[{"type":"journal_article","related_material":{"link":[{"url":"https://doi.org/10.1038/s41467-022-31310-7","relation":"erratum"}]},"abstract":[{"text":"Breakdown of vascular barriers is a major complication of inflammatory diseases. Anucleate platelets form blood-clots during thrombosis, but also play a crucial role in inflammation. While spatio-temporal dynamics of clot formation are well characterized, the cell-biological mechanisms of platelet recruitment to inflammatory micro-environments remain incompletely understood. Here we identify Arp2/3-dependent lamellipodia formation as a prominent morphological feature of immune-responsive platelets. Platelets use lamellipodia to scan for fibrin(ogen) deposited on the inflamed vasculature and to directionally spread, to polarize and to govern haptotactic migration along gradients of the adhesive ligand. Platelet-specific abrogation of Arp2/3 interferes with haptotactic repositioning of platelets to microlesions, thus impairing vascular sealing and provoking inflammatory microbleeding. During infection, haptotaxis promotes capture of bacteria and prevents hematogenic dissemination, rendering platelets gate-keepers of the inflamed microvasculature. Consequently, these findings identify haptotaxis as a key effector function of immune-responsive platelets.","lang":"eng"}],"intvolume":"        11","isi":1,"month":"11","status":"public","publication_status":"published","doi":"10.1038/s41467-020-19515-0","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa_version":"Published Version","language":[{"iso":"eng"}],"article_type":"original","title":"Vascular surveillance by haptotactic blood platelets in inflammation and infection","date_updated":"2026-04-02T11:48:21Z","day":"13","date_published":"2020-11-13T00:00:00Z","file_date_updated":"2020-11-23T13:29:49Z","author":[{"first_name":"Leo","full_name":"Nicolai, Leo","last_name":"Nicolai"},{"full_name":"Schiefelbein, Karin","first_name":"Karin","last_name":"Schiefelbein"},{"last_name":"Lipsky","first_name":"Silvia","full_name":"Lipsky, Silvia"},{"last_name":"Leunig","full_name":"Leunig, Alexander","first_name":"Alexander"},{"last_name":"Hoffknecht","first_name":"Marie","full_name":"Hoffknecht, Marie"},{"last_name":"Pekayvaz","full_name":"Pekayvaz, Kami","first_name":"Kami"},{"first_name":"Ben","full_name":"Raude, Ben","last_name":"Raude"},{"last_name":"Marx","first_name":"Charlotte","full_name":"Marx, Charlotte"},{"last_name":"Ehrlich","first_name":"Andreas","full_name":"Ehrlich, Andreas"},{"last_name":"Pircher","first_name":"Joachim","full_name":"Pircher, Joachim"},{"first_name":"Zhe","full_name":"Zhang, Zhe","last_name":"Zhang"},{"first_name":"Inas","full_name":"Saleh, Inas","last_name":"Saleh"},{"last_name":"Marel","first_name":"Anna-Kristina","full_name":"Marel, Anna-Kristina"},{"last_name":"Löf","first_name":"Achim","full_name":"Löf, Achim"},{"last_name":"Petzold","first_name":"Tobias","full_name":"Petzold, Tobias"},{"full_name":"Lorenz, Michael","first_name":"Michael","last_name":"Lorenz"},{"full_name":"Stark, Konstantin","first_name":"Konstantin","last_name":"Stark"},{"full_name":"Pick, Robert","first_name":"Robert","last_name":"Pick"},{"full_name":"Rosenberger, Gerhild","first_name":"Gerhild","last_name":"Rosenberger"},{"first_name":"Ludwig","full_name":"Weckbach, Ludwig","last_name":"Weckbach"},{"last_name":"Uhl","first_name":"Bernd","full_name":"Uhl, Bernd"},{"last_name":"Xia","full_name":"Xia, Sheng","first_name":"Sheng"},{"last_name":"Reichel","full_name":"Reichel, Christoph Andreas","first_name":"Christoph Andreas"},{"full_name":"Walzog, Barbara","first_name":"Barbara","last_name":"Walzog"},{"first_name":"Christian","full_name":"Schulz, Christian","last_name":"Schulz"},{"last_name":"Zheden","id":"39C5A68A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9438-4783","first_name":"Vanessa","full_name":"Zheden, Vanessa"},{"last_name":"Bender","full_name":"Bender, Markus","first_name":"Markus"},{"full_name":"Li, Rong","first_name":"Rong","last_name":"Li"},{"last_name":"Massberg","first_name":"Steffen","full_name":"Massberg, Steffen"},{"last_name":"Gärtner","id":"397A88EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6120-3723","full_name":"Gärtner, Florian R","first_name":"Florian R"}],"ec_funded":1,"has_accepted_license":"1","scopus_import":"1","_id":"8787","article_number":"5778","publication":"Nature Communications","corr_author":"1","ddc":["570"],"date_created":"2020-11-22T23:01:23Z","publication_identifier":{"eissn":["2041-1723"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","year":"2020","acknowledgement":"We thank Sebastian Helmer, Nicole Blount, Christine Mann, and Beate Jantz for technical assistance; Hellen Ishikawa-Ankerhold for help and advice; Michael Sixt for critical\r\ndiscussions. This study was supported by the DFG SFB 914 (S.M. [B02 and Z01], K.Sch.\r\n[B02], B.W. [A02 and Z03], C.A.R. [B03], C.S. [A10], J.P. [Gerok position]), the DFG\r\nSFB 1123 (S.M. [B06]), the DFG FOR 2033 (S.M. and F.G.), the German Center for\r\nCardiovascular Research (DZHK) (Clinician Scientist Program [L.N.], MHA 1.4VD\r\n[S.M.], Postdoc Start-up Grant, 81×3600213 [F.G.]), FP7 program (project 260309,\r\nPRESTIGE [S.M.]), FöFoLe project 1015/1009 (L.N.), FöFoLe project 947 (F.G.), the\r\nFriedrich-Baur-Stiftung project 41/16 (F.G.), and LMUexcellence NFF (F.G.). This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement no.\r\n833440) (S.M.). F.G. received funding from the European Union’s Horizon 2020 research\r\nand innovation program under the Marie Skłodowska-Curie grant agreement no.\r\n747687.","pmid":1,"external_id":{"isi":["000594648000014"],"pmid":["33188196"]},"quality_controlled":"1","article_processing_charge":"No","file":[{"access_level":"open_access","content_type":"application/pdf","file_id":"8798","creator":"dernst","relation":"main_file","file_size":7035340,"date_updated":"2020-11-23T13:29:49Z","checksum":"485b7b6cf30198ba0ce126491a28f125","date_created":"2020-11-23T13:29:49Z","file_name":"2020_NatureComm_Nicolai.pdf","success":1}],"license":"https://creativecommons.org/licenses/by/4.0/","publisher":"Springer Nature","department":[{"_id":"MiSi"},{"_id":"EM-Fac"}],"citation":{"ista":"Nicolai L, Schiefelbein K, Lipsky S, Leunig A, Hoffknecht M, Pekayvaz K, Raude B, Marx C, Ehrlich A, Pircher J, Zhang Z, Saleh I, Marel A-K, Löf A, Petzold T, Lorenz M, Stark K, Pick R, Rosenberger G, Weckbach L, Uhl B, Xia S, Reichel CA, Walzog B, Schulz C, Zheden V, Bender M, Li R, Massberg S, Gärtner FR. 2020. Vascular surveillance by haptotactic blood platelets in inflammation and infection. Nature Communications. 11, 5778.","mla":"Nicolai, Leo, et al. “Vascular Surveillance by Haptotactic Blood Platelets in Inflammation and Infection.” <i>Nature Communications</i>, vol. 11, 5778, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41467-020-19515-0\">10.1038/s41467-020-19515-0</a>.","chicago":"Nicolai, Leo, Karin Schiefelbein, Silvia Lipsky, Alexander Leunig, Marie Hoffknecht, Kami Pekayvaz, Ben Raude, et al. “Vascular Surveillance by Haptotactic Blood Platelets in Inflammation and Infection.” <i>Nature Communications</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41467-020-19515-0\">https://doi.org/10.1038/s41467-020-19515-0</a>.","ieee":"L. Nicolai <i>et al.</i>, “Vascular surveillance by haptotactic blood platelets in inflammation and infection,” <i>Nature Communications</i>, vol. 11. Springer Nature, 2020.","apa":"Nicolai, L., Schiefelbein, K., Lipsky, S., Leunig, A., Hoffknecht, M., Pekayvaz, K., … Gärtner, F. R. (2020). Vascular surveillance by haptotactic blood platelets in inflammation and infection. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-020-19515-0\">https://doi.org/10.1038/s41467-020-19515-0</a>","short":"L. Nicolai, K. Schiefelbein, S. Lipsky, A. Leunig, M. Hoffknecht, K. Pekayvaz, B. Raude, C. Marx, A. Ehrlich, J. Pircher, Z. Zhang, I. Saleh, A.-K. Marel, A. Löf, T. Petzold, M. Lorenz, K. Stark, R. Pick, G. Rosenberger, L. Weckbach, B. Uhl, S. Xia, C.A. Reichel, B. Walzog, C. Schulz, V. Zheden, M. Bender, R. Li, S. Massberg, F.R. Gärtner, Nature Communications 11 (2020).","ama":"Nicolai L, Schiefelbein K, Lipsky S, et al. Vascular surveillance by haptotactic blood platelets in inflammation and infection. <i>Nature Communications</i>. 2020;11. doi:<a href=\"https://doi.org/10.1038/s41467-020-19515-0\">10.1038/s41467-020-19515-0</a>"},"oa":1,"volume":11,"project":[{"_id":"260AA4E2-B435-11E9-9278-68D0E5697425","name":"Mechanical Adaptation of Lamellipodial Actin Networks in Migrating Cells","grant_number":"747687","call_identifier":"H2020"}]},{"publication":"Nature Plants","_id":"7600","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"department":[{"_id":"JiFr"}],"publisher":"Springer Nature","page":"556-569","article_processing_charge":"No","quality_controlled":"1","project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"grant_number":"723-2015","name":"Molecular Mechanism underlying Salicylic Acid Regulation of Endocytic Trafficking in Arabidopsis","_id":"256FEF10-B435-11E9-9278-68D0E5697425"}],"oa":1,"volume":6,"citation":{"ista":"Tan S, Zhang X, Kong W, Yang X-L, Molnar G, Vondráková Z, Filepová R, Petrášek J, Friml J, Xue H-W. 2020. The lipid code-dependent phosphoswitch PDK1–D6PK activates PIN-mediated auxin efflux in Arabidopsis. Nature Plants. 6, 556–569.","mla":"Tan, Shutang, et al. “The Lipid Code-Dependent Phosphoswitch PDK1–D6PK Activates PIN-Mediated Auxin Efflux in Arabidopsis.” <i>Nature Plants</i>, vol. 6, Springer Nature, 2020, pp. 556–69, doi:<a href=\"https://doi.org/10.1038/s41477-020-0648-9\">10.1038/s41477-020-0648-9</a>.","chicago":"Tan, Shutang, Xixi Zhang, Wei Kong, Xiao-Li Yang, Gergely Molnar, Zuzana Vondráková, Roberta Filepová, Jan Petrášek, Jiří Friml, and Hong-Wei Xue. “The Lipid Code-Dependent Phosphoswitch PDK1–D6PK Activates PIN-Mediated Auxin Efflux in Arabidopsis.” <i>Nature Plants</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41477-020-0648-9\">https://doi.org/10.1038/s41477-020-0648-9</a>.","apa":"Tan, S., Zhang, X., Kong, W., Yang, X.-L., Molnar, G., Vondráková, Z., … Xue, H.-W. (2020). The lipid code-dependent phosphoswitch PDK1–D6PK activates PIN-mediated auxin efflux in Arabidopsis. <i>Nature Plants</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41477-020-0648-9\">https://doi.org/10.1038/s41477-020-0648-9</a>","ieee":"S. Tan <i>et al.</i>, “The lipid code-dependent phosphoswitch PDK1–D6PK activates PIN-mediated auxin efflux in Arabidopsis,” <i>Nature Plants</i>, vol. 6. Springer Nature, pp. 556–569, 2020.","short":"S. Tan, X. Zhang, W. Kong, X.-L. Yang, G. Molnar, Z. Vondráková, R. Filepová, J. Petrášek, J. Friml, H.-W. Xue, Nature Plants 6 (2020) 556–569.","ama":"Tan S, Zhang X, Kong W, et al. The lipid code-dependent phosphoswitch PDK1–D6PK activates PIN-mediated auxin efflux in Arabidopsis. <i>Nature Plants</i>. 2020;6:556-569. doi:<a href=\"https://doi.org/10.1038/s41477-020-0648-9\">10.1038/s41477-020-0648-9</a>"},"publication_identifier":{"eissn":["2055-0278"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_created":"2020-03-21T16:34:16Z","external_id":{"pmid":["32393881"],"isi":["000531787500006"]},"pmid":1,"year":"2020","oa_version":"Preprint","doi":"10.1038/s41477-020-0648-9","publication_status":"published","language":[{"iso":"eng"}],"related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1038/s41477-020-0719-y"}]},"abstract":[{"lang":"eng","text":"Directional intercellular transport of the phytohormone auxin mediated by PIN FORMED (PIN) efflux carriers plays essential roles in both coordinating patterning processes and integrating multiple external cues by rapidly redirecting auxin fluxes. Multilevel regulations of PIN activity under internal and external cues are complicated; however, the underlying molecular mechanism remains elusive. Here we demonstrate that 3’-Phosphoinositide-Dependent Protein Kinase1 (PDK1), which is conserved in plants and mammals, functions as a molecular hub integrating the upstream lipid signalling and the downstream substrate activity through phosphorylation. Genetic analysis uncovers that loss-of-function Arabidopsis mutant pdk1.1 pdk1.2 exhibits a plethora of abnormalities in organogenesis and growth, due to the defective PIN-dependent auxin transport. Further cellular and biochemical analyses reveal that PDK1 phosphorylates D6 Protein Kinase to facilitate its activity towards PIN proteins. Our studies establish a lipid-dependent phosphorylation cascade connecting membrane composition-based cellular signalling with plant growth and patterning by regulating morphogenetic auxin fluxes."