[{"doi":"10.1109/TCAD.2020.3012803","article_processing_charge":"No","date_published":"2020-11-01T00:00:00Z","date_updated":"2026-04-02T14:37:50Z","publication_status":"published","_id":"8788","quality_controlled":"1","intvolume":"        39","month":"11","page":"3981-3992","type":"journal_article","title":"Precedence-aware automated competitive analysis of real-time scheduling","scopus_import":"1","oa_version":"None","isi":1,"citation":{"chicago":"Pavlogiannis, Andreas, Nico Schaumberger, Ulrich Schmid, and Krishnendu Chatterjee. “Precedence-Aware Automated Competitive Analysis of Real-Time Scheduling.” <i>IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems</i>. IEEE, 2020. <a href=\"https://doi.org/10.1109/TCAD.2020.3012803\">https://doi.org/10.1109/TCAD.2020.3012803</a>.","mla":"Pavlogiannis, Andreas, et al. “Precedence-Aware Automated Competitive Analysis of Real-Time Scheduling.” <i>IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems</i>, vol. 39, no. 11, IEEE, 2020, pp. 3981–92, doi:<a href=\"https://doi.org/10.1109/TCAD.2020.3012803\">10.1109/TCAD.2020.3012803</a>.","ama":"Pavlogiannis A, Schaumberger N, Schmid U, Chatterjee K. Precedence-aware automated competitive analysis of real-time scheduling. <i>IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems</i>. 2020;39(11):3981-3992. doi:<a href=\"https://doi.org/10.1109/TCAD.2020.3012803\">10.1109/TCAD.2020.3012803</a>","ista":"Pavlogiannis A, Schaumberger N, Schmid U, Chatterjee K. 2020. Precedence-aware automated competitive analysis of real-time scheduling. IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems. 39(11), 3981–3992.","short":"A. Pavlogiannis, N. Schaumberger, U. Schmid, K. Chatterjee, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems 39 (2020) 3981–3992.","apa":"Pavlogiannis, A., Schaumberger, N., Schmid, U., &#38; Chatterjee, K. (2020). Precedence-aware automated competitive analysis of real-time scheduling. <i>IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems</i>. IEEE. <a href=\"https://doi.org/10.1109/TCAD.2020.3012803\">https://doi.org/10.1109/TCAD.2020.3012803</a>","ieee":"A. Pavlogiannis, N. Schaumberger, U. Schmid, and K. Chatterjee, “Precedence-aware automated competitive analysis of real-time scheduling,” <i>IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems</i>, vol. 39, no. 11. IEEE, pp. 3981–3992, 2020."},"publication":"IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems","day":"01","external_id":{"isi":["000587712700069"]},"project":[{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","call_identifier":"FWF","name":"Rigorous Systems Engineering"},{"name":"Game Theory","call_identifier":"FWF","grant_number":"S11407","_id":"25863FF4-B435-11E9-9278-68D0E5697425"}],"publisher":"IEEE","date_created":"2020-11-22T23:01:24Z","acknowledgement":"This work was supported by the Austrian Science Foundation (FWF) under the NFN RiSE/SHiNE under Grant S11405 and Grant S11407. This article was presented in the International Conference on Embedded Software 2020 and appears as part of the ESWEEK-TCAD special issue. ","issue":"11","abstract":[{"text":"We consider a real-time setting where an environment releases sequences of firm-deadline tasks, and an online scheduler chooses on-the-fly the ones to execute on a single processor so as to maximize cumulated utility. The competitive ratio is a well-known performance measure for the scheduler: it gives the worst-case ratio, among all possible choices for the environment, of the cumulated utility of the online scheduler versus an offline scheduler that knows these choices in advance. Traditionally, competitive analysis is performed by hand, while automated techniques are rare and only handle static environments with independent tasks. We present a quantitative-verification framework for precedence-aware competitive analysis, where task releases may depend on preceding scheduling choices, i.e., the environment can respond to scheduling decisions dynamically . We consider two general classes of precedences: 1) follower precedences force the release of a dependent task upon the completion of a set of precursor tasks, while and 2) pairing precedences modify the characteristics of a dependent task provided the completion of a set of precursor tasks. Precedences make competitive analysis challenging, as the online and offline schedulers operate on diverging sequences. We make a formal presentation of our framework, and use a GPU-based implementation to analyze ten well-known schedulers on precedence-based application examples taken from the existing literature: 1) a handshake protocol (HP); 2) network packet-switching; 3) query scheduling (QS); and 4) a sporadic-interrupt setting. Our experimental results show that precedences and task parameters can vary drastically the best scheduler. Our framework thus supports application designers in choosing the best scheduler among a given set automatically.","lang":"eng"}],"article_type":"original","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"eissn":["1937-4151"],"issn":["0278-0070"]},"volume":39,"year":"2020","language":[{"iso":"eng"}],"author":[{"first_name":"Andreas","last_name":"Pavlogiannis","id":"49704004-F248-11E8-B48F-1D18A9856A87","full_name":"Pavlogiannis, Andreas","orcid":"0000-0002-8943-0722"},{"last_name":"Schaumberger","first_name":"Nico","full_name":"Schaumberger, Nico"},{"first_name":"Ulrich","last_name":"Schmid","full_name":"Schmid, Ulrich"},{"orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","first_name":"Krishnendu"}],"department":[{"_id":"KrCh"}],"status":"public"},{"publication":"Nature Communications","day":"27","external_id":{"pmid":["32855409"],"isi":["000567931000001"]},"isi":1,"file":[{"file_id":"8936","checksum":"5b96f39b598de7510cfefefb819b9a6d","relation":"main_file","creator":"dernst","success":1,"file_name":"2020_NatureComm_Antoniadi.pdf","access_level":"open_access","date_created":"2020-12-10T12:23:56Z","file_size":3526415,"content_type":"application/pdf","date_updated":"2020-12-10T12:23:56Z"}],"citation":{"chicago":"Antoniadi, Ioanna, Ondřej Novák, Zuzana Gelová, Alexander J Johnson, Ondřej Plíhal, Radim Simerský, Václav Mik, et al. “Cell-Surface Receptors Enable Perception of Extracellular Cytokinins.” <i>Nature Communications</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41467-020-17700-9\">https://doi.org/10.1038/s41467-020-17700-9</a>.","mla":"Antoniadi, Ioanna, et al. “Cell-Surface Receptors Enable Perception of Extracellular Cytokinins.” <i>Nature Communications</i>, vol. 11, 4284, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41467-020-17700-9\">10.1038/s41467-020-17700-9</a>.","ama":"Antoniadi I, Novák O, Gelová Z, et al. Cell-surface receptors enable perception of extracellular cytokinins. <i>Nature Communications</i>. 2020;11. doi:<a href=\"https://doi.org/10.1038/s41467-020-17700-9\">10.1038/s41467-020-17700-9</a>","ista":"Antoniadi I, Novák O, Gelová Z, Johnson AJ, Plíhal O, Simerský R, Mik V, Vain T, Mateo-Bonmatí E, Karady M, Pernisová M, Plačková L, Opassathian K, Hejátko J, Robert S, Friml J, Doležal K, Ljung K, Turnbull C. 2020. Cell-surface receptors enable perception of extracellular cytokinins. Nature Communications. 11, 4284.","apa":"Antoniadi, I., Novák, O., Gelová, Z., Johnson, A. J., Plíhal, O., Simerský, R., … Turnbull, C. (2020). Cell-surface receptors enable perception of extracellular cytokinins. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-020-17700-9\">https://doi.org/10.1038/s41467-020-17700-9</a>","short":"I. Antoniadi, O. Novák, Z. Gelová, A.J. Johnson, O. Plíhal, R. Simerský, V. Mik, T. Vain, E. Mateo-Bonmatí, M. Karady, M. Pernisová, L. Plačková, K. Opassathian, J. Hejátko, S. Robert, J. Friml, K. Doležal, K. Ljung, C. Turnbull, Nature Communications 11 (2020).","ieee":"I. Antoniadi <i>et al.</i>, “Cell-surface receptors enable perception of extracellular cytokinins,” <i>Nature Communications</i>, vol. 11. Springer Nature, 2020."},"oa_version":"Published Version","title":"Cell-surface receptors enable perception of extracellular cytokinins","type":"journal_article","pmid":1,"scopus_import":"1","_id":"8337","date_updated":"2026-04-03T09:25:48Z","publication_status":"published","intvolume":"        11","month":"08","quality_controlled":"1","date_published":"2020-08-27T00:00:00Z","ec_funded":1,"article_processing_charge":"No","doi":"10.1038/s41467-020-17700-9","article_number":"4284","ddc":["580"],"status":"public","department":[{"_id":"JiFr"}],"author":[{"first_name":"Ioanna","last_name":"Antoniadi","full_name":"Antoniadi, Ioanna"},{"full_name":"Novák, Ondřej","first_name":"Ondřej","last_name":"Novák"},{"orcid":"0000-0003-4783-1752","full_name":"Gelová, Zuzana","id":"0AE74790-0E0B-11E9-ABC7-1ACFE5697425","last_name":"Gelová","first_name":"Zuzana"},{"first_name":"Alexander J","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","last_name":"Johnson","full_name":"Johnson, Alexander J","orcid":"0000-0002-2739-8843"},{"first_name":"Ondřej","last_name":"Plíhal","full_name":"Plíhal, Ondřej"},{"first_name":"Radim","last_name":"Simerský","full_name":"Simerský, Radim"},{"first_name":"Václav","last_name":"Mik","full_name":"Mik, Václav"},{"first_name":"Thomas","last_name":"Vain","full_name":"Vain, Thomas"},{"full_name":"Mateo-Bonmatí, Eduardo","first_name":"Eduardo","last_name":"Mateo-Bonmatí"},{"first_name":"Michal","last_name":"Karady","full_name":"Karady, Michal"},{"first_name":"Markéta","last_name":"Pernisová","full_name":"Pernisová, Markéta"},{"first_name":"Lenka","last_name":"Plačková","full_name":"Plačková, Lenka"},{"full_name":"Opassathian, Korawit","last_name":"Opassathian","first_name":"Korawit"},{"full_name":"Hejátko, Jan","last_name":"Hejátko","first_name":"Jan"},{"full_name":"Robert, Stéphanie","last_name":"Robert","first_name":"Stéphanie"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"full_name":"Doležal, Karel","first_name":"Karel","last_name":"Doležal"},{"first_name":"Karin","last_name":"Ljung","full_name":"Ljung, Karin"},{"first_name":"Colin","last_name":"Turnbull","full_name":"Turnbull, Colin"}],"year":"2020","language":[{"iso":"eng"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","article_type":"original","publication_identifier":{"eissn":["2041-1723"]},"volume":11,"acknowledged_ssus":[{"_id":"Bio"}],"acknowledgement":"We thank Bruno Müller and Aaron Rashotte for critical discussions and provision of plant lines used in this work, Roger Granbom and Tamara Hernández Verdeja (UPSC, Umeå, Sweden) for technical assistance and providing materials, Zuzana Pěkná and Karolina Wojewodová (CRH, Palacký University, Olomouc, Czech Republic) for help with cytokinin receptor binding assays, and David Zalabák (CRH, Palacký University, Olomouc, Czech Republic) for provision of vector pINIIIΔEH expressing CRE1/AHK4. The bioimaging facility of IST Austria, the Swedish Metabolomics Centre and the IST Austria Bio-Imaging facility are acknowledged for support. The work was funded by the European Molecular Biology Organization (EMBO ASTF 297-2013) (I.A.), Development—The Company of Biologists (DEVTF2012) (I.A.; C.T.), Plant Fellows (the International Post doc Fellowship Programme in Plant Sciences, 267423) (I.A.; K.L.), the Swedish Research Council (621-2014-4514) (K.L.), UPSC Berzelii Center for Forest Biotechnology (Vinnova 2012-01560), Kempestiftelserna (JCK-2711) (K.L.) and (JCK-1811) (E.-M.B., K.L.). The Ministry of Education, Youth and Sports of the Czech Republic via the European Regional Development Fund-Project “Plants as a tool for sustainable global development” (CZ.02.1.01/0.0/0.0/16_019/0000827) (O.N., O.P., R.S., V.M., L.P., K.D.) and project CEITEC 2020 (LQ1601) (M.P., J.H.) provided support, as did the Czech Science Foundation via projects GP14-30004P (M.P.) and 16-04184S (O.P., K.D., O.N.), Vetenskapsrådet and Vinnova (Verket för Innovationssystem) (T.V., S.R.), Knut och Alice Wallenbergs Stiftelse via “Shapesystem” grant number 2012.0050. A.J. was supported by the Austria Science Fund (FWF): I03630 to J.F. The research leading to these results received funding from European Union’s Horizon 2020 programme (ERC grant no. 742985) and FWO-FWF joint project G0E5718N to J.F.","abstract":[{"lang":"eng","text":"Cytokinins are mobile multifunctional plant hormones with roles in development and stress resilience. Although their Histidine Kinase receptors are substantially localised to the endoplasmic reticulum, cellular sites of cytokinin perception and importance of spatially heterogeneous cytokinin distribution continue to be debated. Here we show that cytokinin perception by plasma membrane receptors is an effective additional path for cytokinin response. Readout from a Two Component Signalling cytokinin-specific reporter (TCSn::GFP) closely matches intracellular cytokinin content in roots, yet we also find cytokinins in extracellular fluid, potentially enabling action at the cell surface. Cytokinins covalently linked to beads that could not pass the plasma membrane increased expression of both TCSn::GFP and Cytokinin Response Factors. Super-resolution microscopy of GFP-labelled receptors and diminished TCSn::GFP response to immobilised cytokinins in cytokinin receptor mutants, further indicate that receptors can function at the cell surface. We argue that dual intracellular and surface locations may augment flexibility of cytokinin responses."