[{"project":[{"_id":"25FE9508-B435-11E9-9278-68D0E5697425","grant_number":"724373","call_identifier":"H2020","name":"Cellular Navigation Along Spatial Gradients"},{"call_identifier":"H2020","name":"Mechanical Adaptation of Lamellipodial Actin Networks in Migrating Cells","_id":"260AA4E2-B435-11E9-9278-68D0E5697425","grant_number":"747687"},{"_id":"25A48D24-B435-11E9-9278-68D0E5697425","grant_number":"ALTF 1396-2014","name":"Molecular and system level view of immune cell migration"},{"name":"Cytoskeletal force generation and force transduction of migrating leukocytes","call_identifier":"FP7","grant_number":"281556","_id":"25A603A2-B435-11E9-9278-68D0E5697425"}],"_id":"15","acknowledged_ssus":[{"_id":"SSU"}],"ec_funded":1,"intvolume":"        19","language":[{"iso":"eng"}],"type":"journal_article","author":[{"last_name":"Hons","orcid":"0000-0002-6625-3348","id":"4167FE56-F248-11E8-B48F-1D18A9856A87","first_name":"Miroslav","full_name":"Hons, Miroslav"},{"full_name":"Kopf, Aglaja","first_name":"Aglaja","orcid":"0000-0002-2187-6656","id":"31DAC7B6-F248-11E8-B48F-1D18A9856A87","last_name":"Kopf"},{"first_name":"Robert","full_name":"Hauschild, Robert","last_name":"Hauschild","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9843-3522"},{"first_name":"Alexander F","full_name":"Leithner, Alexander F","last_name":"Leithner","id":"3B1B77E4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1073-744X"},{"last_name":"Gärtner","id":"397A88EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6120-3723","first_name":"Florian R","full_name":"Gärtner, Florian R"},{"last_name":"Abe","full_name":"Abe, Jun","first_name":"Jun"},{"last_name":"Renkawitz","orcid":"0000-0003-2856-3369","id":"3F0587C8-F248-11E8-B48F-1D18A9856A87","first_name":"Jörg","full_name":"Renkawitz, Jörg"},{"full_name":"Stein, Jens","first_name":"Jens","last_name":"Stein"},{"first_name":"Michael K","full_name":"Sixt, Michael K","last_name":"Sixt","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6620-9179"}],"quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pubmed/29777221"}],"publisher":"Nature Publishing Group","department":[{"_id":"MiSi"},{"_id":"Bio"}],"issue":"6","article_processing_charge":"No","title":"Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells","external_id":{"pmid":["29777221"],"isi":["000433041500026"]},"publist_id":"8040","date_created":"2018-12-11T11:44:10Z","doi":"10.1038/s41590-018-0109-z","abstract":[{"lang":"eng","text":"Although much is known about the physiological framework of T cell motility, and numerous rate-limiting molecules have been identified through loss-of-function approaches, an integrated functional concept of T cell motility is lacking. Here, we used in vivo precision morphometry together with analysis of cytoskeletal dynamics in vitro to deconstruct the basic mechanisms of T cell migration within lymphatic organs. We show that the contributions of the integrin LFA-1 and the chemokine receptor CCR7 are complementary rather than positioned in a linear pathway, as they are during leukocyte extravasation from the blood vasculature. Our data demonstrate that CCR7 controls cortical actin flows, whereas integrins mediate substrate friction that is sufficient to drive locomotion in the absence of considerable surface adhesions and plasma membrane flux."}],"page":"606 - 616","publication_status":"published","related_material":{"record":[{"status":"public","id":"6891","relation":"dissertation_contains"}]},"status":"public","month":"05","citation":{"ieee":"M. Hons <i>et al.</i>, “Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells,” <i>Nature Immunology</i>, vol. 19, no. 6. Nature Publishing Group, pp. 606–616, 2018.","ama":"Hons M, Kopf A, Hauschild R, et al. Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells. <i>Nature Immunology</i>. 2018;19(6):606-616. doi:<a href=\"https://doi.org/10.1038/s41590-018-0109-z\">10.1038/s41590-018-0109-z</a>","short":"M. Hons, A. Kopf, R. Hauschild, A.F. Leithner, F.R. Gärtner, J. Abe, J. Renkawitz, J. Stein, M.K. Sixt, Nature Immunology 19 (2018) 606–616.","apa":"Hons, M., Kopf, A., Hauschild, R., Leithner, A. F., Gärtner, F. R., Abe, J., … Sixt, M. K. (2018). Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells. <i>Nature Immunology</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41590-018-0109-z\">https://doi.org/10.1038/s41590-018-0109-z</a>","ista":"Hons M, Kopf A, Hauschild R, Leithner AF, Gärtner FR, Abe J, Renkawitz J, Stein J, Sixt MK. 2018. Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells. Nature Immunology. 19(6), 606–616.","mla":"Hons, Miroslav, et al. “Chemokines and Integrins Independently Tune Actin Flow and Substrate Friction during Intranodal Migration of T Cells.” <i>Nature Immunology</i>, vol. 19, no. 6, Nature Publishing Group, 2018, pp. 606–16, doi:<a href=\"https://doi.org/10.1038/s41590-018-0109-z\">10.1038/s41590-018-0109-z</a>.","chicago":"Hons, Miroslav, Aglaja Kopf, Robert Hauschild, Alexander F Leithner, Florian R Gärtner, Jun Abe, Jörg Renkawitz, Jens Stein, and Michael K Sixt. “Chemokines and Integrins Independently Tune Actin Flow and Substrate Friction during Intranodal Migration of T Cells.” <i>Nature Immunology</i>. Nature Publishing Group, 2018. <a href=\"https://doi.org/10.1038/s41590-018-0109-z\">https://doi.org/10.1038/s41590-018-0109-z</a>."},"oa_version":"Published Version","pmid":1,"date_updated":"2026-04-15T22:30:47Z","volume":19,"isi":1,"publication":"Nature Immunology","acknowledgement":"This work was funded by grants from the European Research Council (ERC StG 281556 and CoG 724373) and the Austrian Science Foundation (FWF) to M.S. and by Swiss National Foundation (SNF) project grants 31003A_135649, 31003A_153457 and CR23I3_156234 to J.V.S. F.G. received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement no. 747687, and J.R. was funded by an EMBO long-term fellowship (ALTF 1396-2014).","date_published":"2018-05-18T00:00:00Z","oa":1,"year":"2018","day":"18","scopus_import":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1"},{"status":"public","month":"11","related_material":{"record":[{"id":"10293","status":"public","relation":"dissertation_contains"}],"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/no-cooperation-without-open-communication/"}]},"pmid":1,"citation":{"ieee":"C. Hilbe, L. Schmid, J. Tkadlec, K. Chatterjee, and M. Nowak, “Indirect reciprocity with private, noisy, and incomplete information,” <i>PNAS</i>, vol. 115, no. 48. National Academy of Sciences, pp. 12241–12246, 2018.","ama":"Hilbe C, Schmid L, Tkadlec J, Chatterjee K, Nowak M. Indirect reciprocity with private, noisy, and incomplete information. <i>PNAS</i>. 