band engineering in AgSbSe₂: Toward high thermoelectric performance","date_published":"2023-06-13T00:00:00Z","author":[{"orcid":"0000-0001-7313-6740","last_name":"Liu","full_name":"Liu, Yu","id":"2A70014E-F248-11E8-B48F-1D18A9856A87","first_name":"Yu"},{"last_name":"Li","full_name":"Li, Mingquan","first_name":"Mingquan"},{"full_name":"Wan, Shanhong","last_name":"Wan","first_name":"Shanhong"},{"last_name":"Lim","full_name":"Lim, Khak Ho","first_name":"Khak Ho"},{"full_name":"Zhang, Yu","last_name":"Zhang","first_name":"Yu"},{"full_name":"Li, Mengyao","last_name":"Li","first_name":"Mengyao"},{"full_name":"Li, Junshan","last_name":"Li","first_name":"Junshan"},{"orcid":"0000-0001-5013-2843","last_name":"Ibáñez","full_name":"Ibáñez, Maria","id":"43C61214-F248-11E8-B48F-1D18A9856A87","first_name":"Maria"},{"first_name":"Min","full_name":"Hong, Min","last_name":"Hong"},{"full_name":"Cabot, Andreu","last_name":"Cabot","first_name":"Andreu"}],"publication_status":"published","page":"11923–11934","quality_controlled":"1","pmid":1,"publication":"ACS Nano","type":"journal_article","publication_identifier":{"eissn":["1936-086X"],"issn":["1936-0851"]},"article_processing_charge":"No","citation":{"ama":"Liu Y, Li M, Wan S, et al. Surface chemistry and band engineering in AgSbSe₂: Toward high thermoelectric performance. <i>ACS Nano</i>. 2023;17(12):11923–11934. doi:<a href=\"https://doi.org/10.1021/acsnano.3c03541\">10.1021/acsnano.3c03541</a>","apa":"Liu, Y., Li, M., Wan, S., Lim, K. H., Zhang, Y., Li, M., … Cabot, A. (2023). Surface chemistry and band engineering in AgSbSe₂: Toward high thermoelectric performance. <i>ACS Nano</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsnano.3c03541\">https://doi.org/10.1021/acsnano.3c03541</a>","short":"Y. Liu, M. Li, S. Wan, K.H. Lim, Y. Zhang, M. Li, J. Li, M. Ibáñez, M. Hong, A. Cabot, ACS Nano 17 (2023) 11923–11934.","ista":"Liu Y, Li M, Wan S, Lim KH, Zhang Y, Li M, Li J, Ibáñez M, Hong M, Cabot A. 2023. Surface chemistry and band engineering in AgSbSe₂: Toward high thermoelectric performance. ACS Nano. 17(12), 11923–11934.","ieee":"Y. Liu <i>et al.</i>, “Surface chemistry and band engineering in AgSbSe₂: Toward high thermoelectric performance,” <i>ACS Nano</i>, vol. 17, no. 12. American Chemical Society, pp. 11923–11934, 2023.","chicago":"Liu, Yu, Mingquan Li, Shanhong Wan, Khak Ho Lim, Yu Zhang, Mengyao Li, Junshan Li, Maria Ibáñez, Min Hong, and Andreu Cabot. “Surface Chemistry and Band Engineering in AgSbSe₂: Toward High Thermoelectric Performance.” <i>ACS Nano</i>. American Chemical Society, 2023. <a href=\"https://doi.org/10.1021/acsnano.3c03541\">https://doi.org/10.1021/acsnano.3c03541</a>.","mla":"Liu, Yu, et al. “Surface Chemistry and Band Engineering in AgSbSe₂: Toward High Thermoelectric Performance.” <i>ACS Nano</i>, vol. 17, no. 12, American Chemical Society, 2023, pp. 11923–11934, doi:<a href=\"https://doi.org/10.1021/acsnano.3c03541\">10.1021/acsnano.3c03541</a>."},"_id":"13235","status":"public","article_type":"original","abstract":[{"lang":"eng","text":"AgSbSe2 is a promising thermoelectric (TE) p-type material for applications in the middle-temperature range. AgSbSe2 is characterized by relatively low thermal conductivities and high Seebeck coefficients, but its main limitation is moderate electrical conductivity. Herein, we detail an efficient and scalable hot-injection synthesis route to produce AgSbSe2 nanocrystals (NCs). To increase the carrier concentration and improve the electrical conductivity, these NCs are doped with Sn2+ on Sb3+ sites. Upon processing, the Sn2+ chemical state is conserved using a reducing NaBH4 solution to displace the organic ligand and anneal the material under a forming gas flow. The TE properties of the dense materials obtained from the consolidation of the NCs using a hot pressing are then characterized. The presence of Sn2+ ions replacing Sb3+ significantly increases the charge carrier concentration and, consequently, the electrical conductivity. Opportunely, the measured Seebeck coefficient varied within a small range upon Sn doping. The excellent performance obtained when Sn2+ ions are prevented from oxidation is rationalized by modeling the system. Calculated band structures disclosed that Sn doping induces convergence of the AgSbSe2 valence bands, accounting for an enhanced electronic effective mass. The dramatically enhanced carrier transport leads to a maximized power factor for AgSb0.98Sn0.02Se2 of 0.63 mW m–1 K–2 at 640 K. Thermally, phonon scattering is significantly enhanced in the NC-based materials, yielding an ultralow thermal conductivity of 0.3 W mK–1 at 666 K. Overall, a record-high figure of merit (zT) is obtained at 666 K for AgSb0.98Sn0.02Se2 at zT = 1.37, well above the values obtained for undoped AgSbSe2, at zT = 0.58 and state-of-art Pb- and Te-free materials, which makes AgSb0.98Sn0.02Se2 an excellent p-type candidate for medium-temperature TE applications."}],"month":"06","volume":17,"issue":"12","date_updated":"2025-04-15T06:36:40Z","isi":1,"oa_version":"None","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_created":"2023-07-16T22:01:11Z","language":[{"iso":"eng"}],"external_id":{"pmid":["37310395"],"isi":["001008564800001"]},"department":[{"_id":"MaIb"}],"intvolume":"        17","year":"2023","project":[{"name":"HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery","_id":"9B8F7476-BA93-11EA-9121-9846C619BF3A"}],"doi":"10.1021/acsnano.3c03541","publisher":"American Chemical Society","day":"13","acknowledgement":"Y.L. acknowledges funding from the National Natural Science Foundation of China (NSFC) (Grants No. 22209034), the Innovation and Entrepreneurship Project of Overseas Returnees in Anhui Province (Grant No. 2022LCX002). K.H.L. acknowledges financial support from the National Natural Science Foundation of China (Grant No. 22208293). Y.Z. acknowledges support from the SBIR program NanoOhmics. J.L. is grateful for the project supported by the Natural Science Foundation of Sichuan (2022NSFSC1229). M.I. acknowledges financial support from ISTA and the Werner Siemens Foundation.","scopus_import":"1"}]