}],"file_date_updated":"2020-12-10T12:23:56Z","date_created":"2020-09-06T22:01:13Z","publisher":"Springer Nature","oa":1,"has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"project":[{"_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630","call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants"},{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}]},{"acknowledgement":"We thank Elisa Sentis and Solano Henriquez for their expert technical assistance. Dr. David Sterratt for his helpful advice in using the Retistruct package. Dr. Joao Botelho for his valuable assistance in scanning the retinas. To Mrs. Diane Greenstein for kindly reading and correcting our manuscript. Macarena Ruiz for her helpful comments during figures elaboration. Dr. Alexia Nunez-Parra for kindly providing us with the transgenic mouse line. Dr. Harald Luksch for granting us access to the confocal microscope at his lab. This study was supported by: FONDECYT 1151432 (to G.M.), FONDECYT 1170027 (to J.M.) and Doctoral fellowship CONICYT 21161599 (to A.D.).","abstract":[{"lang":"eng","text":"The parabigeminal nucleus (PBG) is the mammalian homologue to the isthmic complex of other vertebrates. Optogenetic stimulation of the PBG induces freezing and escape in mice, a result thought to be caused by a PBG projection to the central nucleus of the amygdala. However, the isthmic complex, including the PBG, has been classically considered satellite nuclei of the Superior Colliculus (SC), which upon stimulation of its medial part also triggers fear and avoidance reactions. As the PBG-SC connectivity is not well characterized, we investigated whether the topology of the PBG projection to the SC could be related to the behavioral consequences of PBG stimulation. To that end, we performed immunohistochemistry, in situ hybridization and neural tracer injections in the SC and PBG in a diurnal rodent, the Octodon degus. We found that all PBG neurons expressed both glutamatergic and cholinergic markers and were distributed in clearly defined anterior (aPBG) and posterior (pPBG) subdivisions. The pPBG is connected reciprocally and topographically to the ipsilateral SC, whereas the aPBG receives afferent axons from the ipsilateral SC and projected exclusively to the contralateral SC. This contralateral projection forms a dense field of terminals that is restricted to the medial SC, in correspondence with the SC representation of the aerial binocular field which, we also found, in O. degus prompted escape reactions upon looming stimulation. Therefore, this specialized topography allows binocular interactions in the SC region controlling responses to aerial predators, suggesting a link between the mechanisms by which the SC and PBG produce defensive behaviors."}],"article_type":"original","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","volume":10,"publication_identifier":{"eissn":["2045-2322"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","file_date_updated":"2020-10-12T12:39:10Z","oa":1,"publisher":"Springer Nature","date_created":"2020-10-11T22:01:14Z","status":"public","ddc":["570"],"year":"2020","language":[{"iso":"eng"}],"author":[{"last_name":"Deichler","first_name":"Alfonso","full_name":"Deichler, Alfonso"},{"first_name":"Denisse","last_name":"Carrasco","full_name":"Carrasco, Denisse"},{"full_name":"Lopez-Jury, Luciana","last_name":"Lopez-Jury","first_name":"Luciana"},{"id":"2E7C4E78-F248-11E8-B48F-1D18A9856A87","last_name":"Vega Zuniga","first_name":"Tomas A","full_name":"Vega Zuniga, Tomas A"},{"full_name":"Marquez, Natalia","first_name":"Natalia","last_name":"Marquez"},{"first_name":"Jorge","last_name":"Mpodozis","full_name":"Mpodozis, Jorge"},{"full_name":"Marin, Gonzalo","last_name":"Marin","first_name":"Gonzalo"}],"department":[{"_id":"MaJö"}],"date_published":"2020-10-01T00:00:00Z","publication_status":"published","date_updated":"2026-04-03T09:26:41Z","_id":"8643","quality_controlled":"1","month":"10","intvolume":"        10","article_number":"16220","doi":"10.1038/s41598-020-72848-0","article_processing_charge":"No","file":[{"content_type":"application/pdf","date_updated":"2020-10-12T12:39:10Z","file_id":"8651","checksum":"f6dd99954f1c0ffb4da5a1d2d739bf31","relation":"main_file","success":1,"creator":"dernst","file_name":"2020_ScientificReport_Deichler.pdf","access_level":"open_access","date_created":"2020-10-12T12:39:10Z","file_size":3906744}],"isi":1,"citation":{"ama":"Deichler A, Carrasco D, Lopez-Jury L, et al. A specialized reciprocal connectivity suggests a link between the mechanisms by which the superior colliculus and parabigeminal nucleus produce defensive behaviors in rodents. <i>Scientific Reports</i>. 2020;10. doi:<a href=\"https://doi.org/10.1038/s41598-020-72848-0\">10.1038/s41598-020-72848-0</a>","mla":"Deichler, Alfonso, et al. “A Specialized Reciprocal Connectivity Suggests a Link between the Mechanisms by Which the Superior Colliculus and Parabigeminal Nucleus Produce Defensive Behaviors in Rodents.” <i>Scientific Reports</i>, vol. 10, 16220, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41598-020-72848-0\">10.1038/s41598-020-72848-0</a>.","chicago":"Deichler, Alfonso, Denisse Carrasco, Luciana Lopez-Jury, Tomas A Vega Zuniga, Natalia Marquez, Jorge Mpodozis, and Gonzalo Marin. “A Specialized Reciprocal Connectivity Suggests a Link between the Mechanisms by Which the Superior Colliculus and Parabigeminal Nucleus Produce Defensive Behaviors in Rodents.” <i>Scientific Reports</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41598-020-72848-0\">https://doi.org/10.1038/s41598-020-72848-0</a>.","ista":"Deichler A, Carrasco D, Lopez-Jury L, Vega Zuniga TA, Marquez N, Mpodozis J, Marin G. 2020. A specialized reciprocal connectivity suggests a link between the mechanisms by which the superior colliculus and parabigeminal nucleus produce defensive behaviors in rodents. Scientific Reports. 10, 16220.","ieee":"A. Deichler <i>et al.</i>, “A specialized reciprocal connectivity suggests a link between the mechanisms by which the superior colliculus and parabigeminal nucleus produce defensive behaviors in rodents,” <i>Scientific Reports</i>, vol. 10. Springer Nature, 2020.","apa":"Deichler, A., Carrasco, D., Lopez-Jury, L., Vega Zuniga, T. A., Marquez, N., Mpodozis, J., &#38; Marin, G. (2020). A specialized reciprocal connectivity suggests a link between the mechanisms by which the superior colliculus and parabigeminal nucleus produce defensive behaviors in rodents. <i>Scientific Reports</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41598-020-72848-0\">https://doi.org/10.1038/s41598-020-72848-0</a>","short":"A. Deichler, D. Carrasco, L. Lopez-Jury, T.A. Vega Zuniga, N. Marquez, J. Mpodozis, G. Marin, Scientific Reports 10 (2020)."},"day":"01","publication":"Scientific Reports","external_id":{"pmid":["33004866"],"isi":["000577142600032"]},"pmid":1,"type":"journal_article","title":"A specialized reciprocal connectivity suggests a link between the mechanisms by which the superior colliculus and parabigeminal nucleus produce defensive behaviors in rodents","scopus_import":"1","oa_version":"Published Version"},{"article_number":"200599","doi":"10.1098/rsos.200599","article_processing_charge":"No","date_published":"2020-06-01T00:00:00Z","publication_status":"published","date_updated":"2026-04-03T09:26:55Z","_id":"8741","quality_controlled":"1","month":"06","intvolume":"         7","type":"journal_article","title":"Emergence of cascading dynamics in interacting tipping elements of ecology and climate: Cascading dynamics in tipping elements","pmid":1,"scopus_import":"1","oa_version":"Published Version","file":[{"date_updated":"2020-11-09T09:07:11Z","content_type":"application/pdf","file_size":1611485,"file_name":"2020_RoyalSocOpenScience_Klose.pdf","access_level":"open_access","date_created":"2020-11-09T09:07:11Z","success":1,"creator":"dernst","checksum":"5505c445de373bfd836eb4d3b48b1f37","relation":"main_file","file_id":"8748"}],"isi":1,"citation":{"short":"A.K. Klose, V. Karle, R. Winkelmann, J.F. Donges, Royal Society Open Science 7 (2020).","apa":"Klose, A. K., Karle, V., Winkelmann, R., &#38; Donges, J. F. (2020). Emergence of cascading dynamics in interacting tipping elements of ecology and climate: Cascading dynamics in tipping elements. <i>Royal Society Open Science</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rsos.200599\">https://doi.org/10.1098/rsos.200599</a>","ieee":"A. K. Klose, V. Karle, R. Winkelmann, and J. F. Donges, “Emergence of cascading dynamics in interacting tipping elements of ecology and climate: Cascading dynamics in tipping elements,” <i>Royal Society Open Science</i>, vol. 7, no. 6. The Royal Society, 2020.","ista":"Klose AK, Karle V, Winkelmann R, Donges JF. 2020. Emergence of cascading dynamics in interacting tipping elements of ecology and climate: Cascading dynamics in tipping elements. Royal Society Open Science. 7(6), 200599.","chicago":"Klose, Ann Kristin, Volker Karle, Ricarda Winkelmann, and Jonathan F. Donges. “Emergence of Cascading Dynamics in Interacting Tipping Elements of Ecology and Climate: Cascading Dynamics in Tipping Elements.” <i>Royal Society Open Science</i>. The Royal Society, 2020. <a href=\"https://doi.org/10.1098/rsos.200599\">https://doi.org/10.1098/rsos.200599</a>.","mla":"Klose, Ann Kristin, et al. “Emergence of Cascading Dynamics in Interacting Tipping Elements of Ecology and Climate: Cascading Dynamics in Tipping Elements.” <i>Royal Society Open Science</i>, vol. 7, no. 6, 200599, The Royal Society, 2020, doi:<a href=\"https://doi.org/10.1098/rsos.200599\">10.1098/rsos.200599</a>.","ama":"Klose AK, Karle V, Winkelmann R, Donges JF. Emergence of cascading dynamics in interacting tipping elements of ecology and climate: Cascading dynamics in tipping elements. <i>Royal Society Open Science</i>. 2020;7(6). doi:<a href=\"https://doi.org/10.1098/rsos.200599\">10.1098/rsos.200599</a>"},"publication":"Royal Society Open Science","day":"01","external_id":{"isi":["000545625200001"],"arxiv":["1910.12042"],"pmid":["32742700"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","file_date_updated":"2020-11-09T09:07:11Z","oa":1,"publisher":"The Royal Society","date_created":"2020-11-08T23:01:25Z","acknowledgement":"V.K. thanks the German National Academic Foundation (Studienstiftung des deutschen Volkes) for financial\r\nsupport. J.F.D. is grateful for financial support by the Stordalen Foundation via the Planetary Boundary Research\r\nNetwork (PB.net), the Earth League’s EarthDoc program and the European Research Council Advanced Grant\r\nproject ERA (Earth Resilience in the Anthropocene). We are thankful for support by the Leibniz Association\r\n(project DominoES).\r\nAcknowledgements. This work has been performed in the context of the copan collaboration and the FutureLab on Earth\r\nResilience in the Anthropocene at the Potsdam Institute for Climate Impact Research. Furthermore, we acknowledge\r\ndiscussions with and helpful comments by N. Wunderling, J. Heitzig and M. Wiedermann.","arxiv":1,"issue":"6","abstract":[{"text":"In ecology, climate and other fields, (sub)systems have been identified that can transition into a qualitatively different state when a critical threshold or tipping point in a driving process is crossed. An understanding of those tipping elements is of great interest given the increasing influence of humans on the biophysical Earth system. Complex interactions exist between tipping elements, e.g. physical mechanisms connect subsystems of the climate system. Based on earlier work on such coupled nonlinear systems, we systematically assessed the qualitative long-term behaviour of interacting tipping elements. We developed an understanding of the consequences of interactions\r\non the tipping behaviour allowing for tipping cascades to emerge under certain conditions. The (narrative) application of\r\nthese qualitative results to real-world examples of interacting tipping elements indicates that tipping cascades with profound consequences may occur: the interacting Greenland ice sheet and thermohaline ocean circulation might tip before the tipping points of the isolated subsystems are crossed. The eutrophication of the first lake in a lake chain might propagate through the following lakes without a crossing of their individual critical nutrient input levels. The possibility of emerging cascading tipping dynamics calls for the development of a unified theory of interacting tipping elements and the quantitative analysis of interacting real-world tipping elements.","lang":"eng"}],"article_type":"original","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"eissn":["2054-5703"]},"volume":7,"language":[{"iso":"eng"}],"year":"2020","author":[{"full_name":"Klose, Ann Kristin","first_name":"Ann Kristin","last_name":"Klose"},{"id":"D7C012AE-D7ED-11E9-95E8-1EC5E5697425","last_name":"Karle","first_name":"Volker","orcid":"0000-0002-6963-0129","full_name":"Karle, Volker"},{"full_name":"Winkelmann, Ricarda","last_name":"Winkelmann","first_name":"Ricarda"},{"last_name":"Donges","first_name":"Jonathan F.","full_name":"Donges, Jonathan F."}],"department":[{"_id":"MiLe"}],"status":"public","ddc":["530","550"]},{"publication_identifier":{"eissn":["2050-084X"]},"volume":9,"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","article_type":"original","abstract":[{"lang":"eng","text":"Unpaired ligands are secreted signals that act via a GP130-like receptor, domeless, to activate JAK/STAT signalling in Drosophila. Like many mammalian cytokines, unpaireds can be activated by infection and other stresses and can promote insulin resistance in target tissues. However, the importance of this effect in non-inflammatory physiology is unknown. Here, we identify a requirement for unpaired-JAK signalling as a metabolic regulator in healthy adult Drosophila muscle. Adult muscles show basal JAK-STAT signalling activity in the absence of any immune challenge. Plasmatocytes (Drosophila macrophages) are an important source of this tonic signal. Loss of the dome receptor on adult muscles significantly reduces lifespan and causes local and systemic metabolic pathology. These pathologies result from hyperactivation of AKT and consequent deregulation of metabolism. Thus, we identify a cytokine signal that must be received in muscle to control AKT activity and metabolic homeostasis."}],"date_created":"2020-02-09T23:00:51Z","oa":1,"publisher":"eLife Sciences Publications","file_date_updated":"2020-07-14T12:47:59Z","project":[{"grant_number":"P29638","_id":"253B6E48-B435-11E9-9278-68D0E5697425","name":"The role of Drosophila TNF alpha in immune cell invasion","call_identifier":"FWF"}],"has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ddc":["570"],"status":"public","department":[{"_id":"DaSi"}],"author":[{"first_name":"Katrin","last_name":"Kierdorf","full_name":"Kierdorf, Katrin"},{"first_name":"Fabian","last_name":"Hersperger","full_name":"Hersperger, Fabian"},{"full_name":"Sharrock, Jessica","first_name":"Jessica","last_name":"Sharrock"},{"first_name":"Crystal M.","last_name":"Vincent","full_name":"Vincent, Crystal M."