2018;115(48):12241-12246. doi:<a href=\"https://doi.org/10.1073/pnas.1810565115\">10.1073/pnas.1810565115</a>","short":"C. Hilbe, L. Schmid, J. Tkadlec, K. Chatterjee, M. Nowak, PNAS 115 (2018) 12241–12246.","apa":"Hilbe, C., Schmid, L., Tkadlec, J., Chatterjee, K., &#38; Nowak, M. (2018). Indirect reciprocity with private, noisy, and incomplete information. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1810565115\">https://doi.org/10.1073/pnas.1810565115</a>","ista":"Hilbe C, Schmid L, Tkadlec J, Chatterjee K, Nowak M. 2018. Indirect reciprocity with private, noisy, and incomplete information. PNAS. 115(48), 12241–12246.","mla":"Hilbe, Christian, et al. “Indirect Reciprocity with Private, Noisy, and Incomplete Information.” <i>PNAS</i>, vol. 115, no. 48, National Academy of Sciences, 2018, pp. 12241–46, doi:<a href=\"https://doi.org/10.1073/pnas.1810565115\">10.1073/pnas.1810565115</a>.","chicago":"Hilbe, Christian, Laura Schmid, Josef Tkadlec, Krishnendu Chatterjee, and Martin Nowak. “Indirect Reciprocity with Private, Noisy, and Incomplete Information.” <i>PNAS</i>. National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1810565115\">https://doi.org/10.1073/pnas.1810565115</a>."},"oa_version":"Submitted Version","doi":"10.1073/pnas.1810565115","abstract":[{"lang":"eng","text":"Indirect reciprocity explores how humans act when their reputation is at stake, and which social norms they use to assess the actions of others. A crucial question in indirect reciprocity is which social norms can maintain stable cooperation in a society. Past research has highlighted eight such norms, called “leading-eight” strategies. This past research, however, is based on the assumption that all relevant information about other population members is publicly available and that everyone agrees on who is good or bad. Instead, here we explore the reputation dynamics when information is private and noisy. We show that under these conditions, most leading-eight strategies fail to evolve. Those leading-eight strategies that do evolve are unable to sustain full cooperation.Indirect reciprocity is a mechanism for cooperation based on shared moral systems and individual reputations. It assumes that members of a community routinely observe and assess each other and that they use this information to decide who is good or bad, and who deserves cooperation. When information is transmitted publicly, such that all community members agree on each other’s reputation, previous research has highlighted eight crucial moral systems. These “leading-eight” strategies can maintain cooperation and resist invasion by defectors. However, in real populations individuals often hold their own private views of others. Once two individuals disagree about their opinion of some third party, they may also see its subsequent actions in a different light. Their opinions may further diverge over time. Herein, we explore indirect reciprocity when information transmission is private and noisy. We find that in the presence of perception errors, most leading-eight strategies cease to be stable. Even if a leading-eight strategy evolves, cooperation rates may drop considerably when errors are common. Our research highlights the role of reliable information and synchronized reputations to maintain stable moral systems."}],"page":"12241-12246","publication_status":"published","day":"27","year":"2018","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","scopus_import":"1","volume":115,"date_updated":"2026-04-15T22:30:48Z","date_published":"2018-11-27T00:00:00Z","oa":1,"publication":"PNAS","isi":1,"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pubmed/30429320"}],"author":[{"id":"2FDF8F3C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5116-955X","last_name":"Hilbe","full_name":"Hilbe, Christian","first_name":"Christian"},{"first_name":"Laura","full_name":"Schmid, Laura","last_name":"Schmid","orcid":"0000-0002-6978-7329","id":"38B437DE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Josef","full_name":"Tkadlec, Josef","last_name":"Tkadlec","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1097-9684"},{"last_name":"Chatterjee","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu"},{"full_name":"Nowak, Martin","first_name":"Martin","last_name":"Nowak"}],"quality_controlled":"1","issue":"48","publisher":"National Academy of Sciences","department":[{"_id":"KrCh"}],"project":[{"_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7"},{"name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF","_id":"2584A770-B435-11E9-9278-68D0E5697425","grant_number":"P 23499-N23"},{"name":"Rigorous Systems Engineering","call_identifier":"FWF","grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425"},{"_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"}],"language":[{"iso":"eng"}],"type":"journal_article","_id":"2","ec_funded":1,"intvolume":"       115","date_created":"2018-12-11T11:44:05Z","article_processing_charge":"No","title":"Indirect reciprocity with private, noisy, and incomplete information","external_id":{"isi":["000451351000063"],"pmid":["30429320"]}},{"type":"journal_article","language":[{"iso":"eng"}],"intvolume":"        89","_id":"5816","publication_identifier":{"issn":["0034-6748"]},"issue":"11","department":[{"_id":"GeKa"}],"publisher":"AIP Publishing","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1804.09522"}],"quality_controlled":"1","article_number":"114701","author":[{"last_name":"Hollmann","full_name":"Hollmann, Arne","first_name":"Arne"},{"first_name":"Daniel","full_name":"Jirovec, Daniel","last_name":"Jirovec","orcid":"0000-0002-7197-4801","id":"4C473F58-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Kucharski","first_name":"Maciej","full_name":"Kucharski, Maciej"},{"last_name":"Kissinger","full_name":"Kissinger, Dietmar","first_name":"Dietmar"},{"last_name":"Fischer","full_name":"Fischer, Gunter","first_name":"Gunter"},{"last_name":"Schreiber","first_name":"Lars R.","full_name":"Schreiber, Lars R."