}],"type":"journal_article","status":"public","isi":1,"month":"05","intvolume":"         6","main_file_link":[{"url":"https://doi.org/10.1101/755504","open_access":"1"}],"author":[{"orcid":"0000-0002-0471-8285","full_name":"Tan, Shutang","first_name":"Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","last_name":"Tan"},{"id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","last_name":"Zhang","orcid":"0000-0001-7048-4627","first_name":"Xixi","full_name":"Zhang, Xixi"},{"first_name":"Wei","full_name":"Kong, Wei","last_name":"Kong"},{"full_name":"Yang, Xiao-Li","first_name":"Xiao-Li","last_name":"Yang"},{"last_name":"Molnar","id":"34F1AF46-F248-11E8-B48F-1D18A9856A87","full_name":"Molnar, Gergely","first_name":"Gergely"},{"last_name":"Vondráková","first_name":"Zuzana","full_name":"Vondráková, Zuzana"},{"last_name":"Filepová","first_name":"Roberta","full_name":"Filepová, Roberta"},{"first_name":"Jan","full_name":"Petrášek, Jan","last_name":"Petrášek"},{"last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří"},{"last_name":"Xue","full_name":"Xue, Hong-Wei","first_name":"Hong-Wei"}],"date_published":"2020-05-01T00:00:00Z","scopus_import":"1","ec_funded":1,"title":"The lipid code-dependent phosphoswitch PDK1–D6PK activates PIN-mediated auxin efflux in Arabidopsis","date_updated":"2026-04-02T11:50:26Z","article_type":"original","day":"01"},{"publication_status":"published","oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"doi":"10.1038/s41598-020-62089-6","language":[{"iso":"eng"}],"type":"journal_article","abstract":[{"text":"The posterior parietal cortex (PPC) and frontal motor areas comprise a cortical network supporting goal-directed behaviour, with functions including sensorimotor transformations and decision making. In primates, this network links performed and observed actions via mirror neurons, which fire both when individuals perform an action and when they observe the same action performed by a conspecific. Mirror neurons are believed to be important for social learning, but it is not known whether mirror-like neurons occur in similar networks in other social species, such as rodents, or if they can be measured in such models using paradigms where observers passively view a demonstrator. Therefore, we imaged Ca2+ responses in PPC and secondary motor cortex (M2) while mice performed and observed pellet-reaching and wheel-running tasks, and found that cell populations in both areas robustly encoded several naturalistic behaviours. However, neural responses to the same set of observed actions were absent, although we verified that observer mice were attentive to performers and that PPC neurons responded reliably to visual cues. Statistical modelling also indicated that executed actions outperformed observed actions in predicting neural responses. These results raise the possibility that sensorimotor action recognition in rodents could take place outside of the parieto-frontal circuit, and underscore that detecting socially-driven neural coding depends critically on the species and behavioural paradigm used.","lang":"eng"}],"intvolume":"        10","status":"public","isi":1,"month":"03","file_date_updated":"2020-07-14T12:48:01Z","date_published":"2020-03-27T00:00:00Z","author":[{"last_name":"Tombaz","full_name":"Tombaz, Tuce","first_name":"Tuce"},{"full_name":"Dunn, Benjamin A.","first_name":"Benjamin A.","last_name":"Dunn"},{"first_name":"Karoline","full_name":"Hovde, Karoline","last_name":"Hovde"},{"last_name":"Cubero","id":"850B2E12-9CD4-11E9-837F-E719E6697425","full_name":"Cubero, Ryan J","first_name":"Ryan J","orcid":"0000-0003-0002-1867"},{"last_name":"Mimica","first_name":"Bartul","full_name":"Mimica, Bartul"},{"full_name":"Mamidanna, Pranav","first_name":"Pranav","last_name":"Mamidanna"},{"full_name":"Roudi, Yasser","first_name":"Yasser","last_name":"Roudi"},{"first_name":"Jonathan R.","full_name":"Whitlock, Jonathan R.","last_name":"Whitlock"}],"has_accepted_license":"1","scopus_import":"1","date_updated":"2026-04-02T14:23:52Z","title":"Action representation in the mouse parieto-frontal network","article_type":"original","day":"27","publication":"Scientific reports","ddc":["570"],"_id":"7632","article_number":"5559","article_processing_charge":"No","quality_controlled":"1","department":[{"_id":"SaSi"}],"publisher":"Springer Nature","file":[{"creator":"dernst","file_id":"7644","access_level":"open_access","content_type":"application/pdf","relation":"main_file","date_created":"2020-04-06T10:44:23Z","checksum":"e6cfaaaf7986532132934400038b824a","date_updated":"2020-07-14T12:48:01Z","file_size":2621249,"file_name":"2020_ScientificReports_Tombaz.pdf"}],"volume":10,"oa":1,"citation":{"ista":"Tombaz T, Dunn BA, Hovde K, Cubero RJ, Mimica B, Mamidanna P, Roudi Y, Whitlock JR. 2020. Action representation in the mouse parieto-frontal network. Scientific reports. 10(1), 5559.","chicago":"Tombaz, Tuce, Benjamin A. Dunn, Karoline Hovde, Ryan J Cubero, Bartul Mimica, Pranav Mamidanna, Yasser Roudi, and Jonathan R. Whitlock. “Action Representation in the Mouse Parieto-Frontal Network.” <i>Scientific Reports</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41598-020-62089-6\">https://doi.org/10.1038/s41598-020-62089-6</a>.","mla":"Tombaz, Tuce, et al. “Action Representation in the Mouse Parieto-Frontal Network.” <i>Scientific Reports</i>, vol. 10, no. 1, 5559, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41598-020-62089-6\">10.1038/s41598-020-62089-6</a>.","ieee":"T. Tombaz <i>et al.</i>, “Action representation in the mouse parieto-frontal network,” <i>Scientific reports</i>, vol. 10, no. 1. Springer Nature, 2020.","apa":"Tombaz, T., Dunn, B. A., Hovde, K., Cubero, R. J., Mimica, B., Mamidanna, P., … Whitlock, J. R. (2020). Action representation in the mouse parieto-frontal network. <i>Scientific Reports</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41598-020-62089-6\">https://doi.org/10.1038/s41598-020-62089-6</a>","short":"T. Tombaz, B.A. Dunn, K. Hovde, R.J. Cubero, B. Mimica, P. Mamidanna, Y. Roudi, J.R. Whitlock, Scientific Reports 10 (2020).","ama":"Tombaz T, Dunn BA, Hovde K, et al. Action representation in the mouse parieto-frontal network. <i>Scientific reports</i>. 2020;10(1). doi:<a href=\"https://doi.org/10.1038/s41598-020-62089-6\">10.1038/s41598-020-62089-6</a>"},"issue":"1","date_created":"2020-04-05T22:00:47Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"eissn":["2045-2322"]},"year":"2020","external_id":{"isi":["000560406800007"]}},{"intvolume":"        41","isi":1,"month":"02","status":"public","abstract":[{"lang":"eng","text":"The International Young Physicists' Tournament (IYPT) continued in 2018 in Beijing, China and 2019 in Warsaw, Poland with its 31st and 32nd editions. The IYPT is a modern scientific competition for teams of high school students, also known as the Physics World Cup. It involves long-term theoretical and experimental work focused on solving 17 publicly announced open-ended problems in teams of five. On top of that, teams have to present their solutions in front of other teams and a scientific jury, and get opposed and reviewed by their peers. Here we present a brief information about the competition with a specific focus on one of the IYPT 2018 tasks, the 'Ring Oiler'. This seemingly simple mechanical problem appeared to be of such a complexity that even the dozens of participating teams and jurying scientists were not able to solve all of its subtleties."}],"type":"journal_article","arxiv":1,"language":[{"iso":"eng"}],"publication_status":"published","doi":"10.1088/1361-6404/ab6414","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa_version":"Published Version","day":"24","article_type":"original","title":"The IYPT and the 'Ring Oiler' problem","date_updated":"2026-04-02T14:22:29Z","has_accepted_license":"1","scopus_import":"1","date_published":"2020-02-24T00:00:00Z","file_date_updated":"2020-07-14T12:48:01Z","author":[{"first_name":"Martin","full_name":"Plesch, Martin","last_name":"Plesch"},{"first_name":"Samuel","full_name":"Plesník, Samuel","last_name":"Plesník"},{"id":"D2761128-D73D-11E9-A1BF-BA0DE6697425","last_name":"Ruzickova","first_name":"Natalia","full_name":"Ruzickova, Natalia"}],"article_number":"034001","_id":"7622","ddc":["530"],"publication":"European Journal of Physics","year":"2020","external_id":{"arxiv":["1910.03290"],"isi":["000537425400001"]},"date_created":"2020-03-31T11:25:04Z","publication_identifier":{"eissn":["1361-6404"],"issn":["0143-0807"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","citation":{"short":"M. Plesch, S. Plesník, N. Ruzickova, European Journal of Physics 41 (2020).","ama":"Plesch M, Plesník S, Ruzickova N. The IYPT and the “Ring Oiler” problem. <i>European Journal of Physics</i>. 2020;41(3). doi:<a href=\"https://doi.org/10.1088/1361-6404/ab6414\">10.1088/1361-6404/ab6414</a>","apa":"Plesch, M., Plesník, S., &#38; Ruzickova, N. (2020). The IYPT and the “Ring Oiler” problem. <i>European Journal of Physics</i>. IOP Publishing. <a href=\"https://doi.org/10.1088/1361-6404/ab6414\">https://doi.org/10.1088/1361-6404/ab6414</a>","ieee":"M. Plesch, S. Plesník, and N. Ruzickova, “The IYPT and the ‘Ring Oiler’ problem,” <i>European Journal of Physics</i>, vol. 41, no. 3. IOP Publishing, 2020.","chicago":"Plesch, Martin, Samuel Plesník, and Natalia Ruzickova. “The IYPT and the ‘Ring Oiler’ Problem.” <i>European Journal of Physics</i>. IOP Publishing, 2020. <a href=\"https://doi.org/10.1088/1361-6404/ab6414\">https://doi.org/10.1088/1361-6404/ab6414</a>.","mla":"Plesch, Martin, et al. “The IYPT and the ‘Ring Oiler’ Problem.” <i>European Journal of Physics</i>, vol. 41, no. 3, 034001, IOP Publishing, 2020, doi:<a href=\"https://doi.org/10.1088/1361-6404/ab6414\">10.1088/1361-6404/ab6414</a>.","ista":"Plesch M, Plesník S, Ruzickova N. 2020. The IYPT and the ‘Ring Oiler’ problem. European Journal of Physics. 41(3), 034001."},"oa":1,"volume":41,"issue":"3","quality_controlled":"1","article_processing_charge":"No","publisher":"IOP Publishing","department":[{"_id":"FyKo"}],"file":[{"file_id":"7641","access_level":"open_access","content_type":"application/pdf","creator":"dernst","relation":"main_file","date_created":"2020-04-06T08:53:53Z","checksum":"47dda164e33b6c0c6c3ed14aad298376","file_size":1533672,"date_updated":"2020-07-14T12:48:01Z","file_name":"2020_EuropJourPhysics_Plesch.pdf"}]},{"year":"2020","external_id":{"arxiv":["1908.00587"],"isi":["000552271200011"]},"date_created":"2020-01-26T23:00:35Z","publication_identifier":{"eissn":["2352-7110"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","oa":1,"volume":11,"citation":{"ama":"Lopez Alonso JM, Feldmann D, Rampp M, Vela-Martín A, Shi L, Avila M. nsCouette – A high-performance code for direct numerical simulations of turbulent Taylor–Couette flow. <i>SoftwareX</i>. 2020;11. doi:<a href=\"https://doi.org/10.1016/j.softx.2019.100395\">10.1016/j.softx.2019.100395</a>","short":"J.M. Lopez Alonso, D. Feldmann, M. Rampp, A. Vela-Martín, L. Shi, M. Avila, SoftwareX 11 (2020).","apa":"Lopez Alonso, J. M., Feldmann, D., Rampp, M., Vela-Martín, A., Shi, L., &#38; Avila, M. (2020). nsCouette – A high-performance code for direct numerical simulations of turbulent Taylor–Couette flow. <i>SoftwareX</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.softx.2019.100395\">https://doi.org/10.1016/j.softx.2019.100395</a>","ieee":"J. M. Lopez Alonso, D. Feldmann, M. Rampp, A. Vela-Martín, L. Shi, and M. Avila, “nsCouette – A high-performance code for direct numerical simulations of turbulent Taylor–Couette flow,” <i>SoftwareX</i>, vol. 11. Elsevier, 2020.","chicago":"Lopez Alonso, Jose M, Daniel Feldmann, Markus Rampp, Alberto Vela-Martín, Liang Shi, and Marc Avila. “NsCouette – A High-Performance Code for Direct Numerical Simulations of Turbulent Taylor–Couette Flow.” <i>SoftwareX</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.softx.2019.100395\">https://doi.org/10.1016/j.softx.2019.100395</a>.","mla":"Lopez Alonso, Jose M., et al. “NsCouette – A High-Performance Code for Direct Numerical Simulations of Turbulent Taylor–Couette Flow.” <i>SoftwareX</i>, vol. 11, 100395, Elsevier, 2020, doi:<a href=\"https://doi.org/10.1016/j.softx.2019.100395\">10.1016/j.softx.2019.100395</a>.","ista":"Lopez Alonso JM, Feldmann D, Rampp M, Vela-Martín A, Shi L, Avila M. 2020. nsCouette – A high-performance code for direct numerical simulations of turbulent Taylor–Couette flow. SoftwareX. 11, 100395."},"article_processing_charge":"No","quality_controlled":"1","publisher":"Elsevier","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","department":[{"_id":"BjHo"}],"file":[{"file_size":679707,"date_updated":"2020-07-14T12:47:56Z","checksum":"2af1a1a3cc33557b345145276f221668","date_created":"2020-01-27T07:32:46Z","file_name":"2020_SoftwareX_Lopez.pdf","access_level":"open_access","content_type":"application/pdf","file_id":"7365","creator":"dernst","relation":"main_file"}],"article_number":"100395","_id":"7364","ddc":["000"],"corr_author":"1","publication":"SoftwareX","day":"17","date_updated":"2026-04-02T14:16:50Z","title":"nsCouette – A high-performance code for direct numerical simulations of turbulent Taylor–Couette flow","article_type":"original","has_accepted_license":"1","scopus_import":"1","file_date_updated":"2020-07-14T12:47:56Z","date_published":"2020-01-17T00:00:00Z","author":[{"orcid":"0000-0002-0384-2022","full_name":"Lopez Alonso, Jose M","first_name":"Jose M","last_name":"Lopez Alonso","id":"40770848-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Feldmann","full_name":"Feldmann, Daniel","first_name":"Daniel"},{"last_name":"Rampp","full_name":"Rampp, Markus","first_name":"Markus"},{"full_name":"Vela-Martín, Alberto","first_name":"Alberto","last_name":"Vela-Martín"},{"last_name":"Shi","id":"374A3F1A-F248-11E8-B48F-1D18A9856A87","full_name":"Shi, Liang","first_name":"Liang"},{"first_name":"Marc","full_name":"Avila, Marc","last_name":"Avila"}],"intvolume":"        11","status":"public","month":"01","isi":1,"abstract":[{"text":"We present nsCouette, a highly scalable software tool to solve the Navier–Stokes equations for incompressible fluid flow between differentially heated and independently rotating, concentric cylinders. It is based on a pseudospectral spatial discretization and dynamic time-stepping. It is implemented in modern Fortran with a hybrid MPI-OpenMP parallelization scheme and thus designed to compute turbulent flows at high Reynolds and Rayleigh numbers. An additional GPU implementation (C-CUDA) for intermediate problem sizes and a version for pipe flow (nsPipe) are also provided.","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"arxiv":1,"publication_status":"published","oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)"},"doi":"10.1016/j.softx.2019.100395"},{"date_created":"2020-02-02T23:01:03Z","publication_identifier":{"eissn":["1742-5662"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","acknowledgement":"AK was supported by Grant No. FQXi-RFP-1622 from the FQXi foundation, and Grant No. CHE-1648973 from the U.S.