},{"full_name":"Ustaoglu, Pinar","first_name":"Pinar","last_name":"Ustaoglu"},{"full_name":"Dou, Jiawen","last_name":"Dou","first_name":"Jiawen"},{"full_name":"György, Attila","orcid":"0000-0002-1819-198X","first_name":"Attila","id":"3BCEDBE0-F248-11E8-B48F-1D18A9856A87","last_name":"György"},{"last_name":"Groß","first_name":"Olaf","full_name":"Groß, Olaf"},{"orcid":"0000-0001-8323-8353","full_name":"Siekhaus, Daria E","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","last_name":"Siekhaus","first_name":"Daria E"},{"full_name":"Dionne, Marc S.","last_name":"Dionne","first_name":"Marc S."}],"year":"2020","language":[{"iso":"eng"}],"intvolume":"         9","month":"01","quality_controlled":"1","_id":"7466","publication_status":"published","date_updated":"2026-04-03T09:24:34Z","date_published":"2020-01-20T00:00:00Z","article_processing_charge":"No","doi":"10.7554/eLife.51595","article_number":"e51595","external_id":{"isi":["000512304800001"]},"day":"20","publication":"eLife","citation":{"short":"K. Kierdorf, F. Hersperger, J. Sharrock, C.M. Vincent, P. Ustaoglu, J. Dou, A. György, O. Groß, D.E. Siekhaus, M.S. Dionne, ELife 9 (2020).","apa":"Kierdorf, K., Hersperger, F., Sharrock, J., Vincent, C. M., Ustaoglu, P., Dou, J., … Dionne, M. S. (2020). Muscle function and homeostasis require cytokine inhibition of AKT activity in Drosophila. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.51595\">https://doi.org/10.7554/eLife.51595</a>","ieee":"K. Kierdorf <i>et al.</i>, “Muscle function and homeostasis require cytokine inhibition of AKT activity in Drosophila,” <i>eLife</i>, vol. 9. eLife Sciences Publications, 2020.","chicago":"Kierdorf, Katrin, Fabian Hersperger, Jessica Sharrock, Crystal M. Vincent, Pinar Ustaoglu, Jiawen Dou, Attila György, Olaf Groß, Daria E Siekhaus, and Marc S. Dionne. “Muscle Function and Homeostasis Require Cytokine Inhibition of AKT Activity in Drosophila.” <i>ELife</i>. eLife Sciences Publications, 2020. <a href=\"https://doi.org/10.7554/eLife.51595\">https://doi.org/10.7554/eLife.51595</a>.","mla":"Kierdorf, Katrin, et al. “Muscle Function and Homeostasis Require Cytokine Inhibition of AKT Activity in Drosophila.” <i>ELife</i>, vol. 9, e51595, eLife Sciences Publications, 2020, doi:<a href=\"https://doi.org/10.7554/eLife.51595\">10.7554/eLife.51595</a>.","ama":"Kierdorf K, Hersperger F, Sharrock J, et al. Muscle function and homeostasis require cytokine inhibition of AKT activity in Drosophila. <i>eLife</i>. 2020;9. doi:<a href=\"https://doi.org/10.7554/eLife.51595\">10.7554/eLife.51595</a>","ista":"Kierdorf K, Hersperger F, Sharrock J, Vincent CM, Ustaoglu P, Dou J, György A, Groß O, Siekhaus DE, Dionne MS. 2020. Muscle function and homeostasis require cytokine inhibition of AKT activity in Drosophila. eLife. 9, e51595."},"isi":1,"file":[{"content_type":"application/pdf","date_updated":"2020-07-14T12:47:59Z","creator":"dernst","checksum":"3a072be843f416c7a7d532a51dc0addb","relation":"main_file","file_id":"7470","file_size":4959933,"access_level":"open_access","date_created":"2020-02-10T08:53:16Z","file_name":"2020_eLife_Kierdorf.pdf"}],"oa_version":"Published Version","scopus_import":"1","type":"journal_article","title":"Muscle function and homeostasis require cytokine inhibition of AKT activity in Drosophila"},{"scopus_import":"1","type":"journal_article","pmid":1,"title":"A method for identification of the methylation level of CpG islands from NGS data","oa_version":"Published Version","citation":{"ama":"Uroshlev LA, Abdullaev ET, Umarova IR, et al. A method for identification of the methylation level of CpG islands from NGS data. <i>Scientific Reports</i>. 2020;10. doi:<a href=\"https://doi.org/10.1038/s41598-020-65406-1\">10.1038/s41598-020-65406-1</a>","mla":"Uroshlev, Leonid A., et al. “A Method for Identification of the Methylation Level of CpG Islands from NGS Data.” <i>Scientific Reports</i>, vol. 10, 8635, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41598-020-65406-1\">10.1038/s41598-020-65406-1</a>.","chicago":"Uroshlev, Leonid A., Eldar T. Abdullaev, Iren R. Umarova, Irina A. Il’Icheva, Larisa A. Panchenko, Robert V. Polozov, Fyodor Kondrashov, Yury D. Nechipurenko, and Sergei L. Grokhovsky. “A Method for Identification of the Methylation Level of CpG Islands from NGS Data.” <i>Scientific Reports</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41598-020-65406-1\">https://doi.org/10.1038/s41598-020-65406-1</a>.","ista":"Uroshlev LA, Abdullaev ET, Umarova IR, Il’Icheva IA, Panchenko LA, Polozov RV, Kondrashov F, Nechipurenko YD, Grokhovsky SL. 2020. A method for identification of the methylation level of CpG islands from NGS data. Scientific Reports. 10, 8635.","ieee":"L. A. Uroshlev <i>et al.</i>, “A method for identification of the methylation level of CpG islands from NGS data,” <i>Scientific Reports</i>, vol. 10. Springer Nature, 2020.","apa":"Uroshlev, L. A., Abdullaev, E. T., Umarova, I. R., Il’Icheva, I. A., Panchenko, L. A., Polozov, R. V., … Grokhovsky, S. L. (2020). A method for identification of the methylation level of CpG islands from NGS data. <i>Scientific Reports</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41598-020-65406-1\">https://doi.org/10.1038/s41598-020-65406-1</a>","short":"L.A. Uroshlev, E.T. Abdullaev, I.R. Umarova, I.A. Il’Icheva, L.A. Panchenko, R.V. Polozov, F. Kondrashov, Y.D. Nechipurenko, S.L. Grokhovsky, Scientific Reports 10 (2020)."},"isi":1,"file":[{"relation":"main_file","checksum":"099e51611a5b7ca04244d03b2faddf33","file_id":"7947","creator":"dernst","access_level":"open_access","file_name":"2020_ScientificReports_Uroshlev.pdf","date_created":"2020-06-08T06:27:32Z","file_size":1001724,"content_type":"application/pdf","date_updated":"2020-07-14T12:48:05Z"}],"external_id":{"isi":["000560774200007"],"pmid":["32451390"]},"day":"25","publication":"Scientific Reports","doi":"10.1038/s41598-020-65406-1","article_number":"8635","article_processing_charge":"No","date_published":"2020-05-25T00:00:00Z","month":"05","intvolume":"        10","quality_controlled":"1","_id":"7931","date_updated":"2026-04-03T09:26:06Z","publication_status":"published","author":[{"first_name":"Leonid A.","last_name":"Uroshlev","full_name":"Uroshlev, Leonid A."},{"full_name":"Abdullaev, Eldar T.","first_name":"Eldar T.","last_name":"Abdullaev"},{"full_name":"Umarova, Iren R.","first_name":"Iren R.","last_name":"Umarova"},{"full_name":"Il’Icheva, Irina A.","first_name":"Irina A.","last_name":"Il’Icheva"},{"first_name":"Larisa A.","last_name":"Panchenko","full_name":"Panchenko, Larisa A."},{"full_name":"Polozov, Robert V.","last_name":"Polozov","first_name":"Robert V."},{"full_name":"Kondrashov, Fyodor","orcid":"0000-0001-8243-4694","first_name":"Fyodor","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","last_name":"Kondrashov"},{"last_name":"Nechipurenko","first_name":"Yury D.","full_name":"Nechipurenko, Yury D."},{"last_name":"Grokhovsky","first_name":"Sergei L.","full_name":"Grokhovsky, Sergei L."}],"year":"2020","language":[{"iso":"eng"}],"department":[{"_id":"FyKo"}],"status":"public","ddc":["570"],"has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_created":"2020-06-07T22:00:51Z","publisher":"Springer Nature","oa":1,"file_date_updated":"2020-07-14T12:48:05Z","abstract":[{"text":"In the course of sample preparation for Next Generation Sequencing (NGS), DNA is fragmented by various methods. Fragmentation shows a persistent bias with regard to the cleavage rates of various dinucleotides. With the exception of CpG dinucleotides the previously described biases were consistent with results of the DNA cleavage in solution. Here we computed cleavage rates of all dinucleotides including the methylated CpG and unmethylated CpG dinucleotides using data of the Whole Genome Sequencing datasets of the 1000 Genomes project. We found that the cleavage rate of CpG is significantly higher for the methylated CpG dinucleotides. Using this information, we developed a classifier for distinguishing cancer and healthy tissues based on their CpG islands statuses of the fragmentation. A simple Support Vector Machine classifier based on this algorithm shows an accuracy of 84%. The proposed method allows the detection of epigenetic markers purely based on mechanochemical DNA fragmentation, which can be detected by a simple analysis of the NGS sequencing data.","lang":"eng"}],"publication_identifier":{"eissn":["2045-2322"]},"volume":10,"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","article_type":"original"},{"department":[{"_id":"E-Lib"}],"corr_author":"1","year":"2020","language":[{"iso":"ger"}],"author":[{"full_name":"Danowski, Patrick","orcid":"0000-0002-6026-4409","first_name":"Patrick","id":"2EBD1598-F248-11E8-B48F-1D18A9856A87","last_name":"Danowski"},{"full_name":"Ferus, Andreas","last_name":"Ferus","first_name":"Andreas"},{"last_name":"Hikl","first_name":"Anna-Laetitia","full_name":"Hikl, Anna-Laetitia"},{"last_name":"McNeill","first_name":"Gerda","full_name":"McNeill, Gerda"},{"full_name":"Miniberger, Clemens","last_name":"Miniberger","first_name":"Clemens"},{"last_name":"Reding","first_name":"Steve","full_name":"Reding, Steve"},{"full_name":"Zarka, Tobias","first_name":"Tobias","last_name":"Zarka"},{"full_name":"Zojer, Michael","last_name":"Zojer","first_name":"Michael"}],"ddc":["020"],"status":"public","file_date_updated":"2020-10-27T16:27:25Z","oa":1,"publisher":"Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare","date_created":"2020-10-25T23:01:19Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","article_type":"original","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","volume":73,"publication_identifier":{"eissn":["1022-2588"]},"issue":"2","abstract":[{"lang":"eng","text":"As part of the Austrian Transition to Open Access (AT2OA) project, subproject TP1-B is working on designing a monitoring solution for the output of Open Access publications in Austria. This report on a potential Open Access monitoring approach in Austria is one of the results of these efforts and can serve as a basis for discussion on an international level."},{"lang":"ger","text":"Als Teil des Hochschulraumstrukturmittel-Projekts Austrian Transition to Open Access (AT2OA) befasst sich das Teilprojekt TP1-B mit der Konzeption einer Monitoring-Lösung für den Open Access-Publikationsoutput in Österreich. Der nun vorliegende Bericht zu einem potentiellen Open Access-Monitoring in Österreich ist eines der Ergebnisse dieser Bemühungen und kann als Grundlage einer Diskussion auf internationaler Ebene dienen."}],"oa_version":"Published Version","page":"278-284","type":"journal_article","title":"„Recommendation“ for the further procedure for open access monitoring. Deliverable of the AT2OA subproject TP1-B","scopus_import":"1","publication":"Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare","day":"14","file":[{"file_size":960317,"date_created":"2020-10-27T16:27:25Z","file_name":"2020_VOEB_Danowski.pdf","access_level":"open_access","creator":"kschuh","success":1,"file_id":"8714","checksum":"37443c34d91d5bdbeb38c78b14792537","relation":"main_file","date_updated":"2020-10-27T16:27:25Z","content_type":"application/pdf"}],"citation":{"short":"P. Danowski, A. Ferus, A.-L. Hikl, G. McNeill, C. Miniberger, S. Reding, T. Zarka, M. Zojer, Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare 73 (2020) 278–284.","apa":"Danowski, P., Ferus, A., Hikl, A.-L., McNeill, G., Miniberger, C., Reding, S., … Zojer, M. (2020). „Recommendation“ for the further procedure for open access monitoring. Deliverable of the AT2OA subproject TP1-B. <i>Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare</i>. Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare. <a href=\"https://doi.org/10.31263/voebm.v73i2.3941\">https://doi.org/10.31263/voebm.v73i2.3941</a>","ieee":"P. Danowski <i>et al.</i>, “„Recommendation“ for the further procedure for open access monitoring. Deliverable of the AT2OA subproject TP1-B,” <i>Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare</i>, vol. 73, no. 2. Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, pp. 278–284, 2020.","ista":"Danowski P, Ferus A, Hikl A-L, McNeill G, Miniberger C, Reding S, Zarka T, Zojer M. 2020. „Recommendation“ for the further procedure for open access monitoring. Deliverable of the AT2OA subproject TP1-B. Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare. 73(2), 278–284.","chicago":"Danowski, Patrick, Andreas Ferus, Anna-Laetitia Hikl, Gerda McNeill, Clemens Miniberger, Steve Reding, Tobias Zarka, and Michael Zojer. “„Recommendation“ for the further procedure for open access monitoring. Deliverable of the AT2OA subproject TP1-B.” <i>Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare</i>. Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, 2020. <a href=\"https://doi.org/10.31263/voebm.v73i2.3941\">https://doi.org/10.31263/voebm.v73i2.3941</a>.","ama":"Danowski P, Ferus A, Hikl A-L, et al. „Recommendation“ for the further procedure for open access monitoring. Deliverable of the AT2OA subproject TP1-B. <i>Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare</i>. 2020;73(2):278-284. doi:<a href=\"https://doi.org/10.31263/voebm.v73i2.3941\">10.31263/voebm.v73i2.3941</a>","mla":"Danowski, Patrick, et al. “„Recommendation“ for the further procedure for open access monitoring. Deliverable of the AT2OA subproject TP1-B.” <i>Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare</i>, vol. 73, no. 2, Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, 2020, pp. 278–84, doi:<a href=\"https://doi.org/10.31263/voebm.v73i2.3941\">10.31263/voebm.v73i2.3941</a>."