}],"external_id":{"arxiv":["1804.09522"],"isi":["000451735700054"]},"title":"30 GHz-voltage controlled oscillator operating at 4 K","article_processing_charge":"No","date_created":"2019-01-10T14:22:23Z","publication_status":"published","abstract":[{"lang":"eng","text":"Solid-state qubit manipulation and read-out fidelities are reaching fault-tolerance, but quantum error correction requires millions of physical qubits and therefore a scalable quantum computer architecture. To solve signal-line bandwidth and fan-out problems, microwave sources required for qubit manipulation might be embedded close to the qubit chip, typically operating at temperatures below 4 K. Here, we perform the first low temperature measurements of a 130 nm BiCMOS based SiGe voltage controlled oscillator at cryogenic temperature. We determined the frequency and output power dependence on temperature and magnetic field up to 5 T and measured the temperature influence on its noise performance. The device maintains its full functionality from 300 K to 4 K. The carrier frequency at 4 K increases by 3% with respect to the carrier frequency at 300 K, and the output power at 4 K increases by 10 dB relative to the output power at 300 K. The frequency tuning range of approximately 20% remains unchanged between 300 K and 4 K. In an in-plane magnetic field of 5 T, the carrier frequency shifts by only 0.02% compared to the frequency at zero magnetic field."}],"doi":"10.1063/1.5038258","oa_version":"Preprint","citation":{"chicago":"Hollmann, Arne, Daniel Jirovec, Maciej Kucharski, Dietmar Kissinger, Gunter Fischer, and Lars R. Schreiber. “30 GHz-Voltage Controlled Oscillator Operating at 4 K.” <i>Review of Scientific Instruments</i>. AIP Publishing, 2018. <a href=\"https://doi.org/10.1063/1.5038258\">https://doi.org/10.1063/1.5038258</a>.","mla":"Hollmann, Arne, et al. “30 GHz-Voltage Controlled Oscillator Operating at 4 K.” <i>Review of Scientific Instruments</i>, vol. 89, no. 11, 114701, AIP Publishing, 2018, doi:<a href=\"https://doi.org/10.1063/1.5038258\">10.1063/1.5038258</a>.","ista":"Hollmann A, Jirovec D, Kucharski M, Kissinger D, Fischer G, Schreiber LR. 2018. 30 GHz-voltage controlled oscillator operating at 4 K. Review of Scientific Instruments. 89(11), 114701.","apa":"Hollmann, A., Jirovec, D., Kucharski, M., Kissinger, D., Fischer, G., &#38; Schreiber, L. R. (2018). 30 GHz-voltage controlled oscillator operating at 4 K. <i>Review of Scientific Instruments</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/1.5038258\">https://doi.org/10.1063/1.5038258</a>","short":"A. Hollmann, D. Jirovec, M. Kucharski, D. Kissinger, G. Fischer, L.R. Schreiber, Review of Scientific Instruments 89 (2018).","ama":"Hollmann A, Jirovec D, Kucharski M, Kissinger D, Fischer G, Schreiber LR. 30 GHz-voltage controlled oscillator operating at 4 K. <i>Review of Scientific Instruments</i>. 2018;89(11). doi:<a href=\"https://doi.org/10.1063/1.5038258\">10.1063/1.5038258</a>","ieee":"A. Hollmann, D. Jirovec, M. Kucharski, D. Kissinger, G. Fischer, and L. R. Schreiber, “30 GHz-voltage controlled oscillator operating at 4 K,” <i>Review of Scientific Instruments</i>, vol. 89, no. 11. AIP Publishing, 2018."},"status":"public","month":"11","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"10058"}]},"oa":1,"date_published":"2018-11-01T00:00:00Z","arxiv":1,"publication":"Review of Scientific Instruments","isi":1,"volume":89,"date_updated":"2026-04-15T22:30:52Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":"1","day":"01","year":"2018"},{"related_material":{"record":[{"id":"9562","status":"public","relation":"dissertation_contains"}]},"status":"public","month":"04","oa_version":"Published Version","citation":{"mla":"Luján, Rafael, et al. “Differential Association of GABAB Receptors with Their Effector Ion Channels in Purkinje Cells.” <i>Brain Structure and Function</i>, vol. 223, no. 3, Springer, 2018, pp. 1565–87, doi:<a href=\"https://doi.org/10.1007/s00429-017-1568-y\">10.1007/s00429-017-1568-y</a>.","chicago":"Luján, Rafael, Carolina Aguado, Francisco Ciruela, Javier Cózar, David Kleindienst, Luis De La Ossa, Bernhard Bettler, et al. “Differential Association of GABAB Receptors with Their Effector Ion Channels in Purkinje Cells.” <i>Brain Structure and Function</i>. Springer, 2018. <a href=\"https://doi.org/10.1007/s00429-017-1568-y\">https://doi.org/10.1007/s00429-017-1568-y</a>.","apa":"Luján, R., Aguado, C., Ciruela, F., Cózar, J., Kleindienst, D., De La Ossa, L., … Fukazawa, Y. (2018). Differential association of GABAB receptors with their effector ion channels in Purkinje cells. <i>Brain Structure and Function</i>. Springer. <a href=\"https://doi.org/10.1007/s00429-017-1568-y\">https://doi.org/10.1007/s00429-017-1568-y</a>","ista":"Luján R, Aguado C, Ciruela F, Cózar J, Kleindienst D, De La Ossa L, Bettler B, Wickman K, Watanabe M, Shigemoto R, Fukazawa Y. 2018. Differential association of GABAB receptors with their effector ion channels in Purkinje cells. Brain Structure and Function. 223(3), 1565–1587.","short":"R. Luján, C. Aguado, F. Ciruela, J. Cózar, D. Kleindienst, L. De La Ossa, B. Bettler, K. Wickman, M. Watanabe, R. Shigemoto, Y. Fukazawa, Brain Structure and Function 223 (2018) 1565–1587.","ama":"Luján R, Aguado C, Ciruela F, et al. Differential association of GABAB receptors with their effector ion channels in Purkinje cells. <i>Brain Structure and Function</i>. 2018;223(3):1565-1587. doi:<a href=\"https://doi.org/10.1007/s00429-017-1568-y\">10.1007/s00429-017-1568-y</a>","ieee":"R. Luján <i>et al.</i>, “Differential association of GABAB receptors with their effector ion channels in Purkinje cells,” <i>Brain Structure and Function</i>, vol. 223, no. 3. Springer, pp. 1565–1587, 2018."},"abstract":[{"lang":"eng","text":"Metabotropic GABAB receptors mediate slow inhibitory effects presynaptically and postsynaptically through the modulation of different effector signalling pathways. Here, we analysed the distribution of GABAB receptors using highly sensitive SDS-digested freeze-fracture replica labelling in mouse cerebellar Purkinje cells. Immunoreactivity for GABAB1 was observed on presynaptic and, more abundantly, on postsynaptic compartments, showing both scattered and clustered distribution patterns. Quantitative analysis of immunoparticles revealed a somato-dendritic gradient, with the density of immunoparticles increasing 26-fold from somata to dendritic spines. To understand the spatial relationship of GABAB receptors with two key effector ion channels, the G protein-gated inwardly rectifying K+ (GIRK/Kir3) channel and the voltage-dependent Ca2+ channel, biochemical and immunohistochemical approaches were performed. Co-immunoprecipitation