\r\nNational Science Foundation. AK would like to thank the Santa Fe Institute for supporting this research. The authors\r\nthank Jordi Fortuny, Rudolf Hanel, Joshua Garland, and Blai Vidiella for helpful discussions, as well as the anonymous\r\nreviewers for their insightful suggestions. ","year":"2020","external_id":{"isi":["000538369800002"],"pmid":["31964273"],"arxiv":["1903.10693"]},"pmid":1,"article_processing_charge":"No","quality_controlled":"1","department":[{"_id":"EdHa"}],"publisher":"The Royal Society","oa":1,"volume":17,"citation":{"chicago":"Kolchinsky, Artemy, and Bernat Corominas-Murtra. “Decomposing Information into Copying versus Transformation.” <i>Journal of the Royal Society Interface</i>. The Royal Society, 2020. <a href=\"https://doi.org/10.1098/rsif.2019.0623\">https://doi.org/10.1098/rsif.2019.0623</a>.","mla":"Kolchinsky, Artemy, and Bernat Corominas-Murtra. “Decomposing Information into Copying versus Transformation.” <i>Journal of the Royal Society Interface</i>, vol. 17, no. 162, 0623, The Royal Society, 2020, doi:<a href=\"https://doi.org/10.1098/rsif.2019.0623\">10.1098/rsif.2019.0623</a>.","ista":"Kolchinsky A, Corominas-Murtra B. 2020. Decomposing information into copying versus transformation. Journal of the Royal Society Interface. 17(162), 0623.","ama":"Kolchinsky A, Corominas-Murtra B. Decomposing information into copying versus transformation. <i>Journal of the Royal Society Interface</i>. 2020;17(162). doi:<a href=\"https://doi.org/10.1098/rsif.2019.0623\">10.1098/rsif.2019.0623</a>","short":"A. Kolchinsky, B. Corominas-Murtra, Journal of the Royal Society Interface 17 (2020).","apa":"Kolchinsky, A., &#38; Corominas-Murtra, B. (2020). Decomposing information into copying versus transformation. <i>Journal of the Royal Society Interface</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rsif.2019.0623\">https://doi.org/10.1098/rsif.2019.0623</a>","ieee":"A. Kolchinsky and B. Corominas-Murtra, “Decomposing information into copying versus transformation,” <i>Journal of the Royal Society Interface</i>, vol. 17, no. 162. The Royal Society, 2020."},"issue":"162","_id":"7431","article_number":"0623","publication":"Journal of the Royal Society Interface","date_updated":"2026-04-02T14:17:25Z","title":"Decomposing information into copying versus transformation","article_type":"original","day":"29","date_published":"2020-01-29T00:00:00Z","main_file_link":[{"url":"https://arxiv.org/abs/1903.10693","open_access":"1"}],"author":[{"last_name":"Kolchinsky","first_name":"Artemy","full_name":"Kolchinsky, Artemy"},{"last_name":"Corominas-Murtra","id":"43BE2298-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9806-5643","full_name":"Corominas-Murtra, Bernat","first_name":"Bernat"}],"scopus_import":"1","type":"journal_article","abstract":[{"text":"In many real-world systems, information can be transmitted in two qualitatively different ways: by copying or by transformation. Copying occurs when messages are transmitted without modification, e.g. when an offspring receives an unaltered copy of a gene from its parent. Transformation occurs when messages are modified systematically during transmission, e.g. when mutational biases occur during genetic replication. Standard information-theoretic measures do not distinguish these two modes of information transfer, although they may reflect different mechanisms and have different functional consequences. Starting from a few simple axioms, we derive a decomposition of mutual information into the information transmitted by copying versus the information transmitted by transformation. We begin with a decomposition that applies when the source and destination of the channel have the same set of messages and a notion of message identity exists. We then generalize our decomposition to other kinds of channels, which can involve different source and destination sets and broader notions of similarity. In addition, we show that copy information can be interpreted as the minimal work needed by a physical copying process, which is relevant for understanding the physics of replication. We use the proposed decomposition to explore a model of amino acid substitution rates. Our results apply to any system in which the fidelity of copying, rather than simple predictability, is of critical relevance.","lang":"eng"}],"intvolume":"        17","status":"public","month":"01","isi":1,"publication_status":"published","oa_version":"Preprint","doi":"10.1098/rsif.2019.0623","language":[{"iso":"eng"}],"arxiv":1},{"date_created":"2020-04-05T22:00:49Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"issn":["0951-7715"],"eissn":["1361-6544"]},"year":"2020","external_id":{"isi":["000508175400001"],"arxiv":["1811.06448"]},"quality_controlled":"1","article_processing_charge":"No","department":[{"_id":"JuFi"}],"publisher":"IOP Publishing","page":"864-891","citation":{"ista":"Cornalba F, Shardlow T, Zimmer J. 2020. From weakly interacting particles to a regularised Dean-Kawasaki model. Nonlinearity. 33(2), 864–891.","chicago":"Cornalba, Federico, Tony Shardlow, and Johannes Zimmer. “From Weakly Interacting Particles to a Regularised Dean-Kawasaki Model.” <i>Nonlinearity</i>. IOP Publishing, 2020. <a href=\"https://doi.org/10.1088/1361-6544/ab5174\">https://doi.org/10.1088/1361-6544/ab5174</a>.","mla":"Cornalba, Federico, et al. “From Weakly Interacting Particles to a Regularised Dean-Kawasaki Model.” <i>Nonlinearity</i>, vol. 33, no. 2, IOP Publishing, 2020, pp. 864–91, doi:<a href=\"https://doi.org/10.1088/1361-6544/ab5174\">10.1088/1361-6544/ab5174</a>.","ieee":"F. Cornalba, T. Shardlow, and J. Zimmer, “From weakly interacting particles to a regularised Dean-Kawasaki model,” <i>Nonlinearity</i>, vol. 33, no. 2. IOP Publishing, pp. 864–891, 2020.","apa":"Cornalba, F., Shardlow, T., &#38; Zimmer, J. (2020). From weakly interacting particles to a regularised Dean-Kawasaki model. <i>Nonlinearity</i>. IOP Publishing. <a href=\"https://doi.org/10.1088/1361-6544/ab5174\">https://doi.org/10.1088/1361-6544/ab5174</a>","short":"F. Cornalba, T. Shardlow, J. Zimmer, Nonlinearity 33 (2020) 864–891.","ama":"Cornalba F, Shardlow T, Zimmer J. From weakly interacting particles to a regularised Dean-Kawasaki model. <i>Nonlinearity</i>. 2020;33(2):864-891. doi:<a href=\"https://doi.org/10.1088/1361-6544/ab5174\">10.1088/1361-6544/ab5174</a>"},"volume":33,"oa":1,"issue":"2","_id":"7637","publication":"Nonlinearity","article_type":"original","date_updated":"2026-04-02T14:26:08Z","title":"From weakly interacting particles to a regularised Dean-Kawasaki model","day":"10","date_published":"2020-01-10T00:00:00Z","author":[{"first_name":"Federico","full_name":"Cornalba, Federico","orcid":"0000-0002-6269-5149","last_name":"Cornalba","id":"2CEB641C-A400-11E9-A717-D712E6697425"},{"first_name":"Tony","full_name":"Shardlow, Tony","last_name":"Shardlow"},{"last_name":"Zimmer","full_name":"Zimmer, Johannes","first_name":"Johannes"}],"main_file_link":[{"url":"https://arxiv.org/abs/1811.06448","open_access":"1"}],"scopus_import":"1","abstract":[{"text":"The evolution of finitely many particles obeying Langevin dynamics is described by Dean–Kawasaki equations, a class of stochastic equations featuring a non-Lipschitz multiplicative noise in divergence form. We derive a regularised Dean–Kawasaki model based on second order Langevin dynamics by analysing a system of particles interacting via a pairwise potential. Key tools of our analysis are the propagation of chaos and Simon's compactness criterion. The model we obtain is a small-noise stochastic perturbation of the undamped McKean–Vlasov equation. We also provide a high-probability result for existence and uniqueness for our model.","lang":"eng"}],"type":"journal_article","intvolume":"        33","isi":1,"month":"01","status":"public","publication_status":"published","doi":"10.1088/1361-6544/ab5174","oa_version":"Preprint","arxiv":1,"language":[{"iso":"eng"}]},{"publication_identifier":{"eissn":["1756-994X"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_created":"2020-07-19T22:00:58Z","pmid":1,"external_id":{"isi":["000551778400001"],"pmid":["32641083"]},"year":"2020","file":[{"date_created":"2020-07-22T06:27:38Z","file_size":1136983,"date_updated":"2020-07-22T06:27:38Z","success":1,"file_name":"2020_GenomeMedicine_Hillary.pdf","file_id":"8145","content_type":"application/pdf","access_level":"open_access","creator":"dernst","relation":"main_file"}],"publisher":"Springer Nature","department":[{"_id":"MaRo"}],"quality_controlled":"1","article_processing_charge":"No","issue":"1","citation":{"ista":"Hillary RF, Trejo-Banos D, Kousathanas A, Mccartney DL, Harris SE, Stevenson AJ, Patxot M, Ojavee SE, Zhang Q, Liewald DC, Ritchie CW, Evans KL, Tucker-Drob EM, Wray NR, Mcrae AF, Visscher PM, Deary IJ, Robinson MR, Marioni RE. 2020. Multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults. Genome Medicine. 12(1), 60.","mla":"Hillary, Robert F., et al. “Multi-Method Genome- and Epigenome-Wide Studies of Inflammatory Protein Levels in Healthy Older Adults.” <i>Genome Medicine</i>, vol. 12, no. 1, 60, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1186/s13073-020-00754-1\">10.1186/s13073-020-00754-1</a>.","chicago":"Hillary, Robert F., Daniel Trejo-Banos, Athanasios Kousathanas, Daniel L. Mccartney, Sarah E. Harris, Anna J. Stevenson, Marion Patxot, et al. “Multi-Method Genome- and Epigenome-Wide Studies of Inflammatory Protein Levels in Healthy Older Adults.” <i>Genome Medicine</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1186/s13073-020-00754-1\">https://doi.org/10.1186/s13073-020-00754-1</a>.","ieee":"R. F. Hillary <i>et al.</i>, “Multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults,” <i>Genome Medicine</i>, vol. 12, no. 1. Springer Nature, 2020.","apa":"Hillary, R. F., Trejo-Banos, D., Kousathanas, A., Mccartney, D. L., Harris, S. E., Stevenson, A. J., … Marioni, R. E. (2020). Multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults. <i>Genome Medicine</i>. Springer Nature. <a href=\"https://doi.org/10.1186/s13073-020-00754-1\">https://doi.org/10.1186/s13073-020-00754-1</a>","ama":"Hillary RF, Trejo-Banos D, Kousathanas A, et al. Multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults. <i>Genome Medicine</i>. 2020;12(1). doi:<a href=\"https://doi.org/10.1186/s13073-020-00754-1\">10.1186/s13073-020-00754-1</a>","short":"R.F. Hillary, D. Trejo-Banos, A. Kousathanas, D.L. Mccartney, S.E. Harris, A.J. Stevenson, M. Patxot, S.E. Ojavee, Q. Zhang, D.C. Liewald, C.W. Ritchie, K.L. Evans, E.M. Tucker-Drob, N.R. Wray, A.F. Mcrae, P.M. Visscher, I.J. Deary, M.R. Robinson, R.E. Marioni, Genome Medicine 12 (2020)."},"oa":1,"volume":12,"_id":"8133","article_number":"60","publication":"Genome Medicine","corr_author":"1","ddc":["570"],"article_type":"original","date_updated":"2026-04-02T14:28:33Z","title":"Multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults","day":"08","author":[{"last_name":"Hillary","first_name":"Robert F.","full_name":"Hillary, Robert F."},{"last_name":"Trejo-Banos","full_name":"Trejo-Banos, Daniel","first_name":"Daniel"},{"full_name":"Kousathanas, Athanasios","first_name":"Athanasios","last_name":"Kousathanas"},{"last_name":"Mccartney","first_name":"Daniel L.","full_name":"Mccartney, Daniel L."},{"last_name":"Harris","first_name":"Sarah E.","full_name":"Harris, Sarah E."},{"last_name":"Stevenson","full_name":"Stevenson, Anna J.","first_name":"Anna J."},{"last_name":"Patxot","first_name":"Marion","full_name":"Patxot, Marion"},{"last_name":"Ojavee","full_name":"Ojavee, Sven Erik","first_name":"Sven Erik"},{"first_name":"Qian","full_name":"Zhang, Qian","last_name":"Zhang"},{"first_name":"David C.","full_name":"Liewald, David C.","last_name":"Liewald"},{"full_name":"Ritchie, Craig W.","first_name":"Craig W.","last_name":"Ritchie"},{"last_name":"Evans","full_name":"Evans, Kathryn L.","first_name":"Kathryn L."},{"first_name":"Elliot M.","full_name":"Tucker-Drob, Elliot M.","last_name":"Tucker-Drob"},{"full_name":"Wray, Naomi R.","first_name":"Naomi R.","last_name":"Wray"},{"full_name":"Mcrae, Allan F.","first_name":"Allan F.","last_name":"Mcrae"},{"full_name":"Visscher, Peter M.","first_name":"Peter M.","last_name":"Visscher"},{"first_name":"Ian J.","full_name":"Deary, Ian J.","last_name":"Deary"},{"full_name":"Robinson, Matthew Richard","first_name":"Matthew Richard","orcid":"0000-0001-8982-8813","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","last_name":"Robinson"},{"full_name":"Marioni, Riccardo E.","first_name":"Riccardo E.","last_name":"Marioni"}],"date_published":"2020-07-08T00:00:00Z","file_date_updated":"2020-07-22T06:27:38Z","scopus_import":"1","has_accepted_license":"1","related_material":{"record":[{"id":"9706","relation":"research_data","status":"public"}]},"abstract":[{"text":"The molecular factors which control circulating levels of inflammatory proteins are not well understood. Furthermore, association studies between molecular probes and human traits are often performed by linear model-based methods which may fail to account for complex structure and interrelationships within molecular datasets.In this study, we perform genome- and epigenome-wide association studies (GWAS/EWAS) on the levels of 70 plasma-derived inflammatory protein biomarkers in healthy older adults (Lothian Birth Cohort 1936; n = 876; Olink® inflammation panel). We employ a Bayesian framework (BayesR+) which can account for issues pertaining to data structure and unknown confounding variables (with sensitivity analyses using ordinary least squares- (OLS) and mixed model-based approaches). We identified 13 SNPs associated with 13 proteins (n = 1 SNP each) concordant across OLS and Bayesian methods. We identified 3 CpG sites spread across 3 proteins (n = 1 CpG each) that were concordant across OLS, mixed-model and Bayesian analyses. Tagged genetic variants accounted for up to 45% of variance in protein levels (for MCP2, 36% of variance alone attributable to 1 polymorphism). Methylation data accounted for up to 46% of variation in protein levels (for CXCL10). Up to 66% of variation in protein levels (for VEGFA) was explained using genetic and epigenetic data combined. We demonstrated putative causal relationships between CD6 and IL18R1 with inflammatory bowel disease and between IL12B and Crohn’s disease. Our data may aid understanding of the molecular regulation of the circulating inflammatory proteome as well as causal relationships between inflammatory mediators and disease.","lang":"eng"}],"type":"journal_article","isi":1,"month":"07","status":"public","intvolume":"        12","doi":"10.1186/s13073-020-00754-1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa_version":"Published Version","publication_status":"published","language":[{"iso":"eng"}]},{"ddc":["570"],"publication":"International journal of molecular sciences","article_number":"2459","_id":"7664","citation":{"mla":"Martín-Belmonte, Alejandro, et al. “Density of GABAB Receptors Is Reduced in Granule Cells of the Hippocampus in a Mouse Model of Alzheimer’s Disease.” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 7, 2459, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/ijms21072459\">10.3390/ijms21072459</a>.","chicago":"Martín-Belmonte, Alejandro, Carolina Aguado, Rocío Alfaro-Ruíz, Ana Esther Moreno-Martínez, Luis De La Ossa, José Martínez-Hernández, Alain Buisson, Ryuichi Shigemoto, Yugo Fukazawa, and Rafael Luján. “Density of GABAB Receptors Is Reduced in Granule Cells of the Hippocampus in a Mouse Model of Alzheimer’s Disease.” <i>International Journal of Molecular Sciences</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/ijms21072459\">https://doi.org/10.3390/ijms21072459</a>.","ista":"Martín-Belmonte A, Aguado C, Alfaro-Ruíz R, Moreno-Martínez AE, De La Ossa L, Martínez-Hernández J, Buisson A, Shigemoto R, Fukazawa Y, Luján R. 2020. Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease. International journal of molecular sciences. 21(7), 2459.","ama":"Martín-Belmonte A, Aguado C, Alfaro-Ruíz R, et al. Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease. <i>International journal of molecular sciences</i>. 2020;21(7). doi:<a href=\"https://doi.org/10.3390/ijms21072459\">10.3390/ijms21072459</a>","short":"A. Martín-Belmonte, C. Aguado, R. Alfaro-Ruíz, A.E. Moreno-Martínez, L. De La Ossa, J. Martínez-Hernández, A. Buisson, R. Shigemoto, Y. Fukazawa, R. Luján, International Journal of Molecular Sciences 21 (2020).","apa":"Martín-Belmonte, A., Aguado, C., Alfaro-Ruíz, R., Moreno-Martínez, A. E., De La Ossa, L., Martínez-Hernández, J., … Luján, R. (2020). Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms21072459\">https://doi.org/10.3390/ijms21072459</a>","ieee":"A. Martín-Belmonte <i>et al.</i>, “Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease,” <i>International journal of molecular sciences</i>, vol. 21, no. 7. MDPI, 2020."},"oa":1,"volume":21,"issue":"7","quality_controlled":"1","article_processing_charge":"No","department":[{"_id":"RySh"}],"publisher":"MDPI","file":[{"checksum":"b9d2f1657d8c4a74b01a62b474d009b0","date_created":"2020-04-20T11:43:18Z","file_size":2941197,"date_updated":"2020-07-14T12:48:01Z","file_name":"2020_JournMolecSciences_Martin_Belmonte.pdf","file_id":"7669","access_level":"open_access","content_type":"application/pdf","creator":"dernst","relation":"main_file"}],"year":"2020","pmid":1,"external_id":{"pmid":["32252271"],"isi":["000535574200201"]},"date_created":"2020-04-19T22:00:55Z","publication_identifier":{"eissn":["1422-0067"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","language":[{"iso":"eng"}],"publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"doi":"10.3390/ijms21072459","oa_version":"Published Version","intvolume":"        21","isi":1,"month":"04","status":"public","abstract":[{"lang":"eng","text":"Metabotropic γ-aminobutyric acid (GABAB) receptors contribute to the control of network activity and information processing in hippocampal circuits by regulating neuronal excitability and synaptic transmission. The dysfunction in the dentate gyrus (DG) has been implicated in Alzheimer´s disease (AD). Given the involvement of GABAB receptors in AD, to determine their subcellular localisation and possible alteration in granule cells of the DG in a mouse model of AD at 12 months of age, we used high-resolution immunoelectron microscopic analysis. Immunohistochemistry at the light microscopic level showed that the regional and cellular expression pattern of GABAB1 was similar in an AD model mouse expressing mutated human amyloid precursor protein and presenilin1 (APP/PS1) and in age-matched wild type mice. High-resolution immunoelectron microscopy revealed a distance-dependent gradient of immunolabelling for GABAB receptors, increasing from proximal to distal dendrites in both wild type and APP/PS1 mice. However, the overall density of GABAB receptors at the neuronal surface of these postsynaptic compartments of granule cells was significantly reduced in APP/PS1 mice. Parallel to this reduction in surface receptors, we found a significant increase in GABAB1 at cytoplasmic sites. GABAB receptors were also detected at presynaptic sites in the molecular layer of the DG. We also found a decrease in plasma membrane GABAB receptors in axon terminals contacting dendritic spines of granule cells, which was more pronounced in the outer than in the inner molecular layer. Altogether, our data showing post- and presynaptic reduction in surface GABAB receptors in the DG suggest the alteration of the GABAB-mediated modulation of excitability and synaptic transmission in granule cells, which may contribute to the cognitive dysfunctions in the APP/PS1 model of AD"}],"type":"journal_article","has_accepted_license":"1","scopus_import":"1","date_published":"2020-04-02T00:00:00Z","file_date_updated":"2020-07-14T12:48:01Z","author":[{"full_name":"Martín-Belmonte, Alejandro","first_name":"Alejandro","last_name":"Martín-Belmonte"},{"full_name":"Aguado, Carolina","first_name":"Carolina","last_name":"Aguado"},{"full_name":"Alfaro-Ruíz, Rocío","first_name":"Rocío","last_name":"Alfaro-Ruíz"},{"last_name":"Moreno-Martínez","full_name":"Moreno-Martínez, Ana Esther","first_name":"Ana Esther"},{"full_name":"De La Ossa, Luis","first_name":"Luis","last_name":"De La Ossa"},{"first_name":"José","full_name":"Martínez-Hernández, José","last_name":"Martínez-Hernández"},{"full_name":"Buisson, Alain","first_name":"Alain","last_name":"Buisson"},{"full_name":"Shigemoto, Ryuichi","first_name":"Ryuichi","orcid":"0000-0001-8761-9444","last_name":"Shigemoto","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Yugo","full_name":"Fukazawa, Yugo","last_name":"Fukazawa"},{"first_name":"Rafael","full_name":"Luján, Rafael","last_name":"Luján"}],"day":"02","article_type":"original","date_updated":"2026-04-02T14:27:06Z","title":"Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer's disease"},{"_id":"7234","ddc":["570"],"publication":"Immunology and Cell Biology","year":"2020","external_id":{"pmid":["31698518"],"isi":["000503885600001"]},"pmid":1,"date_created":"2020-01-05T23:00:48Z","publication_identifier":{"eissn":["1440-1711"],"issn":["0818-9641"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","volume":98,"oa":1,"citation":{"short":"P. Obeidy, L.A. Ju, S.H. Oehlers, N.S. Zulkhernain, Q. Lee, J.L. Galeano Niño, R.Y.Q. Kwan, S. Tikoo, L.L. Cavanagh, P. Mrass, A.J.L. Cook, S.P. Jackson, M. Biro, B. Roediger, M.K. Sixt, W. Weninger, Immunology and Cell Biology 98 (2020) 93–113.","ama":"Obeidy P, Ju LA, Oehlers SH, et al. Partial loss of actin nucleator actin-related protein 2/3 activity triggers blebbing in primary T lymphocytes. <i>Immunology and Cell Biology</i>. 2020;98(2):93-113. doi:<a href=\"https://doi.org/10.1111/imcb.12304\">10.1111/imcb.12304</a>","apa":"Obeidy, P., Ju, L. A., Oehlers, S. H., Zulkhernain, N. S., Lee, Q., Galeano Niño, J. L., … Weninger, W. (2020). Partial loss of actin nucleator actin-related protein 2/3 activity triggers blebbing in primary T lymphocytes. <i>Immunology and Cell Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/imcb.12304\">https://doi.org/10.1111/imcb.12304</a>","ieee":"P. Obeidy <i>et al.</i>, “Partial loss of actin nucleator actin-related protein 2/3 activity triggers blebbing in primary T lymphocytes,” <i>Immunology and Cell Biology</i>, vol. 98, no. 2. Wiley, pp. 93–113, 2020.","chicago":"Obeidy, Peyman, Lining A. Ju, Stefan H. Oehlers, Nursafwana S. Zulkhernain, Quintin Lee, Jorge L. Galeano Niño, Rain Y.Q. Kwan, et al. “Partial Loss of Actin Nucleator Actin-Related Protein 2/3 Activity Triggers Blebbing in Primary T Lymphocytes.” <i>Immunology and Cell Biology</i>. Wiley, 2020. <a href=\"https://doi.org/10.1111/imcb.12304\">https://doi.org/10.1111/imcb.12304</a>.","mla":"Obeidy, Peyman, et al. “Partial Loss of Actin Nucleator Actin-Related Protein 2/3 Activity Triggers Blebbing in Primary T Lymphocytes.” <i>Immunology and Cell Biology</i>, vol. 98, no. 2, Wiley, 2020, pp. 93–113, doi:<a href=\"https://doi.org/10.1111/imcb.12304\">10.1111/imcb.12304</a>.","ista":"Obeidy P, Ju LA, Oehlers SH, Zulkhernain NS, Lee Q, Galeano Niño JL, Kwan RYQ, Tikoo S, Cavanagh LL, Mrass P, Cook AJL, Jackson SP, Biro M, Roediger B, Sixt MK, Weninger W. 2020. Partial loss of actin nucleator actin-related protein 2/3 activity triggers blebbing in primary T lymphocytes. Immunology and Cell Biology. 98(2), 93–113."},"issue":"2","article_processing_charge":"No","quality_controlled":"1","publisher":"Wiley","department":[{"_id":"MiSi"}],"page":"93-113","file":[{"creator":"dernst","file_id":"8775","access_level":"open_access","content_type":"application/pdf","relation":"main_file","checksum":"c389477b4b52172ef76afff8a06c6775","date_created":"2020-11-19T11:22:33Z","file_size":8569945,"date_updated":"2020-11-19T11:22:33Z","success":1,"file_name":"2020_ImmunologyCellBio_Obeidy.pdf"}],"intvolume":"        98","status":"public","isi":1,"month":"02","abstract":[{"text":"T lymphocytes utilize amoeboid migration to navigate effectively within complex microenvironments. The precise rearrangement of the actin cytoskeleton required for cellular forward propulsion is mediated by actin regulators, including the actin‐related protein 2/3 (Arp2/3) complex, a macromolecular machine that nucleates branched actin filaments at the leading edge. The consequences of modulating Arp2/3 activity on the biophysical properties of the actomyosin cortex and downstream T cell function are incompletely understood. We report that even a moderate decrease of Arp3 levels in T cells profoundly affects actin cortex integrity. Reduction in total F‐actin content leads to reduced cortical tension and disrupted lamellipodia formation. Instead, in Arp3‐knockdown cells, the motility mode is dominated by blebbing migration characterized by transient, balloon‐like protrusions at the leading edge. Although this migration mode seems to be compatible with interstitial migration in three‐dimensional environments, diminished locomotion kinetics and impaired cytotoxicity interfere with optimal T cell function. These findings define the importance of finely tuned, Arp2/3‐dependent mechanophysical membrane integrity in cytotoxic effector T lymphocyte activities.","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"publication_status":"published","oa_version":"Published Version","doi":"10.1111/imcb.12304","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"day":"01","date_updated":"2026-04-02T14:29:00Z","title":"Partial loss of actin nucleator actin-related protein 2/3 activity triggers blebbing in primary T lymphocytes","article_type":"original","has_accepted_license":"1","scopus_import":"1","file_date_updated":"2020-11-19T11:22:33Z","date_published":"2020-02-01T00:00:00Z","author":[{"last_name":"Obeidy","full_name":"Obeidy, Peyman","first_name":"Peyman"},{"full_name":"Ju, Lining A.","first_name":"Lining A.","last_name":"Ju"},{"last_name":"Oehlers","first_name":"Stefan H.","full_name":"Oehlers, Stefan H."},{"full_name":"Zulkhernain, Nursafwana S.","first_name":"Nursafwana S.","last_name":"Zulkhernain"},{"last_name":"Lee","first_name":"Quintin","full_name":"Lee, Quintin"},{"first_name":"Jorge L.","full_name":"Galeano Niño, Jorge L.","last_name":"Galeano Niño"},{"full_name":"Kwan, Rain Y.Q.","first_name":"Rain Y.Q.","last_name":"Kwan"},{"last_name":"Tikoo","full_name":"Tikoo, Shweta","first_name":"Shweta"},{"full_name":"Cavanagh, Lois L.","first_name":"Lois L.","last_name":"Cavanagh"},{"last_name":"Mrass","first_name":"Paulus","full_name":"Mrass, Paulus"},{"last_name":"Cook","full_name":"Cook, Adam J.L.","first_name":"Adam J.L."