},"article_processing_charge":"No","doi":"10.31263/voebm.v73i2.3941","publication_status":"published","date_updated":"2026-04-03T09:25:27Z","_id":"8706","quality_controlled":"1","month":"07","intvolume":"        73","date_published":"2020-07-14T00:00:00Z"},{"publication":"Science Immunology","day":"10","external_id":{"pmid":["32646852"],"isi":["000546994600004"]},"isi":1,"citation":{"mla":"Salzer, Elisabeth, et al. “The Cytoskeletal Regulator HEM1 Governs B Cell Development and Prevents Autoimmunity.” <i>Science Immunology</i>, vol. 5, no. 49, eabc3979, AAAS, 2020, doi:<a href=\"https://doi.org/10.1126/sciimmunol.abc3979\">10.1126/sciimmunol.abc3979</a>.","ama":"Salzer E, Zoghi S, Kiss MG, et al. The cytoskeletal regulator HEM1 governs B cell development and prevents autoimmunity. <i>Science Immunology</i>. 2020;5(49). doi:<a href=\"https://doi.org/10.1126/sciimmunol.abc3979\">10.1126/sciimmunol.abc3979</a>","chicago":"Salzer, Elisabeth, Samaneh Zoghi, Máté G. Kiss, Frieda Kage, Christina Rashkova, Stephanie Stahnke, Matthias Haimel, et al. “The Cytoskeletal Regulator HEM1 Governs B Cell Development and Prevents Autoimmunity.” <i>Science Immunology</i>. AAAS, 2020. <a href=\"https://doi.org/10.1126/sciimmunol.abc3979\">https://doi.org/10.1126/sciimmunol.abc3979</a>.","ista":"Salzer E, Zoghi S, Kiss MG, Kage F, Rashkova C, Stahnke S, Haimel M, Platzer R, Caldera M, Ardy RC, Hoeger B, Block J, Medgyesi D, Sin C, Shahkarami S, Kain R, Ziaee V, Hammerl P, Bock C, Menche J, Dupré L, Huppa JB, Sixt MK, Lomakin A, Rottner K, Binder CJ, Stradal TEB, Rezaei N, Boztug K. 2020. The cytoskeletal regulator HEM1 governs B cell development and prevents autoimmunity. Science Immunology. 5(49), eabc3979.","ieee":"E. Salzer <i>et al.</i>, “The cytoskeletal regulator HEM1 governs B cell development and prevents autoimmunity,” <i>Science Immunology</i>, vol. 5, no. 49. AAAS, 2020.","short":"E. Salzer, S. Zoghi, M.G. Kiss, F. Kage, C. Rashkova, S. Stahnke, M. Haimel, R. Platzer, M. Caldera, R.C. Ardy, B. Hoeger, J. Block, D. Medgyesi, C. Sin, S. Shahkarami, R. Kain, V. Ziaee, P. Hammerl, C. Bock, J. Menche, L. Dupré, J.B. Huppa, M.K. Sixt, A. Lomakin, K. Rottner, C.J. Binder, T.E.B. Stradal, N. Rezaei, K. Boztug, Science Immunology 5 (2020).","apa":"Salzer, E., Zoghi, S., Kiss, M. G., Kage, F., Rashkova, C., Stahnke, S., … Boztug, K. (2020). The cytoskeletal regulator HEM1 governs B cell development and prevents autoimmunity. <i>Science Immunology</i>. AAAS. <a href=\"https://doi.org/10.1126/sciimmunol.abc3979\">https://doi.org/10.1126/sciimmunol.abc3979</a>"},"oa_version":"Submitted Version","title":"The cytoskeletal regulator HEM1 governs B cell development and prevents autoimmunity","pmid":1,"type":"journal_article","scopus_import":"1","date_updated":"2026-04-03T09:25:04Z","publication_status":"published","_id":"8132","quality_controlled":"1","intvolume":"         5","month":"07","date_published":"2020-07-10T00:00:00Z","article_processing_charge":"No","OA_type":"green","article_number":"eabc3979","doi":"10.1126/sciimmunol.abc3979","status":"public","department":[{"_id":"MiSi"}],"language":[{"iso":"eng"}],"year":"2020","author":[{"last_name":"Salzer","first_name":"Elisabeth","full_name":"Salzer, Elisabeth"},{"full_name":"Zoghi, Samaneh","first_name":"Samaneh","last_name":"Zoghi"},{"first_name":"Máté G.","last_name":"Kiss","full_name":"Kiss, Máté G."},{"full_name":"Kage, Frieda","first_name":"Frieda","last_name":"Kage"},{"last_name":"Rashkova","first_name":"Christina","full_name":"Rashkova, Christina"},{"last_name":"Stahnke","first_name":"Stephanie","full_name":"Stahnke, Stephanie"},{"full_name":"Haimel, Matthias","first_name":"Matthias","last_name":"Haimel"},{"full_name":"Platzer, René","first_name":"René","last_name":"Platzer"},{"last_name":"Caldera","first_name":"Michael","full_name":"Caldera, Michael"},{"full_name":"Ardy, Rico Chandra","last_name":"Ardy","first_name":"Rico Chandra"},{"last_name":"Hoeger","first_name":"Birgit","full_name":"Hoeger, Birgit"},{"full_name":"Block, Jana","first_name":"Jana","last_name":"Block"},{"full_name":"Medgyesi, David","last_name":"Medgyesi","first_name":"David"},{"first_name":"Celine","last_name":"Sin","full_name":"Sin, Celine"},{"first_name":"Sepideh","last_name":"Shahkarami","full_name":"Shahkarami, Sepideh"},{"full_name":"Kain, Renate","first_name":"Renate","last_name":"Kain"},{"full_name":"Ziaee, Vahid","last_name":"Ziaee","first_name":"Vahid"},{"full_name":"Hammerl, Peter","last_name":"Hammerl","first_name":"Peter"},{"full_name":"Bock, Christoph","first_name":"Christoph","last_name":"Bock"},{"last_name":"Menche","first_name":"Jörg","full_name":"Menche, Jörg"},{"first_name":"Loïc","last_name":"Dupré","full_name":"Dupré, Loïc"},{"first_name":"Johannes B.","last_name":"Huppa","full_name":"Huppa, Johannes B."},{"first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179"},{"first_name":"Alexis","last_name":"Lomakin","full_name":"Lomakin, Alexis"},{"full_name":"Rottner, Klemens","first_name":"Klemens","last_name":"Rottner"},{"first_name":"Christoph J.","last_name":"Binder","full_name":"Binder, Christoph J."},{"first_name":"Theresia E.B.","last_name":"Stradal","full_name":"Stradal, Theresia E.B."},{"full_name":"Rezaei, Nima","first_name":"Nima","last_name":"Rezaei"},{"last_name":"Boztug","first_name":"Kaan","full_name":"Boztug, Kaan"}],"article_type":"original","OA_place":"repository","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","volume":5,"publication_identifier":{"eissn":["2470-9468"]},"issue":"49","abstract":[{"text":"The WAVE regulatory complex (WRC) is crucial for assembly of the peripheral branched actin network constituting one of the main drivers of eukaryotic cell migration. Here, we uncover an essential role of the hematopoietic-specific WRC component HEM1 for immune cell development. Germline-encoded HEM1 deficiency underlies an inborn error of immunity with systemic autoimmunity, at cellular level marked by WRC destabilization, reduced filamentous actin, and failure to assemble lamellipodia. Hem1−/− mice display systemic autoimmunity, phenocopying the human disease. In the absence of Hem1, B cells become deprived of extracellular stimuli necessary to maintain the strength of B cell receptor signaling at a level permissive for survival of non-autoreactive B cells. This shifts the balance of B cell fate choices toward autoreactive B cells and thus autoimmunity.","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7116756"}],"publisher":"AAAS","oa":1,"date_created":"2020-07-19T22:00:58Z"},{"article_number":"108463","doi":"10.1016/j.celrep.2020.108463","article_processing_charge":"Yes","ec_funded":1,"date_published":"2020-12-01T00:00:00Z","quality_controlled":"1","intvolume":"        33","month":"12","publication_status":"published","date_updated":"2026-04-03T09:30:47Z","_id":"8943","scopus_import":"1","title":"Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development","pmid":1,"type":"journal_article","oa_version":"Published Version","citation":{"ista":"Tan S, Di Donato M, Glanc M, Zhang X, Klíma P, Liu J, Bailly A, Ferro N, Petrášek J, Geisler M, Friml J. 2020. Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development. Cell Reports. 33(9), 108463.","chicago":"Tan, Shutang, Martin Di Donato, Matous Glanc, Xixi Zhang, Petr Klíma, Jie Liu, Aurélien Bailly, et al. “Non-Steroidal Anti-Inflammatory Drugs Target TWISTED DWARF1-Regulated Actin Dynamics and Auxin Transport-Mediated Plant Development.” <i>Cell Reports</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.celrep.2020.108463\">https://doi.org/10.1016/j.celrep.2020.108463</a>.","mla":"Tan, Shutang, et al. “Non-Steroidal Anti-Inflammatory Drugs Target TWISTED DWARF1-Regulated Actin Dynamics and Auxin Transport-Mediated Plant Development.” <i>Cell Reports</i>, vol. 33, no. 9, 108463, Elsevier, 2020, doi:<a href=\"https://doi.org/10.1016/j.celrep.2020.108463\">10.1016/j.celrep.2020.108463</a>.","ama":"Tan S, Di Donato M, Glanc M, et al. Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development. <i>Cell Reports</i>. 2020;33(9). doi:<a href=\"https://doi.org/10.1016/j.celrep.2020.108463\">10.1016/j.celrep.2020.108463</a>","apa":"Tan, S., Di Donato, M., Glanc, M., Zhang, X., Klíma, P., Liu, J., … Friml, J. (2020). Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development. <i>Cell Reports</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.celrep.2020.108463\">https://doi.org/10.1016/j.celrep.2020.108463</a>","short":"S. Tan, M. Di Donato, M. Glanc, X. Zhang, P. Klíma, J. Liu, A. Bailly, N. Ferro, J. Petrášek, M. Geisler, J. Friml, Cell Reports 33 (2020).","ieee":"S. Tan <i>et al.</i>, “Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development,” <i>Cell Reports</i>, vol. 33, no. 9. Elsevier, 2020."},"file":[{"date_updated":"2020-12-14T07:33:39Z","content_type":"application/pdf","file_size":8056434,"date_created":"2020-12-14T07:33:39Z","file_name":"2020_CellReports_Tan.pdf","access_level":"open_access","creator":"dernst","success":1,"file_id":"8948","checksum":"ed18cba0fb48ed2e789381a54cc21904","relation":"main_file"}],"isi":1,"external_id":{"pmid":["33264621"],"isi":["000595658100018"]},"publication":"Cell Reports","day":"01","project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"},{"grant_number":"723-2015","_id":"256FEF10-B435-11E9-9278-68D0E5697425","name":"Molecular Mechanism underlying Salicylic Acid Regulation of Endocytic Trafficking in Arabidopsis"}],"has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa":1,"publisher":"Elsevier","date_created":"2020-12-13T23:01:21Z","file_date_updated":"2020-12-14T07:33:39Z","abstract":[{"text":"The widely used non-steroidal anti-inflammatory drugs (NSAIDs) are derivatives of the phytohormone salicylic acid (SA). SA is well known to regulate plant immunity and development, whereas there have been few reports focusing on the effects of NSAIDs in plants. Our studies here reveal that NSAIDs exhibit largely overlapping physiological activities to SA in the model plant Arabidopsis. NSAID treatments lead to shorter and agravitropic primary roots and inhibited lateral root organogenesis. Notably, in addition to the SA-like action, which in roots involves binding to the protein phosphatase 2A (PP2A), NSAIDs also exhibit PP2A-independent effects. Cell biological and biochemical analyses reveal that many NSAIDs bind directly to and inhibit the chaperone activity of TWISTED DWARF1, thereby regulating actin cytoskeleton dynamics and subsequent endosomal trafficking. Our findings uncover an unexpected bioactivity of human pharmaceuticals in plants and provide insights into the molecular mechanism underlying the cellular action of this class of anti-inflammatory compounds.","lang":"eng"}],"acknowledgement":"We thank Drs. Sebastian Bednarek (University of Wisconsin-Madison), Niko Geldner (University of Lausanne), and Karin Schumacher (Heidelberg University) for kindly sharing published Arabidopsis lines; Dr. Satoshi Naramoto for the pPIN2::PIN2-GFP; pVHA-a1::VHA-a1-mRFP reporter; the staff at the Life Science Facility and Bioimaging Facility, Monika Hrtyan, and Dorota Jaworska at IST Austria for technical support; and Drs. Su Tang (Texas A&M University),\r\nMelinda Abas (BOKU), Eva Benkova´ (IST Austria), Christian Luschnig (BOKU), Bartel Vanholme (Gent University), and the Friml group for valuable discussions. The research leading to these findings was funded by the European Union’s Horizon 2020 program (ERC grant agreement no. 742985, to J.F.), the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement no.\r\n291734, the Swiss National Funds (31003A_165877, to M.G.), the Ministry of Education, Youth, and Sports of the Czech Republic (project no. CZ.02.1.01/0.0/0.0/16_019/0000738, EU Operational Programme ‘‘Research, development and education and Centre for Plant Experimental Biology’’), and the EU Operational Programme Prague - Competitiveness (project no. CZ.2.16/3.1.00/21519). S.T. was funded by a European Molecular Biology Organization (EMBO) long-term postdoctoral fellowship (ALTF 723-2015). X.Z. was partly supported by a PhD scholarship from the China Scholarship Council.","issue":"9","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"publication_identifier":{"eissn":["2211-1247"]},"volume":33,"article_type":"original","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","related_material":{"link":[{"relation":"press_release","url":"https://ist.ac.at/en/news/plants-on-aspirin/","description":"News on IST Homepage"}]},"language":[{"iso":"eng"}],"year":"2020","author":[{"orcid":"0000-0002-0471-8285","full_name":"Tan, Shutang","last_name":"Tan","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","first_name":"Shutang"},{"full_name":"Di Donato, Martin","first_name":"Martin","last_name":"Di Donato"},{"first_name":"Matous","last_name":"Glanc","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","full_name":"Glanc, Matous","orcid":"0000-0003-0619-7783"},{"full_name":"Zhang, Xixi","orcid":"0000-0001-7048-4627","first_name":"Xixi","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","last_name":"Zhang"},{"last_name":"Klíma","first_name":"Petr","full_name":"Klíma, Petr"},{"first_name":"Jie","last_name":"Liu","full_name":"Liu, Jie"},{"full_name":"Bailly, Aurélien","last_name":"Bailly","first_name":"Aurélien"},{"full_name":"Ferro, Noel","last_name":"Ferro","first_name":"Noel"},{"full_name":"Petrášek, Jan","first_name":"Jan","last_name":"Petrášek"},{"full_name":"Geisler, Markus","last_name":"Geisler","first_name":"Markus"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml"}],"corr_author":"1","department":[{"_id":"JiFr"}],"status":"public","ddc":["580"]},{"volume":117,"publication_identifier":{"eissn":["1091-6490"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","related_material":{"link":[{"url":"https://ist.ac.at/en/news/order-from-noise/","relation":"press_release"}]},"article_type":"original","abstract":[{"text":"Understanding to what extent stem cell potential is a cell-intrinsic property or an emergent behavior coming from global tissue dynamics and geometry is a key outstanding question of systems and stem cell biology. Here, we propose a theory of stem cell dynamics as a stochastic competition for access to a spatially localized niche, giving rise to a stochastic conveyor-belt model. Cell divisions produce a steady cellular