analysis demonstrated that GABAB receptors co-assembled with GIRK and CaV2.1 channels in the cerebellum. Using double-labelling immunoelectron microscopic techniques, co-clustering between GABAB1 and GIRK2 was detected in dendritic spines, whereas they were mainly segregated in the dendritic shafts. In contrast, co-clustering of GABAB1 and CaV2.1 was detected in dendritic shafts but not spines. Presynaptically, although no significant co-clustering of GABAB1 and GIRK2 or CaV2.1 channels was detected, inter-cluster distance for GABAB1 and GIRK2 was significantly smaller in the active zone than in the dendritic shafts, and that for GABAB1 and CaV2.1 was significantly smaller in the active zone than in the dendritic shafts and spines. Thus, GABAB receptors are associated with GIRK and CaV2.1 channels in different subcellular compartments. These data provide a better framework for understanding the different roles played by GABAB receptors and their effector ion channels in the cerebellar network."}],"doi":"10.1007/s00429-017-1568-y","page":"1565 - 1587","publication_status":"published","year":"2018","has_accepted_license":"1","day":"01","scopus_import":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_updated":"2026-04-15T22:30:53Z","volume":223,"isi":1,"publication":"Brain Structure and Function","oa":1,"file_date_updated":"2020-07-14T12:47:20Z","ddc":["571"],"date_published":"2018-04-01T00:00:00Z","quality_controlled":"1","author":[{"last_name":"Luján","first_name":"Rafael","full_name":"Luján, Rafael"},{"last_name":"Aguado","first_name":"Carolina","full_name":"Aguado, Carolina"},{"first_name":"Francisco","full_name":"Ciruela, Francisco","last_name":"Ciruela"},{"last_name":"Cózar","first_name":"Javier","full_name":"Cózar, Javier"},{"full_name":"Kleindienst, David","first_name":"David","id":"42E121A4-F248-11E8-B48F-1D18A9856A87","last_name":"Kleindienst"},{"last_name":"De La Ossa","full_name":"De La Ossa, Luis","first_name":"Luis"},{"last_name":"Bettler","first_name":"Bernhard","full_name":"Bettler, Bernhard"},{"first_name":"Kevin","full_name":"Wickman, Kevin","last_name":"Wickman"},{"last_name":"Watanabe","first_name":"Masahiko","full_name":"Watanabe, Masahiko"},{"orcid":"0000-0001-8761-9444","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","last_name":"Shigemoto","full_name":"Shigemoto, Ryuichi","first_name":"Ryuichi"},{"first_name":"Yugo","full_name":"Fukazawa, Yugo","last_name":"Fukazawa"}],"publisher":"Springer","department":[{"_id":"RySh"}],"issue":"3","project":[{"call_identifier":"H2020","name":"Human Brain Project Specific Grant Agreement 1","_id":"25CBA828-B435-11E9-9278-68D0E5697425","grant_number":"720270"},{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"intvolume":"       223","ec_funded":1,"_id":"612","type":"journal_article","language":[{"iso":"eng"}],"file":[{"creator":"system","content_type":"application/pdf","file_size":5542926,"access_level":"open_access","file_name":"IST-2018-1013-v1+1_2018_Kleindienst_Differential.pdf","date_created":"2018-12-12T10:15:36Z","file_id":"5157","date_updated":"2020-07-14T12:47:20Z","checksum":"a55b3103476ecb5f4f983d8801807e8b","relation":"main_file"}],"publist_id":"7192","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2018-12-11T11:47:29Z","pubrep_id":"1013","title":"Differential association of GABAB receptors with their effector ion channels in Purkinje cells","article_processing_charge":"No","external_id":{"isi":["000428419500030"]},"article_type":"original"},{"date_published":"2018-01-01T00:00:00Z","isi":1,"publication":"Advances in Botanical Research","volume":87,"date_updated":"2026-04-15T22:30:56Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","scopus_import":"1","day":"01","year":"2018","page":"115 - 138","publication_status":"published","doi":"10.1016/bs.abr.2018.09.007","abstract":[{"text":"Plant hormones as signalling molecules play an essential role in the control of plant growth and development. Typically, sites of hormonal action are usually distant from the site of biosynthesis thus relying on efficient transport mechanisms. Over the last decades, molecular identification of proteins and protein complexes involved in hormonal transport has started. Advanced screens for genes involved in hormonal transport in combination with transport assays using heterologous systems such as yeast, insect, or tobacco BY2 cells or Xenopus oocytes provided important insights into mechanisms underlying distribution of hormones in plant body and led to identification of principal transporters for each hormone. This review gives a short overview of the mechanisms of hormonal transport and transporters identified in Arabidopsis thaliana.","lang":"eng"}],"oa_version":"None","citation":{"apa":"Abualia, R., Benková, E., &#38; Lacombe, B. (2018). Transporters and mechanisms of hormone transport in arabidopsis. <i>Advances in Botanical Research</i>. Elsevier. <a href=\"https://doi.org/10.1016/bs.abr.2018.09.007\">https://doi.org/10.1016/bs.abr.2018.09.007</a>","ista":"Abualia R, Benková E, Lacombe B. 2018. Transporters and mechanisms of hormone transport in arabidopsis. Advances in Botanical Research. 87, 115–138.","mla":"Abualia, Rashed, et al. “Transporters and Mechanisms of Hormone Transport in Arabidopsis.” <i>Advances in Botanical Research</i>, vol. 87, Elsevier, 2018, pp. 115–38, doi:<a href=\"https://doi.org/10.1016/bs.abr.2018.09.007\">10.1016/bs.abr.2018.09.007</a>.","chicago":"Abualia, Rashed, Eva Benková, and Benoît Lacombe. “Transporters and Mechanisms of Hormone Transport in Arabidopsis.” <i>Advances in Botanical Research</i>. Elsevier, 2018. <a href=\"https://doi.org/10.1016/bs.abr.2018.09.007\">https://doi.org/10.1016/bs.abr.2018.09.007</a>.","ieee":"R. Abualia, E. Benková, and B. Lacombe, “Transporters and mechanisms of hormone transport in arabidopsis,” <i>Advances in Botanical Research</i>, vol. 87. Elsevier, pp. 115–138, 2018.","short":"R. Abualia, E. Benková, B. Lacombe, Advances in Botanical Research 87 (2018) 115–138.","ama":"Abualia R, Benková E, Lacombe B. Transporters and mechanisms of hormone transport in arabidopsis. <i>Advances in Botanical Research</i>. 