},{"full_name":"Jackson, Shaun P.","first_name":"Shaun P.","last_name":"Jackson"},{"first_name":"Maté","full_name":"Biro, Maté","last_name":"Biro"},{"last_name":"Roediger","full_name":"Roediger, Ben","first_name":"Ben"},{"last_name":"Sixt","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael K","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179"},{"full_name":"Weninger, Wolfgang","first_name":"Wolfgang","last_name":"Weninger"}]},{"language":[{"iso":"eng"}],"oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)"},"doi":"10.1016/j.celrep.2020.107647","publication_status":"published","status":"public","isi":1,"month":"05","intvolume":"        31","type":"journal_article","abstract":[{"lang":"eng","text":"The NIPBL/MAU2 heterodimer loads cohesin onto chromatin. Mutations inNIPBLaccount for most cases ofthe rare developmental disorder Cornelia de Lange syndrome (CdLS). Here we report aMAU2 variant causing CdLS, a deletion of seven amino acids that impairs the interaction between MAU2 and the NIPBL N terminus.Investigating this interaction, we discovered that MAU2 and the NIPBL N terminus are largely dispensable fornormal cohesin and NIPBL function in cells with a NIPBL early truncating mutation. Despite a predicted fataloutcome of an out-of-frame single nucleotide duplication inNIPBL, engineered in two different cell lines,alternative translation initiation yields a form of NIPBL missing N-terminal residues. This form cannot interactwith MAU2, but binds DNA and mediates cohesin loading. Altogether, our work reveals that cohesin loading can occur independently of functional NIPBL/MAU2 complexes and highlights a novel mechanism protectiveagainst out-of-frame mutations that is potentially relevant for other genetic conditions."}],"scopus_import":"1","has_accepted_license":"1","author":[{"first_name":"Ilaria","full_name":"Parenti, Ilaria","last_name":"Parenti","id":"D93538B0-5B71-11E9-AC62-02EBE5697425"},{"first_name":"Farah","full_name":"Diab, Farah","last_name":"Diab"},{"last_name":"Gil","first_name":"Sara Ruiz","full_name":"Gil, Sara Ruiz"},{"first_name":"Eskeatnaf","full_name":"Mulugeta, Eskeatnaf","last_name":"Mulugeta"},{"first_name":"Valentina","full_name":"Casa, Valentina","last_name":"Casa"},{"last_name":"Berutti","first_name":"Riccardo","full_name":"Berutti, Riccardo"},{"full_name":"Brouwer, Rutger W.W.","first_name":"Rutger W.W.","last_name":"Brouwer"},{"full_name":"Dupé, Valerie","first_name":"Valerie","last_name":"Dupé"},{"last_name":"Eckhold","first_name":"Juliane","full_name":"Eckhold, Juliane"},{"full_name":"Graf, Elisabeth","first_name":"Elisabeth","last_name":"Graf"},{"last_name":"Puisac","full_name":"Puisac, Beatriz","first_name":"Beatriz"},{"full_name":"Ramos, Feliciano","first_name":"Feliciano","last_name":"Ramos"},{"last_name":"Schwarzmayr","first_name":"Thomas","full_name":"Schwarzmayr, Thomas"},{"last_name":"Gines","first_name":"Macarena Moronta","full_name":"Gines, Macarena Moronta"},{"last_name":"Van Staveren","full_name":"Van Staveren, Thomas","first_name":"Thomas"},{"last_name":"Van Ijcken","first_name":"Wilfred F.J.","full_name":"Van Ijcken, Wilfred F.J."},{"last_name":"Strom","first_name":"Tim M.","full_name":"Strom, Tim M."},{"last_name":"Pié","full_name":"Pié, Juan","first_name":"Juan"},{"full_name":"Watrin, Erwan","first_name":"Erwan","last_name":"Watrin"},{"last_name":"Kaiser","full_name":"Kaiser, Frank J.","first_name":"Frank J."},{"first_name":"Kerstin S.","full_name":"Wendt, Kerstin S.","last_name":"Wendt"}],"file_date_updated":"2020-07-14T12:48:04Z","date_published":"2020-05-19T00:00:00Z","day":"19","date_updated":"2026-04-02T14:28:04Z","title":"MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader subunits and cause Cornelia de Lange syndrome","article_type":"original","ddc":["570"],"publication":"Cell Reports","article_number":"107647","_id":"7877","issue":"7","volume":31,"oa":1,"citation":{"chicago":"Parenti, Ilaria, Farah Diab, Sara Ruiz Gil, Eskeatnaf Mulugeta, Valentina Casa, Riccardo Berutti, Rutger W.W. Brouwer, et al. “MAU2 and NIPBL Variants Impair the Heterodimerization of the Cohesin Loader Subunits and Cause Cornelia de Lange Syndrome.” <i>Cell Reports</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.celrep.2020.107647\">https://doi.org/10.1016/j.celrep.2020.107647</a>.","mla":"Parenti, Ilaria, et al. “MAU2 and NIPBL Variants Impair the Heterodimerization of the Cohesin Loader Subunits and Cause Cornelia de Lange Syndrome.” <i>Cell Reports</i>, vol. 31, no. 7, 107647, Elsevier, 2020, doi:<a href=\"https://doi.org/10.1016/j.celrep.2020.107647\">10.1016/j.celrep.2020.107647</a>.","ista":"Parenti I, Diab F, Gil SR, Mulugeta E, Casa V, Berutti R, Brouwer RWW, Dupé V, Eckhold J, Graf E, Puisac B, Ramos F, Schwarzmayr T, Gines MM, Van Staveren T, Van Ijcken WFJ, Strom TM, Pié J, Watrin E, Kaiser FJ, Wendt KS. 2020. MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader subunits and cause Cornelia de Lange syndrome. Cell Reports. 31(7), 107647.","short":"I. Parenti, F. Diab, S.R. Gil, E. Mulugeta, V. Casa, R. Berutti, R.W.W. Brouwer, V. Dupé, J. Eckhold, E. Graf, B. Puisac, F. Ramos, T. Schwarzmayr, M.M. Gines, T. Van Staveren, W.F.J. Van Ijcken, T.M. Strom, J. Pié, E. Watrin, F.J. Kaiser, K.S. Wendt, Cell Reports 31 (2020).","ama":"Parenti I, Diab F, Gil SR, et al. MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader subunits and cause Cornelia de Lange syndrome. <i>Cell Reports</i>. 2020;31(7). doi:<a href=\"https://doi.org/10.1016/j.celrep.2020.107647\">10.1016/j.celrep.2020.107647</a>","ieee":"I. Parenti <i>et al.</i>, “MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader subunits and cause Cornelia de Lange syndrome,” <i>Cell Reports</i>, vol. 31, no. 7. Elsevier, 2020.","apa":"Parenti, I., Diab, F., Gil, S. R., Mulugeta, E., Casa, V., Berutti, R., … Wendt, K. S. (2020). MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader subunits and cause Cornelia de Lange syndrome. <i>Cell Reports</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.celrep.2020.107647\">https://doi.org/10.1016/j.celrep.2020.107647</a>"},"file":[{"file_name":"2020_CellReports_Parenti.pdf","checksum":"64d8f7467731ee5c166b10b939b8310b","date_created":"2020-05-26T11:05:01Z","file_size":4695682,"date_updated":"2020-07-14T12:48:04Z","relation":"main_file","creator":"dernst","file_id":"7892","access_level":"open_access","content_type":"application/pdf"}],"publisher":"Elsevier","department":[{"_id":"GaNo"}],"article_processing_charge":"No","quality_controlled":"1","external_id":{"isi":["000535655200005"]},"year":"2020","publication_identifier":{"eissn":["2211-1247"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_created":"2020-05-24T22:00:57Z"},{"abstract":[{"lang":"eng","text":"Type 1 metabotropic glutamate receptors (mGluR1s) are key elements in neuronal signaling. While their function is well documented in slices, requirements for their activation in vivo are poorly understood. We examine this question in adult mice in vivo using 2-photon imaging of cerebellar molecular layer interneurons (MLIs) expressing GCaMP. In anesthetized mice, parallel fiber activation evokes beam-like Cai rises in postsynaptic MLIs which depend on co-activation of mGluR1s and ionotropic glutamate receptors (iGluRs). In awake mice, blocking mGluR1 decreases Cai rises associated with locomotion. In vitro studies and freeze-fracture electron microscopy show that the iGluR-mGluR1 interaction is synergistic and favored by close association of the two classes of receptors. Altogether our results suggest that mGluR1s, acting in synergy with iGluRs, potently contribute to processing cerebellar neuronal signaling under physiological conditions."}],"type":"journal_article","intvolume":"         9","isi":1,"month":"05","status":"public","publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"doi":"10.7554/eLife.56839","oa_version":"Published Version","language":[{"iso":"eng"}],"article_type":"original","title":"Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo","date_updated":"2026-04-02T14:28:17Z","day":"13","date_published":"2020-05-13T00:00:00Z","file_date_updated":"2020-07-14T12:48:04Z","author":[{"last_name":"Bao","full_name":"Bao, Jin","first_name":"Jin"},{"full_name":"Graupner, Michael","first_name":"Michael","last_name":"Graupner"},{"last_name":"Astorga","first_name":"Guadalupe","full_name":"Astorga, Guadalupe"},{"full_name":"Collin, Thibault","first_name":"Thibault","last_name":"Collin"},{"full_name":"Jalil, Abdelali","first_name":"Abdelali","last_name":"Jalil"},{"full_name":"Indriati, Dwi Wahyu","first_name":"Dwi Wahyu","last_name":"Indriati"},{"last_name":"Bradley","first_name":"Jonathan","full_name":"Bradley, Jonathan"},{"orcid":"0000-0001-8761-9444","full_name":"Shigemoto, Ryuichi","first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","last_name":"Shigemoto"},{"first_name":"Isabel","full_name":"Llano, Isabel","last_name":"Llano"}],"has_accepted_license":"1","scopus_import":"1","_id":"7878","article_number":"e56839","publication":"eLife","ddc":["570"],"date_created":"2020-05-24T22:00:58Z","publication_identifier":{"eissn":["2050-084X"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","year":"2020","pmid":1,"external_id":{"pmid":["32401196"],"isi":["000535191600001"]},"quality_controlled":"1","article_processing_charge":"No","file":[{"relation":"main_file","creator":"dernst","access_level":"open_access","content_type":"application/pdf","file_id":"7891","file_name":"2020_eLife_Bao.pdf","date_updated":"2020-07-14T12:48:04Z","file_size":4832050,"date_created":"2020-05-26T09:34:54Z","checksum":"8ea99bb6660cc407dbdb00c173b01683"}],"publisher":"eLife Sciences Publications","department":[{"_id":"RySh"}],"citation":{"ista":"Bao J, Graupner M, Astorga G, Collin T, Jalil A, Indriati DW, Bradley J, Shigemoto R, Llano I. 2020. Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo. eLife. 9, e56839.","mla":"Bao, Jin, et al. “Synergism of Type 1 Metabotropic and Ionotropic Glutamate Receptors in Cerebellar Molecular Layer Interneurons in Vivo.” <i>ELife</i>, vol. 9, e56839, eLife Sciences Publications, 2020, doi:<a href=\"https://doi.org/10.7554/eLife.56839\">10.7554/eLife.56839</a>.","chicago":"Bao, Jin, Michael Graupner, Guadalupe Astorga, Thibault Collin, Abdelali Jalil, Dwi Wahyu Indriati, Jonathan Bradley, Ryuichi Shigemoto, and Isabel Llano. “Synergism of Type 1 Metabotropic and Ionotropic Glutamate Receptors in Cerebellar Molecular Layer Interneurons in Vivo.” <i>ELife</i>. eLife Sciences Publications, 2020. <a href=\"https://doi.org/10.7554/eLife.56839\">https://doi.org/10.7554/eLife.56839</a>.","ieee":"J. Bao <i>et al.</i>, “Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo,” <i>eLife</i>, vol. 9. eLife Sciences Publications, 2020.","apa":"Bao, J., Graupner, M., Astorga, G., Collin, T., Jalil, A., Indriati, D. W., … Llano, I. (2020). Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.56839\">https://doi.org/10.7554/eLife.56839</a>","short":"J. Bao, M. Graupner, G. Astorga, T. Collin, A. Jalil, D.W. Indriati, J. Bradley, R. Shigemoto, I. Llano, ELife 9 (2020).","ama":"Bao J, Graupner M, Astorga G, et al. Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo. <i>eLife</i>. 2020;9. doi:<a href=\"https://doi.org/10.7554/eLife.56839\">10.7554/eLife.56839</a>"},"oa":1,"volume":9},{"publication":"Nano Letters","ddc":["530"],"_id":"7663","department":[{"_id":"MaLo"}],"publisher":"American Chemical Society","page":"2647-2653","file":[{"creator":"dernst","content_type":"application/pdf","access_level":"open_access","file_id":"7667","relation":"main_file","date_updated":"2020-07-14T12:48:01Z","file_size":7108014,"checksum":"fe46146a9c4c620592a1932a8599069e","date_created":"2020-04-20T10:43:36Z","file_name":"2020_NanoLetters_Felhofer.pdf"}],"quality_controlled":"1","article_processing_charge":"No","issue":"4","citation":{"ama":"Felhofer M, Bock P, Singh A, Prats Mateu B, Zirbs R, Gierlinger N. Wood deformation leads to rearrangement of molecules at the nanoscale. <i>Nano Letters</i>. 2020;20(4):2647-2653. doi:<a href=\"https://doi.org/10.1021/acs.nanolett.0c00205\">10.1021/acs.nanolett.0c00205</a>","short":"M. Felhofer, P. Bock, A. Singh, B. Prats Mateu, R. Zirbs, N. Gierlinger, Nano Letters 20 (2020) 2647–2653.","apa":"Felhofer, M., Bock, P., Singh, A., Prats Mateu, B., Zirbs, R., &#38; Gierlinger, N. (2020). Wood deformation leads to rearrangement of molecules at the nanoscale. <i>Nano Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.nanolett.0c00205\">https://doi.org/10.1021/acs.nanolett.0c00205</a>","ieee":"M. Felhofer, P. Bock, A. Singh, B. Prats Mateu, R. Zirbs, and N. Gierlinger, “Wood deformation leads to rearrangement of molecules at the nanoscale,” <i>Nano Letters</i>, vol. 20, no. 4. American Chemical Society, pp. 2647–2653, 2020.","chicago":"Felhofer, Martin, Peter Bock, Adya Singh, Batirtze Prats Mateu, Ronald Zirbs, and Notburga Gierlinger. “Wood Deformation Leads to Rearrangement of Molecules at the Nanoscale.” <i>Nano Letters</i>. American Chemical Society, 2020. <a href=\"https://doi.org/10.1021/acs.nanolett.0c00205\">https://doi.org/10.1021/acs.nanolett.0c00205</a>.","mla":"Felhofer, Martin, et al. “Wood Deformation Leads to Rearrangement of Molecules at the Nanoscale.” <i>Nano Letters</i>, vol. 20, no. 4, American Chemical Society, 2020, pp. 2647–53, doi:<a href=\"https://doi.org/10.1021/acs.nanolett.0c00205\">10.1021/acs.nanolett.0c00205</a>.","ista":"Felhofer M, Bock P, Singh A, Prats Mateu B, Zirbs R, Gierlinger N. 2020. Wood deformation leads to rearrangement of molecules at the nanoscale. Nano Letters. 20(4), 2647–2653."