stream which advects cells away from the niche, while random rearrangements enable cells away from the niche to be favorably repositioned. Importantly, even when assuming that all cells in a tissue are molecularly equivalent, we predict a common (“universal”) functional dependence of the long-term clonal survival probability on distance from the niche, as well as the emergence of a well-defined number of functional stem cells, dependent only on the rate of random movements vs. mitosis-driven advection. We test the predictions of this theory on datasets of pubertal mammary gland tips and embryonic kidney tips, as well as homeostatic intestinal crypts. Importantly, we find good agreement for the predicted functional dependency of the competition as a function of position, and thus functional stem cell number in each organ. This argues for a key role of positional fluctuations in dictating stem cell number and dynamics, and we discuss the applicability of this theory to other settings.","lang":"eng"}],"issue":"29","acknowledgement":"We thank all members of the E.H., B.D.S., and J.v.R. groups for stimulating discussions. This project was supported by\r\nthe European Research Council (648804 to J.v.R. and 851288 to E.H.). It has also received support from the CancerGenomics.nl (Netherlands Organization for Scientific Research) program (J.v.R.) and the Doctor Josef Steiner Foundation (J.v.R). B.D.S. was supported by Royal Society E. P. Abraham Research Professorship RP/R1/180165 and Wellcome Trust Grant 098357/Z/12/Z.","date_created":"2020-08-09T22:00:52Z","publisher":"National Academy of Sciences","oa":1,"file_date_updated":"2020-08-10T06:50:28Z","project":[{"call_identifier":"H2020","name":"Design Principles of Branching Morphogenesis","_id":"05943252-7A3F-11EA-A408-12923DDC885E","grant_number":"851288"}],"has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ddc":["570"],"status":"public","corr_author":"1","department":[{"_id":"EdHa"}],"author":[{"full_name":"Corominas-Murtra, Bernat","orcid":"0000-0001-9806-5643","first_name":"Bernat","last_name":"Corominas-Murtra","id":"43BE2298-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Colinda L.G.J.","last_name":"Scheele","full_name":"Scheele, Colinda L.G.J."},{"last_name":"Kishi","id":"3065DFC4-F248-11E8-B48F-1D18A9856A87","first_name":"Kasumi","orcid":"0000-0001-6060-4795","full_name":"Kishi, Kasumi"},{"last_name":"Ellenbroek","first_name":"Saskia I.J.","full_name":"Ellenbroek, Saskia I.J."},{"full_name":"Simons, Benjamin D.","last_name":"Simons","first_name":"Benjamin D."},{"full_name":"Van Rheenen, Jacco","first_name":"Jacco","last_name":"Van Rheenen"},{"orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo","first_name":"Edouard B"}],"year":"2020","language":[{"iso":"eng"}],"intvolume":"       117","month":"07","quality_controlled":"1","_id":"8220","publication_status":"published","date_updated":"2026-04-03T09:29:04Z","date_published":"2020-07-21T00:00:00Z","ec_funded":1,"article_processing_charge":"No","doi":"10.1073/pnas.1921205117","external_id":{"pmid":["32611816"],"isi":["000553292900014"]},"publication":"Proceedings of the National Academy of Sciences of the United States of America","day":"21","citation":{"ieee":"B. Corominas-Murtra <i>et al.</i>, “Stem cell lineage survival as a noisy competition for niche access,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 117, no. 29. National Academy of Sciences, pp. 16969–16975, 2020.","apa":"Corominas-Murtra, B., Scheele, C. L. G. J., Kishi, K., Ellenbroek, S. I. J., Simons, B. D., Van Rheenen, J., &#38; Hannezo, E. B. (2020). Stem cell lineage survival as a noisy competition for niche access. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1921205117\">https://doi.org/10.1073/pnas.1921205117</a>","short":"B. Corominas-Murtra, C.L.G.J. Scheele, K. Kishi, S.I.J. Ellenbroek, B.D. Simons, J. Van Rheenen, E.B. Hannezo, Proceedings of the National Academy of Sciences of the United States of America 117 (2020) 16969–16975.","ista":"Corominas-Murtra B, Scheele CLGJ, Kishi K, Ellenbroek SIJ, Simons BD, Van Rheenen J, Hannezo EB. 2020. Stem cell lineage survival as a noisy competition for niche access. Proceedings of the National Academy of Sciences of the United States of America. 117(29), 16969–16975.","mla":"Corominas-Murtra, Bernat, et al. “Stem Cell Lineage Survival as a Noisy Competition for Niche Access.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 117, no. 29, National Academy of Sciences, 2020, pp. 16969–75, doi:<a href=\"https://doi.org/10.1073/pnas.1921205117\">10.1073/pnas.1921205117</a>.","ama":"Corominas-Murtra B, Scheele CLGJ, Kishi K, et al. Stem cell lineage survival as a noisy competition for niche access. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2020;117(29):16969-16975. doi:<a href=\"https://doi.org/10.1073/pnas.1921205117\">10.1073/pnas.1921205117</a>","chicago":"Corominas-Murtra, Bernat, Colinda L.G.J. Scheele, Kasumi Kishi, Saskia I.J. Ellenbroek, Benjamin D. Simons, Jacco Van Rheenen, and Edouard B Hannezo. “Stem Cell Lineage Survival as a Noisy Competition for Niche Access.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2020. <a href=\"https://doi.org/10.1073/pnas.1921205117\">https://doi.org/10.1073/pnas.1921205117</a>."},"isi":1,"file":[{"date_updated":"2020-08-10T06:50:28Z","content_type":"application/pdf","file_size":1111604,"date_created":"2020-08-10T06:50:28Z","file_name":"2020_PNAS_Corominas.pdf","access_level":"open_access","success":1,"creator":"dernst","file_id":"8223","relation":"main_file"}],"oa_version":"Published Version","scopus_import":"1","title":"Stem cell lineage survival as a noisy competition for niche access","type":"journal_article","pmid":1,"page":"16969-16975"},{"has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file_date_updated":"2020-07-14T12:48:03Z","oa":1,"publisher":"Springer Nature","date_created":"2020-05-10T22:00:47Z","abstract":[{"lang":"eng","text":"Besides pro-inflammatory roles, the ancient cytokine interleukin-17 (IL-17) modulates neural circuit function. We investigate IL-17 signaling in neurons, and the extent it can alter organismal phenotypes. We combine immunoprecipitation and mass spectrometry to biochemically characterize endogenous signaling complexes that function downstream of IL-17 receptors in C. elegans neurons. We identify the paracaspase MALT-1 as a critical output of the pathway. MALT1 mediates signaling from many immune receptors in mammals, but was not previously implicated in IL-17 signaling or nervous system function. C. elegans MALT-1 forms a complex with homologs of Act1 and IRAK and appears to function both as a scaffold and a protease. MALT-1 is expressed broadly in the C. elegans nervous system, and neuronal IL-17–MALT-1 signaling regulates multiple phenotypes, including escape behavior, associative learning, immunity and longevity. Our data suggest MALT1 has an ancient role modulating neural circuit function downstream of IL-17 to remodel physiology and behavior."}],"article_type":"original","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","volume":11,"publication_identifier":{"eissn":["2041-1723"]},"year":"2020","language":[{"iso":"eng"}],"author":[{"first_name":"Sean M.","last_name":"Flynn","full_name":"Flynn, Sean M."},{"full_name":"Chen, Changchun","last_name":"Chen","first_name":"Changchun"},{"orcid":"0000-0001-8945-6992","full_name":"Artan, Murat","id":"C407B586-6052-11E9-B3AE-7006E6697425","last_name":"Artan","first_name":"Murat"},{"first_name":"Stephen","last_name":"Barratt","full_name":"Barratt, Stephen"},{"full_name":"Crisp, Alastair","last_name":"Crisp","first_name":"Alastair"},{"last_name":"Nelson","first_name":"Geoffrey M.","full_name":"Nelson, Geoffrey M."},{"full_name":"Peak-Chew, Sew Yeu","last_name":"Peak-Chew","first_name":"Sew Yeu"},{"last_name":"Begum","first_name":"Farida","full_name":"Begum, Farida"},{"full_name":"Skehel, Mark","first_name":"Mark","last_name":"Skehel"},{"first_name":"Mario","id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","last_name":"De Bono","full_name":"De Bono, Mario","orcid":"0000-0001-8347-0443"}],"department":[{"_id":"MaDe"}],"corr_author":"1","status":"public","ddc":["570"],"article_number":"2099","doi":"10.1038/s41467-020-15872-y","article_processing_charge":"No","date_published":"2020-04-29T00:00:00Z","date_updated":"2026-04-03T09:27:08Z","publication_status":"published","_id":"7804","quality_controlled":"1","month":"04","intvolume":"        11","pmid":1,"type":"journal_article","title":"MALT-1 mediates IL-17 neural signaling to regulate C. elegans behavior, immunity and longevity","scopus_import":"1","oa_version":"Published Version","file":[{"date_updated":"2020-07-14T12:48:03Z","content_type":"application/pdf","file_size":4609120,"date_created":"2020-05-11T10:36:33Z","access_level":"open_access","file_name":"2020_NatureComm_Flynn.pdf","creator":"dernst","file_id":"7817","relation":"main_file","checksum":"dce367abf2c1a1d15f58fe6f7de82893"}],"isi":1,"citation":{"ama":"Flynn SM, Chen C, Artan M, et al. MALT-1 mediates IL-17 neural signaling to regulate C. elegans behavior, immunity and longevity. <i>Nature Communications</i>. 2020;11. doi:<a href=\"https://doi.org/10.1038/s41467-020-15872-y\">10.1038/s41467-020-15872-y</a>","mla":"Flynn, Sean M., et al. “MALT-1 Mediates IL-17 Neural Signaling to Regulate C. Elegans Behavior, Immunity and Longevity.” <i>Nature Communications</i>, vol. 11, 2099, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41467-020-15872-y\">10.1038/s41467-020-15872-y</a>.","chicago":"Flynn, Sean M., Changchun Chen, Murat Artan, Stephen Barratt, Alastair Crisp, Geoffrey M. Nelson, Sew Yeu Peak-Chew, Farida Begum, Mark Skehel, and Mario de Bono. “MALT-1 Mediates IL-17 Neural Signaling to Regulate C. Elegans Behavior, Immunity and Longevity.” <i>Nature Communications</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41467-020-15872-y\">https://doi.org/10.1038/s41467-020-15872-y</a>.","ista":"Flynn SM, Chen C, Artan M, Barratt S, Crisp A, Nelson GM, Peak-Chew SY, Begum F, Skehel M, de Bono M. 2020. MALT-1 mediates IL-17 neural signaling to regulate C. elegans behavior, immunity and longevity. Nature Communications. 11, 2099.","ieee":"S. M. Flynn <i>et al.</i>, “MALT-1 mediates IL-17 neural signaling to regulate C. elegans behavior, immunity and longevity,” <i>Nature Communications</i>, vol. 11. Springer Nature, 2020.","short":"S.M. Flynn, C. Chen, M. Artan, S. Barratt, A. Crisp, G.M. Nelson, S.Y. Peak-Chew, F. Begum, M. Skehel, M. de Bono, Nature Communications 11 (2020).","apa":"Flynn, S. M., Chen, C., Artan, M., Barratt, S., Crisp, A., Nelson, G. M., … de Bono, M. (2020). MALT-1 mediates IL-17 neural signaling to regulate C. elegans behavior, immunity and longevity. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-020-15872-y\">https://doi.org/10.1038/s41467-020-15872-y</a>"},"publication":"Nature Communications","day":"29","external_id":{"pmid":["32350248"],"isi":["000531855500029"]}},{"publication":"ACS Catalysis","day":"20","external_id":{"isi":["000592978900031"]},"isi":1,"citation":{"short":"E. Irtem, D. Arenas Esteban, M. Duarte, D. Choukroun, S. Lee, M. Ibáñez, S. Bals, T. Breugelmans, ACS Catalysis 10 (2020) 13468–13478.","apa":"Irtem, E., Arenas Esteban, D., Duarte, M., Choukroun, D., Lee, S., Ibáñez, M., … Breugelmans, T. (2020). Ligand-mode directed selectivity in Cu-Ag core-shell based gas diffusion electrodes for CO2 electroreduction. <i>ACS Catalysis</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acscatal.0c03210\">https://doi.org/10.1021/acscatal.0c03210</a>","ieee":"E. Irtem <i>et al.</i>, “Ligand-mode directed selectivity in Cu-Ag core-shell based gas diffusion electrodes for CO2 electroreduction,” <i>ACS Catalysis</i>, vol. 10, no. 22. American Chemical Society, pp. 13468–13478, 2020.","ista":"Irtem E, Arenas Esteban D, Duarte M, Choukroun D, Lee S, Ibáñez M, Bals S, Breugelmans T. 2020. Ligand-mode directed selectivity in Cu-Ag core-shell based gas diffusion electrodes for CO2 electroreduction. ACS Catalysis. 10(22), 13468–13478.","chicago":"Irtem, Erdem, Daniel Arenas Esteban, Miguel Duarte, Daniel Choukroun, Seungho Lee, Maria Ibáñez, Sara Bals, and Tom Breugelmans. “Ligand-Mode Directed Selectivity in Cu-Ag Core-Shell Based Gas Diffusion Electrodes for CO2 Electroreduction.” <i>ACS Catalysis</i>. American Chemical Society, 2020. <a href=\"https://doi.org/10.1021/acscatal.0c03210\">https://doi.org/10.1021/acscatal.0c03210</a>.","mla":"Irtem, Erdem, et al. “Ligand-Mode Directed Selectivity in Cu-Ag Core-Shell Based Gas Diffusion Electrodes for CO2 Electroreduction.” <i>ACS Catalysis</i>, vol. 10, no. 22, American Chemical Society, 2020, pp. 13468–78, doi:<a href=\"https://doi.org/10.1021/acscatal.0c03210\">10.1021/acscatal.0c03210</a>.","ama":"Irtem E, Arenas Esteban D, Duarte M, et al. Ligand-mode directed selectivity in Cu-Ag core-shell based gas diffusion electrodes for CO2 electroreduction. <i>ACS Catalysis</i>. 