2018;87:115-138. doi:<a href=\"https://doi.org/10.1016/bs.abr.2018.09.007\">10.1016/bs.abr.2018.09.007</a>"},"month":"01","status":"public","related_material":{"record":[{"relation":"dissertation_contains","id":"10303","status":"public"}]},"external_id":{"isi":["000453657800006"]},"title":"Transporters and mechanisms of hormone transport in arabidopsis","article_processing_charge":"No","date_created":"2018-12-11T11:44:20Z","publist_id":"8007","type":"journal_article","language":[{"iso":"eng"}],"intvolume":"        87","_id":"47","department":[{"_id":"EvBe"}],"publisher":"Elsevier","quality_controlled":"1","author":[{"id":"4827E134-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9357-9415","last_name":"Abualia","full_name":"Abualia, Rashed","first_name":"Rashed"},{"first_name":"Eva","full_name":"Benková, Eva","last_name":"Benková","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Benoît","full_name":"Lacombe, Benoît","last_name":"Lacombe"}]},{"day":"01","conference":{"location":"Beijing, China","name":"CONCUR: Conference on Concurrency Theory","start_date":"2018-09-04","end_date":"2018-09-07"},"year":"2018","has_accepted_license":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":"1","volume":118,"date_updated":"2026-04-15T22:30:58Z","oa":1,"file_date_updated":"2020-07-14T12:47:34Z","date_published":"2018-09-01T00:00:00Z","ddc":["000"],"arxiv":1,"month":"09","status":"public","related_material":{"record":[{"status":"public","id":"8934","relation":"dissertation_contains"}]},"oa_version":"Published Version","citation":{"ista":"Chatterjee K, Goharshady AK, Ibsen-Jensen R, Velner Y. 2018. Ergodic mean-payoff games for the analysis of attacks in crypto-currencies. CONCUR: Conference on Concurrency Theory, LIPIcs, vol. 118, 11.","apa":"Chatterjee, K., Goharshady, A. K., Ibsen-Jensen, R., &#38; Velner, Y. (2018). Ergodic mean-payoff games for the analysis of attacks in crypto-currencies (Vol. 118). Presented at the CONCUR: Conference on Concurrency Theory, Beijing, China: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.CONCUR.2018.11\">https://doi.org/10.4230/LIPIcs.CONCUR.2018.11</a>","chicago":"Chatterjee, Krishnendu, Amir Kafshdar Goharshady, Rasmus Ibsen-Jensen, and Yaron Velner. “Ergodic Mean-Payoff Games for the Analysis of Attacks in Crypto-Currencies,” Vol. 118. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018. <a href=\"https://doi.org/10.4230/LIPIcs.CONCUR.2018.11\">https://doi.org/10.4230/LIPIcs.CONCUR.2018.11</a>.","mla":"Chatterjee, Krishnendu, et al. <i>Ergodic Mean-Payoff Games for the Analysis of Attacks in Crypto-Currencies</i>. Vol. 118, 11, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018, doi:<a href=\"https://doi.org/10.4230/LIPIcs.CONCUR.2018.11\">10.4230/LIPIcs.CONCUR.2018.11</a>.","ieee":"K. Chatterjee, A. K. Goharshady, R. Ibsen-Jensen, and Y. Velner, “Ergodic mean-payoff games for the analysis of attacks in crypto-currencies,” presented at the CONCUR: Conference on Concurrency Theory, Beijing, China, 2018, vol. 118.","ama":"Chatterjee K, Goharshady AK, Ibsen-Jensen R, Velner Y. Ergodic mean-payoff games for the analysis of attacks in crypto-currencies. In: Vol 118. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2018. doi:<a href=\"https://doi.org/10.4230/LIPIcs.CONCUR.2018.11\">10.4230/LIPIcs.CONCUR.2018.11</a>","short":"K. Chatterjee, A.K. Goharshady, R. Ibsen-Jensen, Y. Velner, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018."},"abstract":[{"text":"Crypto-currencies are digital assets designed to work as a medium of exchange, e.g., Bitcoin, but they are susceptible to attacks (dishonest behavior of participants). A framework for the analysis of attacks in crypto-currencies requires (a) modeling of game-theoretic aspects to analyze incentives for deviation from honest behavior; (b) concurrent interactions between participants; and (c) analysis of long-term monetary gains. Traditional game-theoretic approaches for the analysis of security protocols consider either qualitative temporal properties such as safety and termination, or the very special class of one-shot (stateless) games. However, to analyze general attacks on protocols for crypto-currencies, both stateful analysis and quantitative objectives are necessary. In this work our main contributions are as follows: (a) we show how a class of concurrent mean-payo games, namely ergodic games, can model various attacks that arise naturally in crypto-currencies; (b) we present the first practical implementation of algorithms for ergodic games that scales to model realistic problems for crypto-currencies; and (c) we present experimental results showing that our framework can handle games with thousands of states and millions of transitions.","lang":"eng"}],"doi":"10.4230/LIPIcs.CONCUR.2018.11","alternative_title":["LIPIcs"],"publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"file":[{"checksum":"68a055b1aaa241cc38375083cf832a7d","date_updated":"2020-07-14T12:47:34Z","relation":"main_file","creator":"dernst","date_created":"2018-12-17T12:08:00Z","file_id":"5696","content_type":"application/pdf","file_size":1078309,"file_name":"2018_CONCUR_Chatterjee.pdf","access_level":"open_access"}],"publist_id":"7988","date_created":"2018-12-11T11:44:27Z","title":"Ergodic mean-payoff games for the analysis of attacks in crypto-currencies","article_processing_charge":"No","external_id":{"arxiv":["1806.03108"]},"article_number":"11","quality_controlled":"1","author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu"},{"last_name":"Goharshady","orcid":"0000-0003-1702-6584","id":"391365CE-F248-11E8-B48F-1D18A9856A87","first_name":"Amir","full_name":"Goharshady, Amir"},{"full_name":"Ibsen-Jensen, Rasmus","first_name":"Rasmus","orcid":"0000-0003-4783-0389","id":"3B699956-F248-11E8-B48F-1D18A9856A87","last_name":"Ibsen-Jensen"},{"last_name":"Velner","full_name":"Velner, Yaron","first_name":"Yaron"}],"department":[{"_id":"KrCh"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","publication_identifier":{"isbn":["978-3-95977-087-3"]},"project":[{"name":"Efficient Algorithms for Computer Aided Verification","_id":"25892FC0-B435-11E9-9278-68D0E5697425","grant_number":"ICT15-003"},{"grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","call_identifier":"FWF"},{"_id":"266EEEC0-B435-11E9-9278-68D0E5697425","name":"Quantitative Game-theoretic Analysis of Blockchain Applications and Smart Contracts"}],"type":"conference","language":[{"iso":"eng"}],"intvolume":"       118","ec_funded":1,"_id":"66"},{"publication_status":"published","page":"739 - 767","alternative_title":["LNCS"],"doi":"10.1007/978-3-319-89884-1_26","abstract":[{"lang":"eng","text":"Smart contracts are computer programs that are executed by a network of mutually distrusting agents, without the