},"oa":1,"volume":20,"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"eissn":["1530-6992"]},"date_created":"2020-04-19T22:00:54Z","pmid":1,"external_id":{"isi":["000526413400055"],"pmid":["32196350"]},"year":"2020","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"doi":"10.1021/acs.nanolett.0c00205","oa_version":"Published Version","publication_status":"published","language":[{"iso":"eng"}],"abstract":[{"text":"Wood, as the most abundant carbon dioxide storing bioresource, is currently driven beyond its traditional use through creative innovations and nanotechnology. For many properties the micro- and nanostructure plays a crucial role and one key challenge is control and detection of chemical and physical processes in the confined microstructure and nanopores of the wooden cell wall. In this study, correlative Raman and atomic force microscopy show high potential for tracking in situ molecular rearrangement of wood polymers during compression. More water molecules (interpreted as wider cellulose microfibril distances) and disentangling of hemicellulose chains are detected in the opened cell wall regions, whereas an increase of lignin is revealed in the compressed areas. These results support a new more “loose” cell wall model based on flexible lignin nanodomains and advance our knowledge of the molecular reorganization during deformation of wood for optimized processing and utilization.","lang":"eng"}],"type":"journal_article","month":"04","isi":1,"status":"public","intvolume":"        20","author":[{"last_name":"Felhofer","first_name":"Martin","full_name":"Felhofer, Martin"},{"full_name":"Bock, Peter","first_name":"Peter","last_name":"Bock"},{"first_name":"Adya","full_name":"Singh, Adya","last_name":"Singh"},{"last_name":"Prats Mateu","id":"299FE892-F248-11E8-B48F-1D18A9856A87","full_name":"Prats Mateu, Batirtze","first_name":"Batirtze"},{"first_name":"Ronald","full_name":"Zirbs, Ronald","last_name":"Zirbs"},{"last_name":"Gierlinger","first_name":"Notburga","full_name":"Gierlinger, Notburga"}],"date_published":"2020-04-08T00:00:00Z","file_date_updated":"2020-07-14T12:48:01Z","scopus_import":"1","has_accepted_license":"1","article_type":"original","title":"Wood deformation leads to rearrangement of molecules at the nanoscale","date_updated":"2026-04-02T14:26:44Z","day":"08"},{"status":"public","month":"09","isi":1,"intvolume":"        10","type":"journal_article","abstract":[{"lang":"eng","text":"Copper (Cu) is an essential trace element for all living organisms and used as cofactor in key enzymes of important biological processes, such as aerobic respiration or superoxide dismutation. However, due to its toxicity, cells have developed elaborate mechanisms for Cu homeostasis, which balance Cu supply for cuproprotein biogenesis with the need to remove excess Cu. This review summarizes our current knowledge on bacterial Cu homeostasis with a focus on Gram-negative bacteria and describes the multiple strategies that bacteria use for uptake, storage and export of Cu. We furthermore describe general mechanistic principles that aid the bacterial response to toxic Cu concentrations and illustrate dedicated Cu relay systems that facilitate Cu delivery for cuproenzyme biogenesis. Progress in understanding how bacteria avoid Cu poisoning while maintaining a certain Cu quota for cell proliferation is of particular importance for microbial pathogens because Cu is utilized by the host immune system for attenuating pathogen survival in host cells."}],"language":[{"iso":"eng"}],"oa_version":"Published Version","doi":"10.3390/membranes10090242","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","day":"01","date_updated":"2026-04-02T14:29:28Z","title":"Cu homeostasis in bacteria: The ins and outs","article_type":"original","scopus_import":"1","has_accepted_license":"1","author":[{"last_name":"Andrei","full_name":"Andrei, Andreea","first_name":"Andreea"},{"first_name":"Yavuz","full_name":"Öztürk, Yavuz","last_name":"Öztürk"},{"first_name":"Bahia","full_name":"Khalfaoui-Hassani, Bahia","last_name":"Khalfaoui-Hassani"},{"last_name":"Rauch","full_name":"Rauch, Juna","first_name":"Juna"},{"first_name":"Dorian","full_name":"Marckmann, Dorian","last_name":"Marckmann"},{"id":"D560034C-10C4-11EA-ABF4-A4B43DDC885E","last_name":"Trasnea","full_name":"Trasnea, Petru Iulian","first_name":"Petru Iulian"},{"last_name":"Daldal","full_name":"Daldal, Fevzi","first_name":"Fevzi"},{"full_name":"Koch, Hans-Georg","first_name":"Hans-Georg","last_name":"Koch"}],"file_date_updated":"2020-09-28T11:36:50Z","date_published":"2020-09-01T00:00:00Z","article_number":"242","_id":"8579","ddc":["570"],"publication":"Membranes","external_id":{"isi":["000581446000001"]},"year":"2020","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"eissn":["2077-0375"]},"date_created":"2020-09-28T08:59:26Z","issue":"9","oa":1,"volume":10,"citation":{"ieee":"A. Andrei <i>et al.</i>, “Cu homeostasis in bacteria: The ins and outs,” <i>Membranes</i>, vol. 10, no. 9. MDPI, 2020.","apa":"Andrei, A., Öztürk, Y., Khalfaoui-Hassani, B., Rauch, J., Marckmann, D., Trasnea, P. I., … Koch, H.-G. (2020). Cu homeostasis in bacteria: The ins and outs. <i>Membranes</i>. MDPI. <a href=\"https://doi.org/10.3390/membranes10090242\">https://doi.org/10.3390/membranes10090242</a>","ama":"Andrei A, Öztürk Y, Khalfaoui-Hassani B, et al. Cu homeostasis in bacteria: The ins and outs. <i>Membranes</i>. 2020;10(9). doi:<a href=\"https://doi.org/10.3390/membranes10090242\">10.3390/membranes10090242</a>","short":"A. Andrei, Y. Öztürk, B. Khalfaoui-Hassani, J. Rauch, D. Marckmann, P.I. Trasnea, F. Daldal, H.-G. Koch, Membranes 10 (2020).","ista":"Andrei A, Öztürk Y, Khalfaoui-Hassani B, Rauch J, Marckmann D, Trasnea PI, Daldal F, Koch H-G. 2020. Cu homeostasis in bacteria: The ins and outs. Membranes. 10(9), 242.","mla":"Andrei, Andreea, et al. “Cu Homeostasis in Bacteria: The Ins and Outs.” <i>Membranes</i>, vol. 10, no. 9, 242, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/membranes10090242\">10.3390/membranes10090242</a>.","chicago":"Andrei, Andreea, Yavuz Öztürk, Bahia Khalfaoui-Hassani, Juna Rauch, Dorian Marckmann, Petru Iulian Trasnea, Fevzi Daldal, and Hans-Georg Koch. “Cu Homeostasis in Bacteria: The Ins and Outs.” <i>Membranes</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/membranes10090242\">https://doi.org/10.3390/membranes10090242</a>."},"publisher":"MDPI","file":[{"checksum":"ceb43d7554e712dea6f36f9287271737","date_created":"2020-09-28T11:36:50Z","date_updated":"2020-09-28T11:36:50Z","file_size":4612258,"success":1,"file_name":"2020_Membranes_Andrei.pdf","creator":"dernst","file_id":"8583","content_type":"application/pdf","access_level":"open_access","relation":"main_file"}],"department":[{"_id":"LeSa"}],"article_processing_charge":"No","quality_controlled":"1"},{"volume":17,"oa":1,"citation":{"ama":"Merrin J. Differences in power law growth over time and indicators of COVID-19 pandemic progression worldwide. <i>Physical Biology</i>. 2020;17(6). doi:<a href=\"https://doi.org/10.1088/1478-3975/abb2db\">10.1088/1478-3975/abb2db</a>","short":"J. Merrin, Physical Biology 17 (2020).","ieee":"J. Merrin, “Differences in power law growth over time and indicators of COVID-19 pandemic progression worldwide,” <i>Physical Biology</i>, vol. 17, no. 6. IOP Publishing, 2020.","apa":"Merrin, J. (2020). Differences in power law growth over time and indicators of COVID-19 pandemic progression worldwide. <i>Physical Biology</i>. IOP Publishing. <a href=\"https://doi.org/10.1088/1478-3975/abb2db\">https://doi.org/10.1088/1478-3975/abb2db</a>","chicago":"Merrin, Jack. “Differences in Power Law Growth over Time and Indicators of COVID-19 Pandemic Progression Worldwide.” <i>Physical Biology</i>. IOP Publishing, 2020. <a href=\"https://doi.org/10.1088/1478-3975/abb2db\">https://doi.org/10.1088/1478-3975/abb2db</a>.","mla":"Merrin, Jack. “Differences in Power Law Growth over Time and Indicators of COVID-19 Pandemic Progression Worldwide.” <i>Physical Biology</i>, vol. 17, no. 6, 065005, IOP Publishing, 2020, doi:<a href=\"https://doi.org/10.1088/1478-3975/abb2db\">10.1088/1478-3975/abb2db</a>.","ista":"Merrin J. 2020. Differences in power law growth over time and indicators of COVID-19 pandemic progression worldwide. Physical Biology. 17(6), 065005."},"issue":"6","article_processing_charge":"Yes (via OA deal)","quality_controlled":"1","publisher":"IOP Publishing","department":[{"_id":"NanoFab"}],"file":[{"success":1,"file_name":"2020_PhysBio_Merrin.pdf","date_created":"2020-10-05T13:53:59Z","checksum":"fec9bdd355ed349f09990faab20838a7","date_updated":"2020-10-05T13:53:59Z","file_size":1667111,"relation":"main_file","creator":"dernst","file_id":"8609","access_level":"open_access","content_type":"application/pdf"}],"acknowledgement":"I would especially like to thank Michael Sixt for encouraging me to think about these problems while working at home due to restrictions in place. I want to thank Nick Barton, Katka Bodova, Matthew Robinson, Simon Rella, Federico Sau, Ivan Prieto, and Pradeep Kumar for useful discussions.","year":"2020","external_id":{"isi":["000575539700001"]},"date_created":"2020-10-04T22:01:35Z","publication_identifier":{"eissn":["1478-3975"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","ddc":["510","570"],"corr_author":"1","publication":"Physical Biology","article_number":"065005","_id":"8597","has_accepted_license":"1","scopus_import":"1","file_date_updated":"2020-10-05T13:53:59Z","date_published":"2020-09-23T00:00:00Z","author":[{"last_name":"Merrin","id":"4515C308-F248-11E8-B48F-1D18A9856A87","first_name":"Jack","full_name":"Merrin, Jack","orcid":"0000-0001-5145-4609"}],"day":"23","date_updated":"2026-04-02T14:29:42Z","title":"Differences in power law growth over time and indicators of COVID-19 pandemic progression worldwide","article_type":"original","language":[{"iso":"eng"}],"publication_status":"published","oa_version":"Published Version","doi":"10.1088/1478-3975/abb2db","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"intvolume":"        17","status":"public","isi":1,"month":"09","type":"journal_article","abstract":[{"lang":"eng","text":"Error analysis and data visualization of positive COVID-19 cases in 27 countries have been performed up to August 8, 2020. This survey generally observes a progression from early exponential growth transitioning to an intermediate power-law growth phase, as recently suggested by Ziff and Ziff. The occurrence of logistic growth after the power-law phase with lockdowns or social distancing may be described as an effect of avoidance. A visualization of the power-law growth exponent over short time windows is qualitatively similar to the Bhatia visualization for pandemic progression. Visualizations like these can indicate the onset of second waves and may influence social policy."}]},{"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","date_updated":"2026-04-02T14:28:32Z","title":"Additional file 2 of multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults","date_created":"2021-07-23T08:59:15Z","day":"09","year":"2020","department":[{"_id":"MaRo"}],"publisher":"Springer Nature","main_file_link":[{"open_access":"1","url":"https://doi.org/10.6084/m9.figshare.12629697.v1"}],"author":[{"last_name":"Hillary","first_name":"Robert F.","full_name":"Hillary, Robert F."},{"last_name":"Trejo-Banos","first_name":"Daniel","full_name":"Trejo-Banos, Daniel"},{"first_name":"Athanasios","full_name":"Kousathanas, Athanasios","last_name":"Kousathanas"},{"first_name":"Daniel L.","full_name":"McCartney, Daniel L.","last_name":"McCartney"},{"last_name":"Harris","full_name":"Harris, Sarah E.","first_name":"Sarah E."},{"first_name":"Anna J.","full_name":"Stevenson, Anna J.","last_name":"Stevenson"},{"last_name":"Patxot","full_name":"Patxot, Marion","first_name":"Marion"},{"first_name":"Sven Erik","full_name":"Ojavee, Sven Erik","last_name":"Ojavee"},{"last_name":"Zhang","first_name":"Qian","full_name":"Zhang, Qian"},{"last_name":"Liewald","full_name":"Liewald, David C.","first_name":"David C."},{"first_name":"Craig W.","full_name":"Ritchie, Craig W.","last_name":"Ritchie"},{"last_name":"Evans","first_name":"Kathryn L.","full_name":"Evans, Kathryn L."},{"last_name":"Tucker-Drob","full_name":"Tucker-Drob, Elliot M.","first_name":"Elliot M."},{"last_name":"Wray","first_name":"Naomi R.","full_name":"Wray, Naomi R."},{"last_name":"McRae","first_name":"Allan F. ","full_name":"McRae, Allan F. "},{"full_name":"Visscher, Peter M.","first_name":"Peter M.","last_name":"Visscher"},{"last_name":"Deary","first_name":"Ian J.","full_name":"Deary, Ian J."},{"full_name":"Robinson, Matthew Richard","first_name":"Matthew Richard","orcid":"0000-0001-8982-8813","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","last_name":"Robinson"},{"first_name":"Riccardo E. ","full_name":"Marioni, Riccardo E. ","last_name":"Marioni"}],"article_processing_charge":"No","date_published":"2020-07-09T00:00:00Z","oa":1,"has_accepted_license":"1","citation":{"ista":"Hillary RF, Trejo-Banos D, Kousathanas A, McCartney DL, Harris SE, Stevenson AJ, Patxot M, Ojavee SE, Zhang Q, Liewald DC, Ritchie CW, Evans KL, Tucker-Drob EM, Wray NR, McRae AF, Visscher PM, Deary IJ, Robinson MR, Marioni RE. 2020. Additional file 2 of multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults, Springer Nature, <a href=\"https://doi.org/10.6084/m9.figshare.12629697.v1\">10.6084/m9.figshare.12629697.v1</a>.","chicago":"Hillary, Robert F., Daniel Trejo-Banos, Athanasios Kousathanas, Daniel L. McCartney, Sarah E. Harris, Anna J. Stevenson, Marion Patxot, et al. “Additional File 2 of Multi-Method Genome- and Epigenome-Wide Studies of Inflammatory Protein Levels in Healthy Older Adults.” Springer Nature, 2020. <a href=\"https://doi.org/10.6084/m9.figshare.12629697.v1\">https://doi.org/10.6084/m9.figshare.12629697.v1</a>.","mla":"Hillary, Robert F., et al. <i>Additional File 2 of Multi-Method Genome- and Epigenome-Wide Studies of Inflammatory Protein Levels in Healthy Older Adults</i>. Springer Nature, 2020, doi:<a href=\"https://doi.org/10.6084/m9.figshare.12629697.v1\">10.6084/m9.figshare.12629697.v1</a>.","apa":"Hillary, R. F., Trejo-Banos, D., Kousathanas, A., McCartney, D. L., Harris, S. E., Stevenson, A. J., … Marioni, R. E. (2020). Additional file 2 of multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults. Springer Nature. <a href=\"https://doi.org/10.6084/m9.figshare.12629697.v1\">https://doi.org/10.6084/m9.figshare.12629697.v1</a>","ieee":"R. F. Hillary <i>et al.