2020;10(22):13468-13478. doi:<a href=\"https://doi.org/10.1021/acscatal.0c03210\">10.1021/acscatal.0c03210</a>"},"oa_version":"Submitted Version","type":"journal_article","title":"Ligand-mode directed selectivity in Cu-Ag core-shell based gas diffusion electrodes for CO2 electroreduction","page":"13468-13478","scopus_import":"1","_id":"8926","publication_status":"published","date_updated":"2026-04-03T09:31:02Z","intvolume":"        10","month":"11","quality_controlled":"1","date_published":"2020-11-20T00:00:00Z","ec_funded":1,"OA_type":"green","article_processing_charge":"No","doi":"10.1021/acscatal.0c03210","status":"public","department":[{"_id":"MaIb"}],"author":[{"full_name":"Irtem, Erdem","first_name":"Erdem","last_name":"Irtem"},{"last_name":"Arenas Esteban","first_name":"Daniel","full_name":"Arenas Esteban, Daniel"},{"last_name":"Duarte","first_name":"Miguel","full_name":"Duarte, Miguel"},{"first_name":"Daniel","last_name":"Choukroun","full_name":"Choukroun, Daniel"},{"orcid":"0000-0002-6962-8598","full_name":"Lee, Seungho","last_name":"Lee","id":"BB243B88-D767-11E9-B658-BC13E6697425","first_name":"Seungho"},{"first_name":"Maria","last_name":"Ibáñez","id":"43C61214-F248-11E8-B48F-1D18A9856A87","full_name":"Ibáñez, Maria","orcid":"0000-0001-5013-2843"},{"last_name":"Bals","first_name":"Sara","full_name":"Bals, Sara"},{"first_name":"Tom","last_name":"Breugelmans","full_name":"Breugelmans, Tom"}],"year":"2020","language":[{"iso":"eng"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","OA_place":"repository","article_type":"original","publication_identifier":{"eissn":["2155-5435"]},"volume":10,"issue":"22","acknowledgement":"The authors also acknowledge financial support from the University Research Fund (BOF-GOA-PS ID No. 33928). S.L. has received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 665385.","main_file_link":[{"url":"https://repository.uantwerpen.be/docman/irua/190103/173803.pdf","open_access":"1"}],"abstract":[{"lang":"eng","text":"Bimetallic nanoparticles with tailored size and specific composition have shown promise as stable and selective catalysts for electrochemical reduction of CO2 (CO2R) in batch systems. Yet, limited effort was devoted to understand the effect of ligand coverage and postsynthesis treatments on CO2 reduction, especially under industrially applicable conditions, such as at high currents (>100 mA/cm2) using gas diffusion electrodes (GDE) and flow reactors. In this work, Cu–Ag core–shell nanoparticles (11 ± 2 nm) were prepared with three different surface modes: (i) capped with oleylamine, (ii) capped with monoisopropylamine, and (iii) surfactant-free with a reducing borohydride agent; Cu–Ag (OAm), Cu–Ag (MIPA), and Cu–Ag (NaBH4), respectively. The ligand exchange and removal was evidenced by infrared spectroscopy (ATR-FTIR) analysis, whereas high-resolution scanning transmission electron microscopy (HAADF-STEM) showed their effect on the interparticle distance and nanoparticle rearrangement. Later on, we developed a process-on-substrate method to track these effects on CO2R. Cu–Ag (OAm) gave a lower on-set potential for hydrocarbon production, whereas Cu–Ag (MIPA) and Cu–Ag (NaBH4) promoted syngas production. The electrochemical impedance and surface area analysis on the well-controlled electrodes showed gradual increases in the electrical conductivity and active surface area after each surface treatment. We found that the increasing amount of the triple phase boundaries (the meeting point for the electron–electrolyte–CO2 reactant) affect the required electrode potential and eventually the C+2e̅/C2e̅ product ratio. This study highlights the importance of the electron transfer to those active sites affected by the capping agents—particularly on larger substrates that are crucial for their industrial application."}],"date_created":"2020-12-06T23:01:15Z","publisher":"American Chemical Society","oa":1,"project":[{"call_identifier":"H2020","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385"}]},{"date_published":"2020-02-13T00:00:00Z","date_updated":"2026-04-03T09:27:26Z","publication_status":"published","_id":"7511","quality_controlled":"1","month":"02","intvolume":"        11","article_number":"876","doi":"10.1038/s41467-020-14535-2","article_processing_charge":"No","file":[{"access_level":"open_access","file_name":"2020_NatureComm_Turonova.pdf","date_created":"2020-02-24T14:00:54Z","file_size":2027529,"checksum":"2c8d10475e1b0d397500760e28bdf561","relation":"main_file","file_id":"7517","creator":"dernst","date_updated":"2020-07-14T12:47:59Z","content_type":"application/pdf"}],"isi":1,"citation":{"chicago":"Turoňová, Beata, Wim J.H. Hagen, Martin Obr, Shyamal Mosalaganti, J. Wouter Beugelink, Christian E. Zimmerli, Hans Georg Kräusslich, and Martin Beck. “Benchmarking Tomographic Acquisition Schemes for High-Resolution Structural Biology.” <i>Nature Communications</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41467-020-14535-2\">https://doi.org/10.1038/s41467-020-14535-2</a>.","ama":"Turoňová B, Hagen WJH, Obr M, et al. Benchmarking tomographic acquisition schemes for high-resolution structural biology. <i>Nature Communications</i>. 2020;11. doi:<a href=\"https://doi.org/10.1038/s41467-020-14535-2\">10.1038/s41467-020-14535-2</a>","mla":"Turoňová, Beata, et al. “Benchmarking Tomographic Acquisition Schemes for High-Resolution Structural Biology.” <i>Nature Communications</i>, vol. 11, 876, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41467-020-14535-2\">10.1038/s41467-020-14535-2</a>.","ista":"Turoňová B, Hagen WJH, Obr M, Mosalaganti S, Beugelink JW, Zimmerli CE, Kräusslich HG, Beck M. 2020. Benchmarking tomographic acquisition schemes for high-resolution structural biology. Nature Communications. 11, 876.","apa":"Turoňová, B., Hagen, W. J. H., Obr, M., Mosalaganti, S., Beugelink, J. W., Zimmerli, C. E., … Beck, M. (2020). Benchmarking tomographic acquisition schemes for high-resolution structural biology. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-020-14535-2\">https://doi.org/10.1038/s41467-020-14535-2</a>","short":"B. Turoňová, W.J.H. Hagen, M. Obr, S. Mosalaganti, J.W. Beugelink, C.E. Zimmerli, H.G. Kräusslich, M. Beck, Nature Communications 11 (2020).","ieee":"B. Turoňová <i>et al.</i>, “Benchmarking tomographic acquisition schemes for high-resolution structural biology,” <i>Nature Communications</i>, vol. 11. Springer Nature, 2020."},"publication":"Nature Communications","day":"13","external_id":{"pmid":["32054835"],"isi":["000514928000017"]},"type":"journal_article","pmid":1,"title":"Benchmarking tomographic acquisition schemes for high-resolution structural biology","scopus_import":"1","oa_version":"Published Version","abstract":[{"lang":"eng","text":"Cryo electron tomography with subsequent subtomogram averaging is a powerful technique to structurally analyze macromolecular complexes in their native context. Although close to atomic resolution in principle can be obtained, it is not clear how individual experimental parameters contribute to the attainable resolution. Here, we have used immature HIV-1 lattice as a benchmarking sample to optimize the attainable resolution for subtomogram averaging. We systematically tested various experimental parameters such as the order of projections, different angular increments and the use of the Volta phase plate. We find that although any of the prominently used acquisition schemes is sufficient to obtain subnanometer resolution, dose-symmetric acquisition provides considerably better outcome. We discuss our findings in order to provide guidance for data acquisition. Our data is publicly available and might be used to further develop processing routines."}],"article_type":"original","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"eissn":["2041-1723"]},"volume":11,"has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file_date_updated":"2020-07-14T12:47:59Z","oa":1,"publisher":"Springer Nature","date_created":"2020-02-23T23:00:35Z","status":"public","ddc":["570"],"language":[{"iso":"eng"}],"year":"2020","author":[{"first_name":"Beata","last_name":"Turoňová","full_name":"Turoňová, Beata"},{"full_name":"Hagen, Wim J.H.","last_name":"Hagen","first_name":"Wim J.H."},{"first_name":"Martin","id":"4741CA5A-F248-11E8-B48F-1D18A9856A87","last_name":"Obr","full_name":"Obr, Martin","orcid":"0000-0003-1756-6564"},{"full_name":"Mosalaganti, Shyamal","first_name":"Shyamal","last_name":"Mosalaganti"},{"first_name":"J. Wouter","last_name":"Beugelink","full_name":"Beugelink, J. Wouter"},{"full_name":"Zimmerli, Christian E.","first_name":"Christian E.","last_name":"Zimmerli"},{"first_name":"Hans Georg","last_name":"Kräusslich","full_name":"Kräusslich, Hans Georg"},{"last_name":"Beck","first_name":"Martin","full_name":"Beck, Martin"}],"department":[{"_id":"FlSc"}]},{"arxiv":1,"abstract":[{"text":"We prove a lower bound for the free energy (per unit volume) of the two-dimensional Bose gas in the thermodynamic limit. We show that the free energy at density 𝜌 and inverse temperature 𝛽 differs from the one of the noninteracting system by the correction term 𝜋𝜌𝜌𝛽𝛽 . Here, is the scattering length of the interaction potential, and 𝛽 is the inverse Berezinskii–Kosterlitz–Thouless critical temperature for superfluidity. The result is valid in the dilute limit 𝜌 and if 𝛽𝜌 .","lang":"eng"}],"related_material":{"record":[{"id":"7524","relation":"earlier_version","status":"public"}]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","article_type":"original","publication_identifier":{"eissn":["2050-5094"]},"volume":8,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","project":[{"grant_number":"694227","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","name":"Analysis of quantum many-body systems","call_identifier":"H2020"}],"file_date_updated":"2020-07-14T12:48:03Z","date_created":"2020-05-03T22:00:48Z","oa":1,"publisher":"Cambridge University Press","status":"public","ddc":["510"],"author":[{"full_name":"Deuchert, Andreas","orcid":"0000-0003-3146-6746","first_name":"Andreas","last_name":"Deuchert","id":"4DA65CD0-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Simon","id":"30C4630A-F248-11E8-B48F-1D18A9856A87","last_name":"Mayer","full_name":"Mayer, Simon"},{"last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","first_name":"Robert","orcid":"0000-0002-6781-0521","full_name":"Seiringer, Robert"}],"year":"2020","language":[{"iso":"eng"}],"department":[{"_id":"RoSe"}],"corr_author":"1","date_published":"2020-03-14T00:00:00Z","ec_funded":1,"_id":"7790","date_updated":"2026-04-03T09:30:21Z","publication_status":"published","intvolume":"         8","month":"03","quality_controlled":"1","doi":"10.1017/fms.2020.17","article_number":"e20","article_processing_charge":"No","isi":1,"file":[{"creator":"dernst","checksum":"8a64da99d107686997876d7cad8cfe1e","relation":"main_file","file_id":"7797","file_size":692530,"file_name":"2020_ForumMath_Deuchert.pdf","access_level":"open_access","date_created":"2020-05-04T12:02:41Z","content_type":"application/pdf","date_updated":"2020-07-14T12:48:03Z"}],"citation":{"apa":"Deuchert, A., Mayer, S., &#38; Seiringer, R. (2020). The free energy of the two-dimensional dilute Bose gas. I. Lower bound. <i>Forum of Mathematics, Sigma</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/fms.2020.17\">https://doi.org/10.1017/fms.2020.17</a>","short":"A. Deuchert, S. Mayer, R. Seiringer, Forum of Mathematics, Sigma 8 (2020).","ieee":"A. Deuchert, S. Mayer, and R. Seiringer, “The free energy of the two-dimensional dilute Bose gas. I. Lower bound,” <i>Forum of Mathematics, Sigma</i>, vol. 8. Cambridge University Press, 2020.","ista":"Deuchert A, Mayer S, Seiringer R. 2020. The free energy of the two-dimensional dilute Bose gas. I. Lower bound. Forum of Mathematics, Sigma. 8, e20.","chicago":"Deuchert, Andreas, Simon Mayer, and Robert Seiringer. “The Free Energy of the Two-Dimensional Dilute Bose Gas. I. Lower Bound.” <i>Forum of Mathematics, Sigma</i>. Cambridge University Press, 2020. <a href=\"https://doi.org/10.1017/fms.2020.17\">https://doi.org/10.1017/fms.2020.17</a>.","ama":"Deuchert A, Mayer S, Seiringer R. The free energy of the two-dimensional dilute Bose gas. I. Lower bound. <i>Forum of Mathematics, Sigma</i>. 2020;8. doi:<a href=\"https://doi.org/10.1017/fms.2020.17\">10.1017/fms.2020.17</a>","mla":"Deuchert, Andreas, et al. “The Free Energy of the Two-Dimensional Dilute Bose Gas. I. Lower Bound.” <i>Forum of Mathematics, Sigma</i>, vol. 8, e20, Cambridge University Press, 2020, doi:<a href=\"https://doi.org/10.1017/fms.2020.17\">10.1017/fms.2020.17</a>."},"day":"14","publication":"Forum of Mathematics, Sigma","external_id":{"arxiv":["1910.03372"],"isi":["000527342000001"]},"title":"The free energy of the two-dimensional dilute Bose gas. I. Lower bound","type":"journal_article","scopus_import":"1","oa_version":"Published Version"},{"related_material":{"record":[{"relation":"later_version","status":"public","id":"8790"}]},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","abstract":[{"lang":"eng","text":"Reachability analysis aims at identifying states reachable by a system within a given time horizon. This task is known to be computationally expensive for linear hybrid systems. Reachability analysis works by iteratively applying continuous and discrete post operators to compute states reachable according to continuous and discrete dynamics, respectively. In this paper, we enhance both of these operators and make sure that most of the involved computations are performed in low-dimensional state space. In particular, we improve the continuous-post operator by performing computations in high-dimensional state space only for time intervals relevant for the subsequent application of the discrete-post operator. Furthermore, the new discrete-post operator performs low-dimensional computations by leveraging the structure of the guard and assignment of a considered transition. We illustrate the potential of our approach on a number of challenging benchmarks."