need of an external trusted authority. Smart contracts handle and transfer assets of considerable value (in the form of crypto-currency like Bitcoin). Hence, it is crucial that their implementation is bug-free. We identify the utility (or expected payoff) of interacting with such smart contracts as the basic and canonical quantitative property for such contracts. We present a framework for such quantitative analysis of smart contracts. Such a formal framework poses new and novel research challenges in programming languages, as it requires modeling of game-theoretic aspects to analyze incentives for deviation from honest behavior and modeling utilities which are not specified as standard temporal properties such as safety and termination. While game-theoretic incentives have been analyzed in the security community, their analysis has been restricted to the very special case of stateless games. However, to analyze smart contracts, stateful analysis is required as it must account for the different program states of the protocol. Our main contributions are as follows: we present (i)~a simplified programming language for smart contracts; (ii)~an automatic translation of the programs to state-based games; (iii)~an abstraction-refinement approach to solve such games; and (iv)~experimental results on real-world-inspired smart contracts."}],"citation":{"chicago":"Chatterjee, Krishnendu, Amir Kafshdar Goharshady, and Yaron Velner. “Quantitative Analysis of Smart Contracts,” 10801:739–67. Springer, 2018. <a href=\"https://doi.org/10.1007/978-3-319-89884-1_26\">https://doi.org/10.1007/978-3-319-89884-1_26</a>.","mla":"Chatterjee, Krishnendu, et al. <i>Quantitative Analysis of Smart Contracts</i>. Vol. 10801, Springer, 2018, pp. 739–67, doi:<a href=\"https://doi.org/10.1007/978-3-319-89884-1_26\">10.1007/978-3-319-89884-1_26</a>.","ista":"Chatterjee K, Goharshady AK, Velner Y. 2018. Quantitative analysis of smart contracts. ESOP: European Symposium on Programming, LNCS, vol. 10801, 739–767.","apa":"Chatterjee, K., Goharshady, A. K., &#38; Velner, Y. (2018). Quantitative analysis of smart contracts (Vol. 10801, pp. 739–767). Presented at the ESOP: European Symposium on Programming, Thessaloniki, Greece: Springer. <a href=\"https://doi.org/10.1007/978-3-319-89884-1_26\">https://doi.org/10.1007/978-3-319-89884-1_26</a>","ama":"Chatterjee K, Goharshady AK, Velner Y. Quantitative analysis of smart contracts. In: Vol 10801. Springer; 2018:739-767. doi:<a href=\"https://doi.org/10.1007/978-3-319-89884-1_26\">10.1007/978-3-319-89884-1_26</a>","short":"K. Chatterjee, A.K. Goharshady, Y. Velner, in:, Springer, 2018, pp. 739–767.","ieee":"K. Chatterjee, A. K. Goharshady, and Y. Velner, “Quantitative analysis of smart contracts,” presented at the ESOP: European Symposium on Programming, Thessaloniki, Greece, 2018, vol. 10801, pp. 739–767."},"oa_version":"Published Version","status":"public","month":"04","related_material":{"record":[{"id":"8934","status":"public","relation":"dissertation_contains"}]},"date_published":"2018-04-01T00:00:00Z","ddc":["000"],"oa":1,"file_date_updated":"2020-07-14T12:46:00Z","acknowledgement":"The research was partially supported by Vienna Science and Technology Fund (WWTF) Project ICT15-003, Austrian Science Fund (FWF) NFN Grant No S11407-N23 (RiSE/SHiNE), and ERC Starting grant (279307: Graph Games).","volume":10801,"date_updated":"2026-04-15T22:30:58Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":"1","day":"01","has_accepted_license":"1","conference":{"location":"Thessaloniki, Greece","name":"ESOP: European Symposium on Programming","start_date":"2018-04-16","end_date":"2018-04-19"},"year":"2018","language":[{"iso":"eng"}],"type":"conference","_id":"311","intvolume":"     10801","ec_funded":1,"project":[{"name":"Efficient Algorithms for Computer Aided Verification","_id":"25892FC0-B435-11E9-9278-68D0E5697425","grant_number":"ICT15-003"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","call_identifier":"FWF","name":"Rigorous Systems Engineering"},{"call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425"}],"department":[{"_id":"KrCh"}],"publisher":"Springer","author":[{"full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","last_name":"Chatterjee"},{"full_name":"Goharshady, Amir","first_name":"Amir","id":"391365CE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1702-6584","last_name":"Goharshady"},{"full_name":"Velner, Yaron","first_name":"Yaron","last_name":"Velner"}],"quality_controlled":"1","article_processing_charge":"No","title":"Quantitative analysis of smart contracts","date_created":"2018-12-11T11:45:45Z","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"publist_id":"7554","file":[{"relation":"main_file","checksum":"9c8a8338c571903b599b6ca93abd2cce","date_updated":"2020-07-14T12:46:00Z","file_id":"5716","date_created":"2018-12-17T15:45:49Z","file_name":"2018_ESOP_Chatterjee.pdf","file_size":1394993,"access_level":"open_access","content_type":"application/pdf","creator":"dernst"}]},{"page":"1343-1348","publication_status":"published","doi":"10.1109/Cybermatics_2018.2018.00231","abstract":[{"text":"We  present  a  secure  approach  for  maintaining  andreporting  credit  history  records  on  the  Blockchain.  Our  ap-proach  removes  third-parties  such  as  credit  reporting  agen-cies  from  the  lending  process  and  replaces  them  with  smartcontracts.  This  allows  customers  to  interact  directly  with  thelenders  or  banks  while  ensuring  the  integrity,  unmalleabilityand  privacy  of  their  credit  data.  