</i>, “Additional file 2 of multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults.” Springer Nature, 2020.","short":"R.F. Hillary, D. Trejo-Banos, A. Kousathanas, D.L. McCartney, S.E. Harris, A.J. Stevenson, M. Patxot, S.E. Ojavee, Q. Zhang, D.C. Liewald, C.W. Ritchie, K.L. Evans, E.M. Tucker-Drob, N.R. Wray, A.F. McRae, P.M. Visscher, I.J. Deary, M.R. Robinson, R.E. Marioni, (2020).","ama":"Hillary RF, Trejo-Banos D, Kousathanas A, et al. Additional file 2 of multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults. 2020. doi:<a href=\"https://doi.org/10.6084/m9.figshare.12629697.v1\">10.6084/m9.figshare.12629697.v1</a>"},"type":"research_data_reference","abstract":[{"text":"Additional file 2: Supplementary Tables. The association of pre-adjusted protein levels with biological and technical covariates. Protein levels were adjusted for age, sex, array plate and four genetic principal components (population structure) prior to analyses. Significant associations are emboldened. (Table S1). pQTLs associated with inflammatory biomarker levels from Bayesian penalised regression model (Posterior Inclusion Probability > 95%). (Table S2). All pQTLs associated with inflammatory biomarker levels from ordinary least squares regression model (P < 7.14 × 10− 10). (Table S3). Summary of lambda values relating to ordinary least squares GWAS and EWAS performed on inflammatory protein levels (n = 70) in Lothian Birth Cohort 1936 study. (Table S4). Conditionally significant pQTLs associated with inflammatory biomarker levels from ordinary least squares regression model (P < 7.14 × 10− 10). (Table S5). Comparison of variance explained by ordinary least squares and Bayesian penalised regression models for concordantly identified SNPs. (Table S6). Estimate of heritability for blood protein levels as well as proportion of variance explained attributable to different prior mixtures. (Table S7). Comparison of heritability estimates from Ahsan et al. (maximum likelihood) and Hillary et al. (Bayesian penalised regression). (Table S8). List of concordant SNPs identified by linear model and Bayesian penalised regression and whether they have been previously identified as eQTLs. (Table S9). Bayesian tests of colocalisation for cis pQTLs and cis eQTLs. (Table S10). Sherlock algorithm: Genes whose expression are putatively associated with circulating inflammatory proteins that harbour pQTLs. (Table S11). CpGs associated with inflammatory protein biomarkers as identified by Bayesian model (Bayesian model; Posterior Inclusion Probability > 95%). (Table S12). CpGs associated with inflammatory protein biomarkers as identified by linear model (limma) at P < 5.14 × 10− 10. (Table S13). CpGs associated with inflammatory protein biomarkers as identified by mixed linear model (OSCA) at P < 5.14 × 10− 10. (Table S14). Estimate of variance explained for blood protein levels by DNA methylation as well as proportion of explained attributable to different prior mixtures - BayesR+. (Table S15). Comparison of variance in protein levels explained by genome-wide DNA methylation data by mixed linear model (OSCA) and Bayesian penalised regression model (BayesR+). (Table S16). Variance in circulating inflammatory protein biomarker levels explained by common genetic and methylation data (joint and conditional estimates from BayesR+). Ordered by combined variance explained by genetic and epigenetic data - smallest to largest. Significant results from t-tests comparing distributions for variance explained by methylation or genetics alone versus combined estimate are emboldened. (Table S17). Genetic and epigenetic factors identified by BayesR+ when conditioning on all SNPs and CpGs together. (Table S18). Mendelian Randomisation analyses to assess whether proteins with concordantly identified genetic signals are causally associated with Alzheimer’s disease risk. (Table S19).","lang":"eng"}],"related_material":{"record":[{"id":"8133","relation":"used_in_publication","status":"public"}]},"_id":"9706","status":"public","month":"07","oa_version":"Published Version","doi":"10.6084/m9.figshare.12629697.v1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"other_data_license":"CC0 + CC BY (4.0)"},{"language":[{"iso":"eng"}],"publication_status":"published","oa_version":"Published Version","doi":"10.1038/s41467-020-15895-5","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"intvolume":"        11","status":"public","isi":1,"month":"05","abstract":[{"text":"Plants as non-mobile organisms constantly integrate varying environmental signals to flexibly adapt their growth and development. Local fluctuations in water and nutrient availability, sudden changes in temperature or other abiotic and biotic stresses can trigger changes in the growth of plant organs. Multiple mutually interconnected hormonal signaling cascades act as essential endogenous translators of these exogenous signals in the adaptive responses of plants. Although the molecular backbones of hormone transduction pathways have been identified, the mechanisms underlying their interactions are largely unknown. Here, using genome wide transcriptome profiling we identify an auxin and cytokinin cross-talk component; SYNERGISTIC ON AUXIN AND CYTOKININ 1 (SYAC1), whose expression in roots is strictly dependent on both of these hormonal pathways. We show that SYAC1 is a regulator of secretory pathway, whose enhanced activity interferes with deposition of cell wall components and can fine-tune organ growth and sensitivity to soil pathogens.","lang":"eng"}],"type":"journal_article","has_accepted_license":"1","ec_funded":1,"scopus_import":"1","file_date_updated":"2020-10-06T07:47:53Z","date_published":"2020-05-01T00:00:00Z","author":[{"first_name":"Andrej","full_name":"Hurny, Andrej","orcid":"0000-0003-3638-1426","id":"4DC4AF46-F248-11E8-B48F-1D18A9856A87","last_name":"Hurny"},{"last_name":"Cuesta","id":"33A3C818-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1923-2410","full_name":"Cuesta, Candela","first_name":"Candela"},{"last_name":"Cavallari","id":"457160E6-F248-11E8-B48F-1D18A9856A87","full_name":"Cavallari, Nicola","first_name":"Nicola"},{"last_name":"Ötvös","id":"29B901B0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5503-4983","first_name":"Krisztina","full_name":"Ötvös, Krisztina"},{"full_name":"Duclercq, Jerome","first_name":"Jerome","last_name":"Duclercq"},{"last_name":"Dokládal","full_name":"Dokládal, Ladislav","first_name":"Ladislav"},{"last_name":"Montesinos López","id":"310A8E3E-F248-11E8-B48F-1D18A9856A87","first_name":"Juan C","full_name":"Montesinos López, Juan C","orcid":"0000-0001-9179-6099"},{"first_name":"Marçal","full_name":"Gallemi, Marçal","orcid":"0000-0003-4675-6893","id":"460C6802-F248-11E8-B48F-1D18A9856A87","last_name":"Gallemi"},{"last_name":"Semeradova","id":"42FE702E-F248-11E8-B48F-1D18A9856A87","full_name":"Semeradova, Hana","first_name":"Hana"},{"first_name":"Thomas","full_name":"Rauter, Thomas","id":"A0385D1A-9376-11EA-A47D-9862C5E3AB22","last_name":"Rauter"},{"last_name":"Stenzel","first_name":"Irene","full_name":"Stenzel, Irene"},{"last_name":"Persiau","full_name":"Persiau, Geert","first_name":"Geert"},{"last_name":"Benade","first_name":"Freia","full_name":"Benade, Freia"},{"last_name":"Bhalearo","full_name":"Bhalearo, Rishikesh","first_name":"Rishikesh"},{"full_name":"Sýkorová, Eva","first_name":"Eva","last_name":"Sýkorová"},{"full_name":"Gorzsás, András","first_name":"András","last_name":"Gorzsás"},{"first_name":"Julien","full_name":"Sechet, Julien","last_name":"Sechet"},{"last_name":"Mouille","first_name":"Gregory","full_name":"Mouille, Gregory"},{"full_name":"Heilmann, Ingo","first_name":"Ingo","last_name":"Heilmann"},{"full_name":"De Jaeger, Geert","first_name":"Geert","last_name":"De Jaeger"},{"last_name":"Ludwig-Müller","full_name":"Ludwig-Müller, Jutta","first_name":"Jutta"},{"first_name":"Eva","full_name":"Benková, Eva","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","last_name":"Benková"}],"day":"01","date_updated":"2026-04-02T14:32:53Z","title":"Synergistic on Auxin and Cytokinin 1 positively regulates growth and attenuates soil pathogen resistance","article_type":"original","ddc":["570"],"corr_author":"1","publication":"Nature Communications","article_number":"2170","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"_id":"7805","volume":11,"oa":1,"citation":{"short":"A. Hurny, C. Cuesta, N. Cavallari, K. Ötvös, J. Duclercq, L. Dokládal, J.C. Montesinos López, M. Gallemi, H. Semerádová, T. Rauter, I. Stenzel, G. Persiau, F. Benade, R. Bhalearo, E. Sýkorová, A. Gorzsás, J. Sechet, G. Mouille, I. Heilmann, G. De Jaeger, J. Ludwig-Müller, E. Benková, Nature Communications 11 (2020).","ama":"Hurny A, Cuesta C, Cavallari N, et al. Synergistic on Auxin and Cytokinin 1 positively regulates growth and attenuates soil pathogen resistance. <i>Nature Communications</i>. 2020;11. doi:<a href=\"https://doi.org/10.1038/s41467-020-15895-5\">10.1038/s41467-020-15895-5</a>","apa":"Hurny, A., Cuesta, C., Cavallari, N., Ötvös, K., Duclercq, J., Dokládal, L., … Benková, E. (2020). Synergistic on Auxin and Cytokinin 1 positively regulates growth and attenuates soil pathogen resistance. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-020-15895-5\">https://doi.org/10.1038/s41467-020-15895-5</a>","ieee":"A. Hurny <i>et al.</i>, “Synergistic on Auxin and Cytokinin 1 positively regulates growth and attenuates soil pathogen resistance,” <i>Nature Communications</i>, vol. 11. Springer Nature, 2020.","mla":"Hurny, Andrej, et al. “Synergistic on Auxin and Cytokinin 1 Positively Regulates Growth and Attenuates Soil Pathogen Resistance.” <i>Nature Communications</i>, vol. 11, 2170, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41467-020-15895-5\">10.1038/s41467-020-15895-5</a>.","chicago":"Hurny, Andrej, Candela Cuesta, Nicola Cavallari, Krisztina Ötvös, Jerome Duclercq, Ladislav Dokládal, Juan C Montesinos López, et al. “Synergistic on Auxin and Cytokinin 1 Positively Regulates Growth and Attenuates Soil Pathogen Resistance.” <i>Nature Communications</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41467-020-15895-5\">https://doi.org/10.1038/s41467-020-15895-5</a>.","ista":"Hurny A, Cuesta C, Cavallari N, Ötvös K, Duclercq J, Dokládal L, Montesinos López JC, Gallemi M, Semerádová H, Rauter T, Stenzel I, Persiau G, Benade F, Bhalearo R, Sýkorová E, Gorzsás A, Sechet J, Mouille G, Heilmann I, De Jaeger G, Ludwig-Müller J, Benková E. 2020. Synergistic on Auxin and Cytokinin 1 positively regulates growth and attenuates soil pathogen resistance. Nature Communications. 11, 2170."},"project":[{"name":"Hormone cross-talk drives nutrient dependent plant development","grant_number":"I 1774-B16","call_identifier":"FWF","_id":"2542D156-B435-11E9-9278-68D0E5697425"},{"name":"International IST Postdoc Fellowship Programme","grant_number":"291734","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"article_processing_charge":"No","quality_controlled":"1","publisher":"Springer Nature","file":[{"file_id":"8614","content_type":"application/pdf","access_level":"open_access","creator":"dernst","relation":"main_file","checksum":"2cba327c9e9416d75cb96be54b0fb441","date_created":"2020-10-06T07:47:53Z","date_updated":"2020-10-06T07:47:53Z","file_size":4743576,"success":1,"file_name":"2020_NatureComm_Hurny.pdf"}],"department":[{"_id":"EvBe"}],"acknowledgement":"We thank Daria Siekhaus, Jiri Friml and Alexander Johnson for critical reading of the manuscript, Peter Pimpl, Christian Luschnig and Liwen Jiang for sharing published material, Lesia Rodriguez Solovey for technical assistance. This work was supported by the Austrian Science Fund (FWF01_I1774S) to A.H., K.Ö., and E.B., the German Research Foundation (DFG; He3424/6-1 to I.H.), by the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement n° [291734] (to N.C.), by the EU in the framework of the Marie-Curie FP7 COFUND People Programme through the award of an AgreenSkills+ fellowship No. 609398 (to J.S.) and by the Scientific Service Units of IST-Austria through resources provided by the Bioimaging Facility, the Life Science Facility. The IJPB benefits from the support of Saclay Plant Sciences-SPS (ANR-17-EUR-0007).","year":"2020","external_id":{"isi":["000531425900012"],"pmid":["32358503"]},"pmid":1,"date_created":"2020-05-10T22:00:48Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"eissn":["2041-1723"]}},{"publication":"eLife","ddc":["570"],"_id":"7909","article_number":"e55351","quality_controlled":"1","article_processing_charge":"No","department":[{"_id":"MiSi"}],"file":[{"relation":"main_file","creator":"dernst","file_id":"7914","access_level":"open_access","content_type":"application/pdf","file_name":"2020_eLife_Damiano_Guercio.pdf","date_created":"2020-06-02T10:35:37Z","checksum":"d33bd4441b9a0195718ce1ba5d2c48a6","file_size":10535713,"date_updated":"2020-07-14T12:48:05Z"}],"publisher":"eLife Sciences Publications","citation":{"apa":"Damiano-Guercio, J., Kurzawa, L., Müller, J., Dimchev, G. A., Schaks, M., Nemethova, M., … Faix, J. (2020). Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent adhesion. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.55351\">https://doi.org/10.7554/eLife.55351</a>","ieee":"J. Damiano-Guercio <i>et al.</i>, “Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent adhesion,” <i>eLife</i>, vol. 9. eLife Sciences Publications, 2020.","short":"J. Damiano-Guercio, L. Kurzawa, J. Müller, G.A. Dimchev, M. Schaks, M. Nemethova, T. Pokrant, S. Brühmann, J. Linkner, L. Blanchoin, M.K. Sixt, K. Rottner, J. Faix, ELife 9 (2020).","ama":"Damiano-Guercio J, Kurzawa L, Müller J, et al. Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent adhesion. <i>eLife</i>. 