}],"arxiv":1,"date_created":"2020-08-24T12:56:20Z","oa":1,"file_date_updated":"2020-08-24T12:53:15Z","project":[{"grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering","call_identifier":"FWF"},{"grant_number":"Z00312","_id":"25C5A090-B435-11E9-9278-68D0E5697425","name":"Synaptic communication in neuronal microcircuits","call_identifier":"FWF"},{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"}],"has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ddc":["000"],"conference":{"name":"EMSOFT: Embedded Software","end_date":"2020-09-25","start_date":"2020-09-20","location":"Virtual "},"status":"public","department":[{"_id":"ToHe"}],"author":[{"full_name":"Bogomolov, Sergiy","first_name":"Sergiy","last_name":"Bogomolov"},{"full_name":"Forets, Marcelo","last_name":"Forets","first_name":"Marcelo"},{"full_name":"Frehse, Goran","first_name":"Goran","last_name":"Frehse"},{"full_name":"Potomkin, Kostiantyn","first_name":"Kostiantyn","last_name":"Potomkin"},{"full_name":"Schilling, Christian","orcid":"0000-0003-3658-1065","first_name":"Christian","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87","last_name":"Schilling"}],"year":"2020","language":[{"iso":"eng"}],"keyword":["reachability","hybrid systems","decomposition"],"month":"10","quality_controlled":"1","_id":"8287","publication_status":"published","date_updated":"2026-04-03T09:32:00Z","date_published":"2020-10-01T00:00:00Z","ec_funded":1,"article_processing_charge":"No","external_id":{"isi":["000587712700072"],"arxiv":["1905.02458"]},"day":"01","publication":"Proceedings of the International Conference on Embedded Software","citation":{"short":"S. Bogomolov, M. Forets, G. Frehse, K. Potomkin, C. Schilling, in:, Proceedings of the International Conference on Embedded Software, 2020.","apa":"Bogomolov, S., Forets, M., Frehse, G., Potomkin, K., &#38; Schilling, C. (2020). Reachability analysis of linear hybrid systems via block decomposition. In <i>Proceedings of the International Conference on Embedded Software</i>. Virtual .","ieee":"S. Bogomolov, M. Forets, G. Frehse, K. Potomkin, and C. Schilling, “Reachability analysis of linear hybrid systems via block decomposition,” in <i>Proceedings of the International Conference on Embedded Software</i>, Virtual , 2020.","ista":"Bogomolov S, Forets M, Frehse G, Potomkin K, Schilling C. 2020. Reachability analysis of linear hybrid systems via block decomposition. Proceedings of the International Conference on Embedded Software. EMSOFT: Embedded Software.","chicago":"Bogomolov, Sergiy, Marcelo Forets, Goran Frehse, Kostiantyn Potomkin, and Christian Schilling. “Reachability Analysis of Linear Hybrid Systems via Block Decomposition.” In <i>Proceedings of the International Conference on Embedded Software</i>, 2020.","mla":"Bogomolov, Sergiy, et al. “Reachability Analysis of Linear Hybrid Systems via Block Decomposition.” <i>Proceedings of the International Conference on Embedded Software</i>, 2020.","ama":"Bogomolov S, Forets M, Frehse G, Potomkin K, Schilling C. Reachability analysis of linear hybrid systems via block decomposition. In: <i>Proceedings of the International Conference on Embedded Software</i>. ; 2020."},"isi":1,"file":[{"content_type":"application/pdf","date_updated":"2020-08-24T12:53:15Z","success":1,"creator":"cschilli","file_id":"8288","checksum":"d19e97d0f8a3a441dc078ec812297d75","relation":"main_file","file_size":696384,"access_level":"open_access","file_name":"2020EMSOFT.pdf","date_created":"2020-08-24T12:53:15Z"}],"oa_version":"Preprint","type":"conference","title":"Reachability analysis of linear hybrid systems via block decomposition"},{"language":[{"iso":"eng"}],"year":"2020","author":[{"full_name":"Bogomolov, Sergiy","orcid":"0000-0002-0686-0365","first_name":"Sergiy","last_name":"Bogomolov","id":"369D9A44-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Forets, Marcelo","last_name":"Forets","first_name":"Marcelo"},{"full_name":"Frehse, Goran","last_name":"Frehse","first_name":"Goran"},{"full_name":"Potomkin, Kostiantyn","first_name":"Kostiantyn","last_name":"Potomkin"},{"last_name":"Schilling","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87","first_name":"Christian","orcid":"0000-0003-3658-1065","full_name":"Schilling, Christian"}],"department":[{"_id":"ToHe"}],"status":"public","project":[{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","call_identifier":"FWF","name":"Rigorous Systems Engineering"},{"grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425","name":"Formal methods for the design and analysis of complex systems","call_identifier":"FWF"},{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"}],"oa":1,"publisher":"IEEE","date_created":"2020-11-22T23:01:25Z","acknowledgement":"This research was supported in part by the Austrian Science Fund (FWF) under grants S11402-N23 (RiSE/SHiNE) and Z211-N23 (Wittgenstein Award), the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 754411, and the Air Force Office of Scientific Research under award number FA2386-17-1-4065. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the authors and do not necessarily reflect the views of the United States Air Force. ","issue":"11","arxiv":1,"abstract":[{"text":"Reachability analysis aims at identifying states reachable by a system within a given time horizon. This task is known to be computationally expensive for linear hybrid systems. Reachability analysis works by iteratively applying continuous and discrete post operators to compute states reachable according to continuous and discrete dynamics, respectively. In this article, we enhance both of these operators and make sure that most of the involved computations are performed in low-dimensional state space. In particular, we improve the continuous-post operator by performing computations in high-dimensional state space only for time intervals relevant for the subsequent application of the discrete-post operator. Furthermore, the new discrete-post operator performs low-dimensional computations by leveraging the structure of the guard and assignment of a considered transition. We illustrate the potential of our approach on a number of challenging benchmarks.","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1905.02458"}],"article_type":"original","OA_place":"publisher","related_material":{"record":[{"relation":"earlier_version","status":"public","id":"8287"}]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","volume":39,"publication_identifier":{"eissn":["1937-4151"],"issn":["0278-0070"]},"page":"4018-4029","title":"Reachability analysis of linear hybrid systems via block decomposition","type":"journal_article","scopus_import":"1","oa_version":"Preprint","isi":1,"citation":{"ista":"Bogomolov S, Forets M, Frehse G, Potomkin K, Schilling C. 2020. Reachability analysis of linear hybrid systems via block decomposition. IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems. 39(11), 4018–4029.","mla":"Bogomolov, Sergiy, et al. “Reachability Analysis of Linear Hybrid Systems via Block Decomposition.” <i>IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems</i>, vol. 39, no. 11, IEEE, 2020, pp. 4018–29, doi:<a href=\"https://doi.org/10.1109/TCAD.2020.3012859\">10.1109/TCAD.2020.3012859</a>.","ama":"Bogomolov S, Forets M, Frehse G, Potomkin K, Schilling C. Reachability analysis of linear hybrid systems via block decomposition. <i>IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems</i>. 2020;39(11):4018-4029. doi:<a href=\"https://doi.org/10.1109/TCAD.2020.3012859\">10.1109/TCAD.2020.3012859</a>","chicago":"Bogomolov, Sergiy, Marcelo Forets, Goran Frehse, Kostiantyn Potomkin, and Christian Schilling. “Reachability Analysis of Linear Hybrid Systems via Block Decomposition.” <i>IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems</i>. IEEE, 2020. <a href=\"https://doi.org/10.1109/TCAD.2020.3012859\">https://doi.org/10.1109/TCAD.2020.3012859</a>.","ieee":"S. Bogomolov, M. Forets, G. Frehse, K. Potomkin, and C. Schilling, “Reachability analysis of linear hybrid systems via block decomposition,” <i>IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems</i>, vol. 39, no. 11. IEEE, pp. 4018–4029, 2020.","apa":"Bogomolov, S., Forets, M., Frehse, G., Potomkin, K., &#38; Schilling, C. (2020). Reachability analysis of linear hybrid systems via block decomposition. <i>IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems</i>. IEEE. <a href=\"https://doi.org/10.1109/TCAD.2020.3012859\">https://doi.org/10.1109/TCAD.2020.3012859</a>","short":"S. Bogomolov, M. Forets, G. Frehse, K. Potomkin, C. Schilling, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems 39 (2020) 4018–4029."},"day":"01","publication":"IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems","external_id":{"isi":["000587712700072"],"arxiv":["1905.02458"]},"doi":"10.1109/TCAD.2020.3012859","article_processing_charge":"No","OA_type":"hybrid","ec_funded":1,"date_published":"2020-11-01T00:00:00Z","date_updated":"2026-04-03T09:32:00Z","publication_status":"published","_id":"8790","quality_controlled":"1","intvolume":"        39","month":"11"},{"publisher":"The Royal Society","date_created":"2020-07-26T22:01:02Z","article_type":"original","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","volume":375,"publication_identifier":{"eissn":["1471-2970"]},"acknowledgement":"This work was supported by a fellowship from the China Scholarship Council (CSC) to H.S., Swiss National Science Foundation (SNF) grant no. 31003A_149306 to C.L., doctoral programme grant W1225-B20 to a faculty team including C.L., and the University of Vienna. We thank members of J.L.’s lab for collecting samples, Michael Barfuss and Elfi Grasserbauer for help in the laboratory, the Next Generation Sequencing Platform of the University of Berne for sequencing, the Vienna Scientific Cluster (VSC) for access to computational resources, and Claus Vogel and members of the PopGen Vienna graduate school for helpful discussions.","issue":"1806","abstract":[{"lang":"eng","text":"Many recent studies have addressed the mechanisms operating during the early stages of speciation, but surprisingly few studies have tested theoretical predictions on the evolution of strong reproductive isolation (RI). To help address this gap, we first undertook a quantitative review of the hybrid zone literature for flowering plants in relation to reproductive barriers. Then, using Populus as an exemplary model group, we analysed genome-wide variation for phylogenetic tree topologies in both early- and late-stage speciation taxa to determine how these patterns may be related to the genomic architecture of RI. Our plant literature survey revealed variation in barrier complexity and an association between barrier number and introgressive gene flow. Focusing on Populus, our genome-wide analysis of tree topologies in speciating poplar taxa points to unusually complex genomic architectures of RI, consistent with earlier genome-wide association studies. These architectures appear to facilitate the ‘escape’ of introgressed genome segments from polygenic barriers even with strong RI, thus affecting their relationships with recombination rates. Placed within the context of the broader literature, our data illustrate how phylogenomic approaches hold great promise for addressing the evolution and temporary breakdown of RI during late stages of speciation."}],"department":[{"_id":"NiBa"}],"language":[{"iso":"eng"}],"year":"2020","author":[{"full_name":"Shang, Huiying","first_name":"Huiying","last_name":"Shang"},{"full_name":"Hess, Jaqueline","first_name":"Jaqueline","last_name":"Hess"},{"full_name":"Pickup, Melinda","orcid":"0000-0001-6118-0541","first_name":"Melinda","last_name":"Pickup","id":"2C78037E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Field, David","orcid":"0000-0002-4014-8478","first_name":"David","last_name":"Field","id":"419049E2-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Pär K.","last_name":"Ingvarsson","full_name":"Ingvarsson, Pär K."},{"first_name":"Jianquan","last_name":"Liu","full_name":"Liu, Jianquan"},{"first_name":"Christian","last_name":"Lexer","full_name":"Lexer, Christian"}],"status":"public","article_processing_charge":"No","OA_type":"closed access","article_number":"20190544","doi":"10.1098/rstb.2019.0544","publication_status":"published","date_updated":"2026-04-03T09:31:37Z","_id":"8169","quality_controlled":"1","intvolume":"       375","month":"07","date_published":"2020-07-12T00:00:00Z","oa_version":"None","pmid":1,"type":"journal_article","title":"Evolution of strong reproductive isolation in plants: Broad-scale patterns and lessons from a perennial model group","scopus_import":"1","publication":"Philosophical Transactions of the Royal Society. Series B: Biological Sciences","day":"12","external_id":{"pmid":["32654641"],"isi":["000552662100013"]},"isi":1,"citation":{"ista":"Shang H, Hess J, Pickup M, Field D, Ingvarsson PK, Liu J, Lexer C. 2020. Evolution of strong reproductive isolation in plants: Broad-scale patterns and lessons from a perennial model group. Philosophical Transactions of the Royal Society. Series B: Biological Sciences. 375(1806), 20190544.","ama":"Shang H, Hess J, Pickup M, et al. Evolution of strong reproductive isolation in plants: Broad-scale patterns and lessons from a perennial model group. <i>Philosophical Transactions of the Royal Society Series B: Biological Sciences</i>. 2020;375(1806). doi:<a href=\"https://doi.org/10.1098/rstb.2019.0544\">10.1098/rstb.2019.0544</a>","mla":"Shang, Huiying, et al. “Evolution of Strong Reproductive Isolation in Plants: Broad-Scale Patterns and Lessons from a Perennial Model Group.” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>, vol. 375, no. 1806, 20190544, The Royal Society, 2020, doi:<a href=\"https://doi.org/10.1098/rstb.2019.0544\">10.1098/rstb.2019.0544</a>.","chicago":"Shang, Huiying, Jaqueline Hess, Melinda Pickup, David Field, Pär K. Ingvarsson, Jianquan Liu, and Christian Lexer. “Evolution of Strong Reproductive Isolation in Plants: Broad-Scale Patterns and Lessons from a Perennial Model Group.” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>. The Royal Society, 2020. <a href=\"https://doi.org/10.1098/rstb.2019.0544\">https://doi.org/10.1098/rstb.2019.0544</a>.","ieee":"H. Shang <i>et al.</i>, “Evolution of strong reproductive isolation in plants: Broad-scale patterns and lessons from a perennial model group,” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>, vol. 375, no. 1806. The Royal Society, 2020.","apa":"Shang, H., Hess, J., Pickup, M., Field, D., Ingvarsson, P. K., Liu, J., &#38; Lexer, C. (2020). Evolution of strong reproductive isolation in plants: Broad-scale patterns and lessons from a perennial model group. <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rstb.2019.0544\">https://doi.org/10.1098/rstb.2019.0544</a>","short":"H. Shang, J. Hess, M. Pickup, D. Field, P.K. Ingvarsson, J. Liu, C. Lexer, Philosophical Transactions of the Royal Society. Series B: Biological Sciences 375 (2020)."