Additionally,  each  customerhas  full  control  over  complete  or  selective  disclosure  of  hercredit records, eliminating the risk of privacy violations or databreaches. Moreover, our approach provides strong guaranteesfor the lenders as well. A lender can check both correctness andcompleteness of the credit data disclosed to her. This is the firstapproach  that  can  perform  all  credit  reporting  tasks  withouta  central  authority  or  changing  the  financial  mechanisms*.","lang":"eng"}],"citation":{"ieee":"A. K. Goharshady, A. Behrouz, and K. Chatterjee, “Secure Credit Reporting on the Blockchain,” in <i>Proceedings of the IEEE International Conference on Blockchain</i>, Halifax, Canada, 2018, pp. 1343–1348.","ama":"Goharshady AK, Behrouz A, Chatterjee K. Secure Credit Reporting on the Blockchain. In: <i>Proceedings of the IEEE International Conference on Blockchain</i>. IEEE; 2018:1343-1348. doi:<a href=\"https://doi.org/10.1109/Cybermatics_2018.2018.00231\">10.1109/Cybermatics_2018.2018.00231</a>","short":"A.K. Goharshady, A. Behrouz, K. Chatterjee, in:, Proceedings of the IEEE International Conference on Blockchain, IEEE, 2018, pp. 1343–1348.","ista":"Goharshady AK, Behrouz A, Chatterjee K. 2018. Secure Credit Reporting on the Blockchain. Proceedings of the IEEE International Conference on Blockchain. IEEE International Conference on Blockchain, 1343–1348.","apa":"Goharshady, A. K., Behrouz, A., &#38; Chatterjee, K. (2018). Secure Credit Reporting on the Blockchain. In <i>Proceedings of the IEEE International Conference on Blockchain</i> (pp. 1343–1348). Halifax, Canada: IEEE. <a href=\"https://doi.org/10.1109/Cybermatics_2018.2018.00231\">https://doi.org/10.1109/Cybermatics_2018.2018.00231</a>","chicago":"Goharshady, Amir Kafshdar, Ali Behrouz, and Krishnendu Chatterjee. “Secure Credit Reporting on the Blockchain.” In <i>Proceedings of the IEEE International Conference on Blockchain</i>, 1343–48. IEEE, 2018. <a href=\"https://doi.org/10.1109/Cybermatics_2018.2018.00231\">https://doi.org/10.1109/Cybermatics_2018.2018.00231</a>.","mla":"Goharshady, Amir Kafshdar, et al. “Secure Credit Reporting on the Blockchain.” <i>Proceedings of the IEEE International Conference on Blockchain</i>, IEEE, 2018, pp. 1343–48, doi:<a href=\"https://doi.org/10.1109/Cybermatics_2018.2018.00231\">10.1109/Cybermatics_2018.2018.00231</a>."},"oa_version":"Submitted Version","related_material":{"record":[{"status":"public","id":"8934","relation":"dissertation_contains"}]},"month":"09","status":"public","isi":1,"publication":"Proceedings of the IEEE International Conference on Blockchain","arxiv":1,"ddc":["000"],"date_published":"2018-09-01T00:00:00Z","file_date_updated":"2020-07-14T12:47:27Z","oa":1,"date_updated":"2026-04-15T22:30:59Z","scopus_import":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","has_accepted_license":"1","conference":{"name":"IEEE International Conference on Blockchain","location":"Halifax, Canada","end_date":"2018-08-03","start_date":"2018-07-30"},"year":"2018","day":"01","_id":"6340","ec_funded":1,"language":[{"iso":"eng"}],"type":"conference","project":[{"name":"Efficient Algorithms for Computer Aided Verification","grant_number":"ICT15-003","_id":"25892FC0-B435-11E9-9278-68D0E5697425"},{"_id":"266EEEC0-B435-11E9-9278-68D0E5697425","name":"Quantitative Game-theoretic Analysis of Blockchain Applications and Smart Contracts"},{"call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","call_identifier":"FWF"}],"publication_identifier":{"isbn":["978-1-5386-7975-3 "]},"department":[{"_id":"KrCh"}],"publisher":"IEEE","author":[{"first_name":"Amir Kafshdar","full_name":"Goharshady, Amir Kafshdar","last_name":"Goharshady","orcid":"0000-0003-1702-6584","id":"391365CE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Behrouz, Ali","first_name":"Ali","last_name":"Behrouz"},{"first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"}],"quality_controlled":"1","external_id":{"isi":["000481634500196"],"arxiv":["1805.09104"]},"article_processing_charge":"No","title":"Secure Credit Reporting on the Blockchain","date_created":"2019-04-18T10:37:35Z","file":[{"relation":"main_file","date_updated":"2020-07-14T12:47:27Z","checksum":"b25c9bb7cf6e7e6634e692d26d41ead8","file_name":"blockchain2018.pdf","file_size":624338,"access_level":"open_access","content_type":"application/pdf","file_id":"6341","date_created":"2019-04-18T10:36:39Z","creator":"akafshda"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","short":"CC 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40","_id":"6009","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1510.07565"}],"article_number":"9","quality_controlled":"1","author":[{"orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu"},{"full_name":"Ibsen-Jensen, Rasmus","first_name":"Rasmus","orcid":"0000-0003-4783-0389","id":"3B699956-F248-11E8-B48F-1D18A9856A87","last_name":"Ibsen-Jensen"},{"orcid":"0000-0003-1702-6584","id":"391365CE-F248-11E8-B48F-1D18A9856A87","last_name":"Goharshady","full_name":"Goharshady, Amir Kafshdar","first_name":"Amir Kafshdar"},{"first_name":"Andreas","full_name":"Pavlogiannis, Andreas","last_name":"Pavlogiannis","orcid":"0000-0002-8943-0722","id":"49704004-F248-11E8-B48F-1D18A9856A87"}],"issue":"3","publisher":"Association for Computing Machinery","department":[{"_id":"KrCh"}],"volume":40,"date_updated":"2026-04-15T22:30:59Z","oa":1,"date_published":"2018-08-01T00:00:00Z","arxiv":1,"isi":1,"publication":"ACM Transactions on Programming Languages and Systems","day":"01","year":"2018","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":"1","abstract":[{"lang":"eng","text":"We study algorithmic questions wrt algebraic path properties in concurrent systems, where the transitions of the system are labeled from a complete, closed semiring. The algebraic path properties can model dataflow analysis problems, the shortest path problem, and many other natural problems that arise in program analysis. We consider that each component of the concurrent system is a graph with constant treewidth, a property satisfied by the controlflow graphs of most programs. We allow for multiple possible queries, which arise naturally in demand driven dataflow analysis. The study of multiple queries allows us to consider the tradeoff between the resource usage of the one-time preprocessing and for each individual query. The traditional approach constructs the product graph of all components and applies the best-known graph algorithm on the product. In this approach, even the answer to a single query requires the transitive closure (i.e., the results of all possible queries), which provides no room for tradeoff between preprocessing and query time.\r\nOur main contributions are algorithms that significantly improve the worst-case running time of the traditional approach, and provide various tradeoffs depending on the number of queries. For example, in a concurrent system of two components, the traditional approach requires hexic time in the worst case for answering one query as well as computing the transitive closure, whereas we show that with one-time preprocessing in almost cubic time, each subsequent query can be answered in at most linear time, and even the transitive closure can be computed in almost quartic time. Furthermore, we establish conditional optimality results showing that the worst-case running time of our algorithms cannot be improved without achieving major breakthroughs in graph algorithms (i.e., improving the worst-case bound for the shortest path problem in general graphs). Preliminary experimental results show that our algorithms perform favorably on several benchmarks.