2020;9. doi:<a href=\"https://doi.org/10.7554/eLife.55351\">10.7554/eLife.55351</a>","ista":"Damiano-Guercio J, Kurzawa L, Müller J, Dimchev GA, Schaks M, Nemethova M, Pokrant T, Brühmann S, Linkner J, Blanchoin L, Sixt MK, Rottner K, Faix J. 2020. Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent adhesion. eLife. 9, e55351.","mla":"Damiano-Guercio, Julia, et al. “Loss of Ena/VASP Interferes with Lamellipodium Architecture, Motility and Integrin-Dependent Adhesion.” <i>ELife</i>, vol. 9, e55351, eLife Sciences Publications, 2020, doi:<a href=\"https://doi.org/10.7554/eLife.55351\">10.7554/eLife.55351</a>.","chicago":"Damiano-Guercio, Julia, Laëtitia Kurzawa, Jan Müller, Georgi A Dimchev, Matthias Schaks, Maria Nemethova, Thomas Pokrant, et al. “Loss of Ena/VASP Interferes with Lamellipodium Architecture, Motility and Integrin-Dependent Adhesion.” <i>ELife</i>. eLife Sciences Publications, 2020. <a href=\"https://doi.org/10.7554/eLife.55351\">https://doi.org/10.7554/eLife.55351</a>."},"volume":9,"oa":1,"project":[{"grant_number":"724373","call_identifier":"H2020","name":"Cellular Navigation Along Spatial Gradients","_id":"25FE9508-B435-11E9-9278-68D0E5697425"}],"date_created":"2020-05-31T22:00:49Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"eissn":["2050-084X"]},"year":"2020","pmid":1,"external_id":{"isi":["000537208000001"],"pmid":["32391788"]},"publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"doi":"10.7554/eLife.55351","oa_version":"Published Version","language":[{"iso":"eng"}],"type":"journal_article","abstract":[{"lang":"eng","text":"Cell migration entails networks and bundles of actin filaments termed lamellipodia and microspikes or filopodia, respectively, as well as focal adhesions, all of which recruit Ena/VASP family members hitherto thought to antagonize efficient cell motility. However, we find these proteins to act as positive regulators of migration in different murine cell lines. CRISPR/Cas9-mediated loss of Ena/VASP proteins reduced lamellipodial actin assembly and perturbed lamellipodial architecture, as evidenced by changed network geometry as well as reduction of filament length and number that was accompanied by abnormal Arp2/3 complex and heterodimeric capping protein accumulation. Loss of Ena/VASP function also abolished the formation of microspikes normally embedded in lamellipodia, but not of filopodia capable of emanating without lamellipodia. Ena/VASP-deficiency also impaired integrin-mediated adhesion accompanied by reduced traction forces exerted through these structures. Our data thus uncover novel Ena/VASP functions of these actin polymerases that are fully consistent with their promotion of cell migration."}],"intvolume":"         9","month":"05","isi":1,"status":"public","date_published":"2020-05-11T00:00:00Z","file_date_updated":"2020-07-14T12:48:05Z","author":[{"first_name":"Julia","full_name":"Damiano-Guercio, Julia","last_name":"Damiano-Guercio"},{"full_name":"Kurzawa, Laëtitia","first_name":"Laëtitia","last_name":"Kurzawa"},{"first_name":"Jan","full_name":"Müller, Jan","last_name":"Müller","id":"AD07FDB4-0F61-11EA-8158-C4CC64CEAA8D"},{"id":"38C393BE-F248-11E8-B48F-1D18A9856A87","last_name":"Dimchev","first_name":"Georgi A","full_name":"Dimchev, Georgi A","orcid":"0000-0001-8370-6161"},{"first_name":"Matthias","full_name":"Schaks, Matthias","last_name":"Schaks"},{"first_name":"Maria","full_name":"Nemethova, Maria","last_name":"Nemethova","id":"34E27F1C-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Pokrant","first_name":"Thomas","full_name":"Pokrant, Thomas"},{"last_name":"Brühmann","full_name":"Brühmann, Stefan","first_name":"Stefan"},{"last_name":"Linkner","first_name":"Joern","full_name":"Linkner, Joern"},{"last_name":"Blanchoin","first_name":"Laurent","full_name":"Blanchoin, Laurent"},{"full_name":"Sixt, Michael K","first_name":"Michael K","orcid":"0000-0002-6620-9179","last_name":"Sixt","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Rottner, Klemens","first_name":"Klemens","last_name":"Rottner"},{"full_name":"Faix, Jan","first_name":"Jan","last_name":"Faix"}],"ec_funded":1,"has_accepted_license":"1","scopus_import":"1","article_type":"original","title":"Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent adhesion","date_updated":"2026-04-02T14:32:12Z","day":"11"},{"article_number":"eabc4209","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"EM-Fac"}],"_id":"8737","ddc":["572"],"publication":"Science","year":"2020","acknowledgement":"We thank J. Novacek (CEITEC Brno) and V.-V. Hodirnau (IST Austria) for their help with collecting cryo-EM datasets. We thank the IST Life Science and Electron Microscopy Facilities for providing equipment. This work has been supported by iNEXT,project number 653706, funded by the Horizon 2020 program of the European Union. This article reflects only the authors’view,and the European Commission is not responsible for any use that may be made of the information it contains. CIISB research infrastructure project LM2015043 funded by MEYS CR is gratefully acknowledged for the financial support of the measurements at the CF Cryo-electron Microscopy and Tomography CEITEC MU.This project has received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement no. 665385","pmid":1,"external_id":{"pmid":["32972993"],"isi":["000583031800004"]},"date_created":"2020-11-08T23:01:23Z","publication_identifier":{"eissn":["1095-9203"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","citation":{"ieee":"D. Kampjut and L. A. Sazanov, “The coupling mechanism of mammalian respiratory complex I,” <i>Science</i>, vol. 370, no. 6516. American Association for the Advancement of Science, 2020.","apa":"Kampjut, D., &#38; Sazanov, L. A. (2020). The coupling mechanism of mammalian respiratory complex I. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.abc4209\">https://doi.org/10.1126/science.abc4209</a>","ama":"Kampjut D, Sazanov LA. The coupling mechanism of mammalian respiratory complex I. <i>Science</i>. 2020;370(6516). doi:<a href=\"https://doi.org/10.1126/science.abc4209\">10.1126/science.abc4209</a>","short":"D. Kampjut, L.A. Sazanov, Science 370 (2020).","ista":"Kampjut D, Sazanov LA. 2020. The coupling mechanism of mammalian respiratory complex I. Science. 370(6516), eabc4209.","chicago":"Kampjut, Domen, and Leonid A Sazanov. “The Coupling Mechanism of Mammalian Respiratory Complex I.” <i>Science</i>. American Association for the Advancement of Science, 2020. <a href=\"https://doi.org/10.1126/science.abc4209\">https://doi.org/10.1126/science.abc4209</a>.","mla":"Kampjut, Domen, and Leonid A. Sazanov. “The Coupling Mechanism of Mammalian Respiratory Complex I.” <i>Science</i>, vol. 370, no. 6516, eabc4209, American Association for the Advancement of Science, 2020, doi:<a href=\"https://doi.org/10.1126/science.abc4209\">10.1126/science.abc4209</a>."},"volume":370,"oa":1,"issue":"6516","project":[{"name":"International IST Doctoral Program","grant_number":"665385","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","article_processing_charge":"No","file":[{"file_id":"8820","content_type":"application/pdf","access_level":"open_access","creator":"lsazanov","relation":"main_file","date_created":"2020-11-26T18:47:58Z","checksum":"658ba90979ca9528a2efdfac8547047a","file_size":7618987,"date_updated":"2020-11-26T18:47:58Z","success":1,"file_name":"Full_manuscript_with_SI_opt_red.pdf"}],"publisher":"American Association for the Advancement of Science","department":[{"_id":"LeSa"}],"intvolume":"       370","isi":1,"month":"10","status":"public","abstract":[{"lang":"eng","text":"Mitochondrial complex I couples NADH:ubiquinone oxidoreduction to proton pumping by an unknown mechanism. Here, we present cryo-electron microscopy structures of ovine complex I in five different conditions, including turnover, at resolutions up to 2.3 to 2.5 angstroms. Resolved water molecules allowed us to experimentally define the proton translocation pathways. Quinone binds at three positions along the quinone cavity, as does the inhibitor rotenone that also binds within subunit ND4. Dramatic conformational changes around the quinone cavity couple the redox reaction to proton translocation during open-to-closed state transitions of the enzyme. In the induced deactive state, the open conformation is arrested by the ND6 subunit. We propose a detailed molecular coupling mechanism of complex I, which is an unexpected combination of conformational changes and electrostatic interactions."}],"type":"journal_article","language":[{"iso":"eng"}],"publication_status":"published","doi":"10.1126/science.abc4209","oa_version":"Submitted Version","day":"30","article_type":"original","title":"The coupling mechanism of mammalian respiratory complex I","date_updated":"2026-04-02T14:32:34Z","ec_funded":1,"has_accepted_license":"1","scopus_import":"1","date_published":"2020-10-30T00:00:00Z","file_date_updated":"2020-11-26T18:47:58Z","author":[{"last_name":"Kampjut","id":"37233050-F248-11E8-B48F-1D18A9856A87","first_name":"Domen","full_name":"Kampjut, Domen","orcid":"0000-0002-6018-3422"},{"full_name":"Sazanov, Leonid A","first_name":"Leonid A","orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","last_name":"Sazanov"}]},{"doi":"10.1088/1742-5468/ab6093","oa_version":"Published Version","publication_status":"published","arxiv":1,"language":[{"iso":"eng"}],"type":"journal_article","abstract":[{"lang":"eng","text":"Following on from our recent work, we investigate a stochastic approach to non-equilibrium quantum spin systems. We show how the method can be applied to a variety of physical observables and for different initial conditions. We provide exact formulae of broad applicability for the time-dependence of expectation values and correlation functions following a quantum quench in terms of averages over classical stochastic processes. We further explore the behavior of the classical stochastic variables in the presence of dynamical quantum phase transitions, including results for their distributions and correlation functions. We provide details on the numerical solution of the associated stochastic differential equations, and examine the growth of fluctuations in the classical description. We discuss the strengths and limitations of the current implementation of the stochastic approach and the potential for further development."}],"isi":1,"month":"01","status":"public","intvolume":"      2020","author":[{"id":"42832B76-F248-11E8-B48F-1D18A9856A87","last_name":"De Nicola","first_name":"Stefano","full_name":"De Nicola, Stefano","orcid":"0000-0002-4842-6671"},{"full_name":"Doyon, B.","first_name":"B.","last_name":"Doyon"},{"first_name":"M. J.","full_name":"Bhaseen, M. J.","last_name":"Bhaseen"}],"date_published":"2020-01-22T00:00:00Z","file_date_updated":"2020-07-14T12:48:01Z","scopus_import":"1","ec_funded":1,"has_accepted_license":"1","article_type":"original","title":"Non-equilibrium quantum spin dynamics from classical stochastic processes","date_updated":"2026-04-02T14:33:33Z","day":"22","publication":"Journal of Statistical Mechanics: Theory and Experiment","corr_author":"1","ddc":["530"],"_id":"7638","article_number":"013106","file":[{"relation":"main_file","creator":"dernst","file_id":"7648","access_level":"open_access","content_type":"application/pdf","file_name":"2020_JournStatisticalMech_DeNicola.pdf","checksum":"4030e683c15d30b7b4794ec7dc1b6537","date_created":"2020-04-06T13:15:49Z","date_updated":"2020-07-14T12:48:01Z","file_size":3159026}],"publisher":"IOP Publishing","department":[{"_id":"MaSe"}],"quality_controlled":"1","article_processing_charge":"No","issue":"1","project":[{"call_identifier":"H2020","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425"},{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"citation":{"ista":"De Nicola S, Doyon B, Bhaseen MJ. 2020. Non-equilibrium quantum spin dynamics from classical stochastic processes. Journal of Statistical Mechanics: Theory and Experiment. 2020(1), 013106.","mla":"De Nicola, Stefano, et al. “Non-Equilibrium Quantum Spin Dynamics from Classical Stochastic Processes.” <i>Journal of Statistical Mechanics: Theory and Experiment</i>, vol. 2020, no. 1, 013106, IOP Publishing, 2020, doi:<a href=\"https://doi.org/10.1088/1742-5468/ab6093\">10.1088/1742-5468/ab6093</a>.","chicago":"De Nicola, Stefano, B. Doyon, and M. J. Bhaseen. “Non-Equilibrium Quantum Spin Dynamics from Classical Stochastic Processes.” <i>Journal of Statistical Mechanics: Theory and Experiment</i>. IOP Publishing, 2020. <a href=\"https://doi.org/10.1088/1742-5468/ab6093\">https://doi.org/10.1088/1742-5468/ab6093</a>.","ieee":"S. De Nicola, B. Doyon, and M. J. Bhaseen, “Non-equilibrium quantum spin dynamics from classical stochastic processes,” <i>Journal of Statistical Mechanics: Theory and Experiment</i>, vol. 2020, no. 1. IOP Publishing, 2020.","apa":"De Nicola, S., Doyon, B., &#38; Bhaseen, M. J. (2020). Non-equilibrium quantum spin dynamics from classical stochastic processes. <i>Journal of Statistical Mechanics: Theory and Experiment</i>. IOP Publishing. <a href=\"https://doi.org/10.1088/1742-5468/ab6093\">https://doi.org/10.1088/1742-5468/ab6093</a>","ama":"De Nicola S, Doyon B, Bhaseen MJ. Non-equilibrium quantum spin dynamics from classical stochastic processes. <i>Journal of Statistical Mechanics: Theory and Experiment</i>. 2020;2020(1). doi:<a href=\"https://doi.org/10.1088/1742-5468/ab6093\">10.1088/1742-5468/ab6093</a>","short":"S. De Nicola, B. Doyon, M.J. Bhaseen, Journal of Statistical Mechanics: Theory and Experiment 2020 (2020)."},"oa":1,"volume":2020,"publication_identifier":{"eissn":["1742-5468"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_created":"2020-04-05T22:00:50Z","external_id":{"isi":["000520187500001"],"arxiv":["1909.13142"]},"year":"2020"}]