}},{"has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"project":[{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"},{"grant_number":"863818","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E","name":"Formal Methods for Stochastic Models: Algorithms and Applications","call_identifier":"H2020"}],"file_date_updated":"2020-11-23T13:06:30Z","oa":1,"publisher":"MDPI","date_created":"2020-11-22T23:01:24Z","acknowledgement":"This work was supported by the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie Grant Agreement #754411, the Australian Research Council Discovery Grants DP160101236 and DP150100618, and the European Research Council Consolidator Grant 863818 (FoRM-SMArt).\r\nAuthors would like to thank Patrick McKinlay for his work on the preliminary results for this paper.","issue":"11","abstract":[{"lang":"eng","text":"Cooperation is a ubiquitous and beneficial behavioural trait despite being prone to exploitation by free-riders. Hence, cooperative populations are prone to invasions by selfish individuals. However, a population consisting of only free-riders typically does not survive. Thus, cooperators and free-riders often coexist in some proportion. An evolutionary version of a Snowdrift Game proved its efficiency in analysing this phenomenon. However, what if the system has already reached its stable state but was perturbed due to a change in environmental conditions? Then, individuals may have to re-learn their effective strategies. To address this, we consider behavioural mistakes in strategic choice execution, which we refer to as incompetence. Parametrising the propensity to make such mistakes allows for a mathematical description of learning. We compare strategies based on their relative strategic advantage relying on both fitness and learning factors. When strategies are learned at distinct rates, allowing learning according to a prescribed order is optimal. Interestingly, the strategy with the lowest strategic advantage should be learnt first if we are to optimise fitness over the learning path. Then, the differences between strategies are balanced out in order to minimise the effect of behavioural uncertainty."}],"article_type":"original","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"eissn":["2227-7390"]},"volume":8,"language":[{"iso":"eng"}],"year":"2020","author":[{"first_name":"Maria","id":"4E21749C-F248-11E8-B48F-1D18A9856A87","last_name":"Kleshnina","full_name":"Kleshnina, Maria","orcid":"0000-0002-5518-8317"},{"full_name":"Streipert, Sabrina","last_name":"Streipert","first_name":"Sabrina"},{"full_name":"Filar, Jerzy","first_name":"Jerzy","last_name":"Filar"},{"orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","first_name":"Krishnendu"}],"department":[{"_id":"KrCh"}],"corr_author":"1","status":"public","ddc":["000"],"article_number":"1945","doi":"10.3390/math8111945","article_processing_charge":"No","ec_funded":1,"date_published":"2020-11-04T00:00:00Z","date_updated":"2026-04-07T08:37:03Z","publication_status":"published","_id":"8789","quality_controlled":"1","month":"11","intvolume":"         8","type":"journal_article","title":"Prioritised learning in snowdrift-type games","scopus_import":"1","oa_version":"Published Version","file":[{"creator":"dernst","success":1,"relation":"main_file","checksum":"61cfcc3b35760656ce7a9385a4ace5d2","file_id":"8797","file_size":565191,"access_level":"open_access","file_name":"2020_Mathematics_Kleshnina.pdf","date_created":"2020-11-23T13:06:30Z","content_type":"application/pdf","date_updated":"2020-11-23T13:06:30Z"}],"isi":1,"citation":{"ama":"Kleshnina M, Streipert S, Filar J, Chatterjee K. Prioritised learning in snowdrift-type games. <i>Mathematics</i>. 2020;8(11). doi:<a href=\"https://doi.org/10.3390/math8111945\">10.3390/math8111945</a>","mla":"Kleshnina, Maria, et al. “Prioritised Learning in Snowdrift-Type Games.” <i>Mathematics</i>, vol. 8, no. 11, 1945, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/math8111945\">10.3390/math8111945</a>.","chicago":"Kleshnina, Maria, Sabrina Streipert, Jerzy Filar, and Krishnendu Chatterjee. “Prioritised Learning in Snowdrift-Type Games.” <i>Mathematics</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/math8111945\">https://doi.org/10.3390/math8111945</a>.","ista":"Kleshnina M, Streipert S, Filar J, Chatterjee K. 2020. Prioritised learning in snowdrift-type games. Mathematics. 8(11), 1945.","ieee":"M. Kleshnina, S. Streipert, J. Filar, and K. Chatterjee, “Prioritised learning in snowdrift-type games,” <i>Mathematics</i>, vol. 8, no. 11. MDPI, 2020.","short":"M. Kleshnina, S. Streipert, J. Filar, K. Chatterjee, Mathematics 8 (2020).","apa":"Kleshnina, M., Streipert, S., Filar, J., &#38; Chatterjee, K. (2020). Prioritised learning in snowdrift-type games. <i>Mathematics</i>. MDPI. <a href=\"https://doi.org/10.3390/math8111945\">https://doi.org/10.3390/math8111945</a>"},"day":"04","publication":"Mathematics","external_id":{"isi":["000593962100001"]}},{"scopus_import":"1","title":"Optogenetic inhibition-mediated activity-dependent modification of CA1 pyramidal-interneuron connections during behavior","pmid":1,"type":"journal_article","oa_version":"Published Version","citation":{"short":"I. Gridchyn, P. Schönenberger, J. O’Neill, J.L. Csicsvari, ELife 9 (2020).","apa":"Gridchyn, I., Schönenberger, P., O’Neill, J., &#38; Csicsvari, J. L. (2020). Optogenetic inhibition-mediated activity-dependent modification of CA1 pyramidal-interneuron connections during behavior. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.61106\">https://doi.org/10.7554/eLife.61106</a>","ieee":"I. Gridchyn, P. Schönenberger, J. O’Neill, and J. L. Csicsvari, “Optogenetic inhibition-mediated activity-dependent modification of CA1 pyramidal-interneuron connections during behavior,” <i>eLife</i>, vol. 9. eLife Sciences Publications, 2020.","ista":"Gridchyn I, Schönenberger P, O’Neill J, Csicsvari JL. 2020. Optogenetic inhibition-mediated activity-dependent modification of CA1 pyramidal-interneuron connections during behavior. eLife. 9, 61106.","chicago":"Gridchyn, Igor, Philipp Schönenberger, Joseph O’Neill, and Jozsef L Csicsvari. “Optogenetic Inhibition-Mediated Activity-Dependent Modification of CA1 Pyramidal-Interneuron Connections during Behavior.” <i>ELife</i>. eLife Sciences Publications, 2020. <a href=\"https://doi.org/10.7554/eLife.61106\">https://doi.org/10.7554/eLife.61106</a>.","ama":"Gridchyn I, Schönenberger P, O’Neill J, Csicsvari JL. Optogenetic inhibition-mediated activity-dependent modification of CA1 pyramidal-interneuron connections during behavior. <i>eLife</i>. 2020;9. doi:<a href=\"https://doi.org/10.7554/eLife.61106\">10.7554/eLife.61106</a>","mla":"Gridchyn, Igor, et al. “Optogenetic Inhibition-Mediated Activity-Dependent Modification of CA1 Pyramidal-Interneuron Connections during Behavior.” <i>ELife</i>, vol. 9, 61106, eLife Sciences Publications, 2020, doi:<a href=\"https://doi.org/10.7554/eLife.61106\">10.7554/eLife.61106</a>."},"isi":1,"file":[{"date_created":"2020-11-09T09:17:40Z","access_level":"open_access","file_name":"2020_eLife_Gridchyn.pdf","file_size":447669,"relation":"main_file","checksum":"6a7b0543c440f4c000a1864e69377d95","file_id":"8749","creator":"dernst","success":1,"date_updated":"2020-11-09T09:17:40Z","content_type":"application/pdf"}],"external_id":{"isi":["000584369000001"],"pmid":["33016875"]},"publication":"eLife","day":"05","doi":"10.7554/eLife.61106","article_number":"61106","article_processing_charge":"No","date_published":"2020-10-05T00:00:00Z","intvolume":"         9","month":"10","quality_controlled":"1","_id":"8740","publication_status":"published","date_updated":"2026-04-07T08:37:11Z","author":[{"orcid":"0000-0002-1807-1929","full_name":"Gridchyn, Igor","id":"4B60654C-F248-11E8-B48F-1D18A9856A87","last_name":"Gridchyn","first_name":"Igor"},{"full_name":"Schönenberger, Philipp","id":"3B9D816C-F248-11E8-B48F-1D18A9856A87","last_name":"Schönenberger","first_name":"Philipp"},{"first_name":"Joseph","id":"426376DC-F248-11E8-B48F-1D18A9856A87","last_name":"O'Neill","full_name":"O'Neill, Joseph"},{"id":"3FA14672-F248-11E8-B48F-1D18A9856A87","last_name":"Csicsvari","first_name":"Jozsef L","orcid":"0000-0002-5193-4036","full_name":"Csicsvari, Jozsef L"}],"language":[{"iso":"eng"}],"year":"2020","corr_author":"1","department":[{"_id":"JoCs"}],"status":"public","ddc":["570"],"project":[{"_id":"257D4372-B435-11E9-9278-68D0E5697425","grant_number":"I2072-B27","call_identifier":"FWF","name":"Interneuron plasticity during spatial learning"},{"call_identifier":"FWF","name":"Interneuro plasticity during spatial learning","_id":"2654F984-B435-11E9-9278-68D0E5697425","grant_number":"I 3713-B27"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","date_created":"2020-11-08T23:01:25Z","publisher":"eLife Sciences Publications","oa":1,"file_date_updated":"2020-11-09T09:17:40Z","abstract":[{"text":"In vitro work revealed that excitatory synaptic inputs to hippocampal inhibitory interneurons could undergo Hebbian, associative, or non-associative plasticity. Both behavioral and learning-dependent reorganization of these connections has also been demonstrated by measuring spike transmission probabilities in pyramidal cell-interneuron spike cross-correlations that indicate monosynaptic connections. Here we investigated the activity-dependent modification of these connections during exploratory behavior in rats by optogenetically inhibiting pyramidal cell and interneuron subpopulations. Light application and associated firing alteration of pyramidal and interneuron populations led to lasting changes in pyramidal-interneuron connection weights as indicated by spike transmission changes. Spike transmission alterations were predicted by the light-mediated changes in the number of pre- and postsynaptic spike pairing events and by firing rate changes of interneurons but not pyramidal cells. This work demonstrates the presence of activity-dependent associative and non-associative reorganization of pyramidal-interneuron connections triggered by the optogenetic modification of the firing rate and spike synchrony of cells.","lang":"eng"}],"acknowledgement":"We thank Michele Nardin and Federico Stella for comments on an earlier version of the manuscript. K Deisseroth for providing the pAAV-CaMKIIα::eNpHR3.0-YFP plasmid through Addgene. E Boyden for providing AAV2/1.CaMKII::ArchT.GFP.WPRE.SV40 plasmid through Penn Vector Core. This work was supported by the Austrian Science Fund (I02072 and I03713) and a Swiss National Science Foundation grant to PS. The authors declare no conflicts of interest.","publication_identifier":{"eissn":["2050-084X"]},"volume":9,"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","related_material":{"record":[{"id":"8563","status":"public","relation":"research_data"}]},"article_type":"original"},{"title":"Optogenetic alteration of hippocampal network activity","type":"research_data","author":[{"full_name":"Csicsvari, Jozsef L","orcid":"0000-0002-5193-4036","first_name":"Jozsef L","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","last_name":"Csicsvari"},{"first_name":"Igor","last_name":"Gridchyn","id":"4B60654C-F248-11E8-B48F-1D18A9856A87","full_name":"Gridchyn, Igor","orcid":"0000-0002-1807-1929"},{"first_name":"Philipp","last_name":"Schönenberger","id":"3B9D816C-F248-11E8-B48F-1D18A9856A87","full_name":"Schönenberger, Philipp"}],"year":"2020","oa_version":"Published Version","corr_author":"1","department":[{"_id":"JoCs"}],"status":"public","citation":{"ieee":"J. L. Csicsvari, I. Gridchyn, and P. Schönenberger, “Optogenetic alteration of hippocampal network activity.” Institute of Science and Technology Austria, 2020.","apa":"Csicsvari, J. L., Gridchyn, I., &#38; Schönenberger, P. (2020). Optogenetic alteration of hippocampal network activity. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8563\">https://doi.org/10.15479/AT:ISTA:8563</a>","short":"J.L. Csicsvari, I. Gridchyn, P. Schönenberger, (2020).","ista":"Csicsvari JL, Gridchyn I, Schönenberger P. 2020. Optogenetic alteration of hippocampal network activity, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:8563\">10.15479/AT:ISTA:8563</a>.","ama":"Csicsvari JL, Gridchyn I, Schönenberger P. Optogenetic alteration of hippocampal network activity. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8563\">10.15479/AT:ISTA:8563</a>","mla":"Csicsvari, Jozsef L., et al. <i>Optogenetic Alteration of Hippocampal Network Activity</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8563\">10.15479/AT:ISTA:8563</a>.","chicago":"Csicsvari, Jozsef L, Igor Gridchyn, and Philipp Schönenberger. “Optogenetic Alteration of Hippocampal Network Activity.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8563\">https://doi.org/10.15479/AT:ISTA:8563</a>."},"contributor":[{"orcid":"0000-0002-5193-4036","contributor_type":"project_leader","last_name":"Csicsvari","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","first_name":"Jozsef L"}],"file":[{"date_updated":"2020-09-23T14:36:17Z","content_type":"application/x-compressed","date_created":"2020-09-23T14:36:17Z","access_level":"open_access","file_name":"upload.tgz","file_size":145243906,"relation":"main_file","checksum":"a16098a6d172f9c42ab5af5f6991668c","file_id":"8564","success":1,"creator":"jozsef"},{"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_updated":"2020-10-19T10:12:29Z","file_id":"8675","relation":"main_file","checksum":"0bfc54b7e14c0694cd081617318ba606","success":1,"creator":"jozsef","access_level":"open_access","date_created":"2020-10-19T10:12:29Z","file_name":"redme.docx","file_size":11648}],"ddc":["570"],"day":"19","doi":"10.15479/AT:ISTA:8563","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"has_accepted_license":"1","date_created":"2020-09-23T14:39:54Z","publisher":"Institute of Science and Technology Austria","oa":1,"file_date_updated":"2020-10-19T10:12:29Z","article_processing_charge":"No","date_published":"2020-10-19T00:00:00Z","abstract":[{"text":"Supplementary data  provided for the provided for the publication:\r\nIgor Gridchyn , Philipp Schoenenberger , Joseph O'Neill , Jozsef Csicsvari (2020) Optogenetic inhibition-mediated activity-dependent modification of CA1 pyramidal-interneuron connections during behavior. Elife.","lang":"eng"}],"month":"10","_id":"8563","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"id":"8740","status":"public","relation":"used_in_publication"}]},"date_updated":"2026-04-07T08:37:11Z"}]