\r\n"}],"doi":"10.1145/3210257","publication_status":"published","status":"public","month":"08","related_material":{"record":[{"relation":"earlier_version","id":"5441","status":"public"},{"id":"5442","status":"public","relation":"earlier_version"},{"relation":"earlier_version","id":"1437","status":"public"},{"status":"public","id":"8934","relation":"dissertation_contains"}]},"oa_version":"Preprint","citation":{"ieee":"K. Chatterjee, R. Ibsen-Jensen, A. K. Goharshady, and A. Pavlogiannis, “Algorithms for algebraic path properties in concurrent systems of constant treewidth components,” <i>ACM Transactions on Programming Languages and Systems</i>, vol. 40, no. 3. Association for Computing Machinery, 2018.","short":"K. Chatterjee, R. Ibsen-Jensen, A.K. Goharshady, A. Pavlogiannis, ACM Transactions on Programming Languages and Systems 40 (2018).","ama":"Chatterjee K, Ibsen-Jensen R, Goharshady AK, Pavlogiannis A. Algorithms for algebraic path properties in concurrent systems of constant treewidth components. <i>ACM Transactions on Programming Languages and Systems</i>. 2018;40(3). doi:<a href=\"https://doi.org/10.1145/3210257\">10.1145/3210257</a>","apa":"Chatterjee, K., Ibsen-Jensen, R., Goharshady, A. K., &#38; Pavlogiannis, A. (2018). Algorithms for algebraic path properties in concurrent systems of constant treewidth components. <i>ACM Transactions on Programming Languages and Systems</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3210257\">https://doi.org/10.1145/3210257</a>","ista":"Chatterjee K, Ibsen-Jensen R, Goharshady AK, Pavlogiannis A. 2018. Algorithms for algebraic path properties in concurrent systems of constant treewidth components. ACM Transactions on Programming Languages and Systems. 40(3), 9.","mla":"Chatterjee, Krishnendu, et al. “Algorithms for Algebraic Path Properties in Concurrent Systems of Constant Treewidth Components.” <i>ACM Transactions on Programming Languages and Systems</i>, vol. 40, no. 3, 9, Association for Computing Machinery, 2018, doi:<a href=\"https://doi.org/10.1145/3210257\">10.1145/3210257</a>.","chicago":"Chatterjee, Krishnendu, Rasmus Ibsen-Jensen, Amir Kafshdar Goharshady, and Andreas Pavlogiannis. “Algorithms for Algebraic Path Properties in Concurrent Systems of Constant Treewidth Components.” <i>ACM Transactions on Programming Languages and Systems</i>. Association for Computing Machinery, 2018. <a href=\"https://doi.org/10.1145/3210257\">https://doi.org/10.1145/3210257</a>."}},{"publication":"Proceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence","isi":1,"date_published":"2018-07-17T00:00:00Z","arxiv":1,"oa":1,"date_updated":"2026-04-15T22:30:59Z","volume":2018,"scopus_import":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","conference":{"start_date":"2018-07-13","end_date":"2018-07-19","location":"Stockholm, Sweden","name":"IJCAI: International Joint Conference on Artificial Intelligence"},"day":"17","publication_status":"published","page":"4700-4707","abstract":[{"text":"We consider the stochastic shortest path (SSP)problem for succinct Markov decision processes(MDPs), where the MDP consists of a set of vari-ables, and a set of nondeterministic rules that up-date the variables. First, we show that several ex-amples from the AI literature can be modeled assuccinct MDPs.  Then we present computationalapproaches for upper and lower bounds for theSSP problem: (a) for computing upper bounds, ourmethod is polynomial-time in the implicit descrip-tion of the MDP; (b) for lower bounds, we present apolynomial-time (in the size of the implicit descrip-tion) reduction to quadratic programming. Our ap-proach is applicable even to infinite-state MDPs.Finally, we present experimental results to demon-strate the effectiveness of our approach on severalclassical examples from the AI literature.","lang":"eng"}],"doi":"10.24963/ijcai.2018/653","citation":{"chicago":"Chatterjee, Krishnendu, Hongfei Fu, Amir Kafshdar Goharshady, and Nastaran Okati. “Computational Approaches for Stochastic Shortest Path on Succinct MDPs.” In <i>Proceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence</i>, 2018:4700–4707. IJCAI, 2018. <a href=\"https://doi.org/10.24963/ijcai.2018/653\">https://doi.org/10.24963/ijcai.2018/653</a>.","mla":"Chatterjee, Krishnendu, et al. “Computational Approaches for Stochastic Shortest Path on Succinct MDPs.” <i>Proceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence</i>, vol. 2018, IJCAI, 2018, pp. 4700–07, doi:<a href=\"https://doi.org/10.24963/ijcai.2018/653\">10.24963/ijcai.2018/653</a>.","ista":"Chatterjee K, Fu H, Goharshady AK, Okati N. 2018. Computational approaches for stochastic shortest path on succinct MDPs. Proceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence. IJCAI: International Joint Conference on Artificial Intelligence vol. 2018, 4700–4707.","apa":"Chatterjee, K., Fu, H., Goharshady, A. K., &#38; Okati, N. (2018). Computational approaches for stochastic shortest path on succinct MDPs. In <i>Proceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence</i> (Vol. 2018, pp. 4700–4707). Stockholm, Sweden: IJCAI. <a href=\"https://doi.org/10.24963/ijcai.2018/653\">https://doi.org/10.24963/ijcai.2018/653</a>","short":"K. Chatterjee, H. Fu, A.K. Goharshady, N. Okati, in:, Proceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence, IJCAI, 2018, pp. 4700–4707.","ama":"Chatterjee K, Fu H, Goharshady AK, Okati N. Computational approaches for stochastic shortest path on succinct MDPs. In: <i>Proceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence</i>. Vol 2018. IJCAI; 2018:4700-4707. doi:<a href=\"https://doi.org/10.24963/ijcai.2018/653\">10.24963/ijcai.2018/653</a>","ieee":"K. Chatterjee, H. Fu, A. K. Goharshady, and N. Okati, “Computational approaches for stochastic shortest path on succinct MDPs,” in <i>Proceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence</i>, Stockholm, Sweden, 2018, vol. 2018, pp. 4700–4707."},"oa_version":"Preprint","related_material":{"record":[{"id":"8934","status":"public","relation":"dissertation_contains"}]},"status":"public","month":"07","external_id":{"isi":["000764175404118"],"arxiv":["1804.08984"]},"article_processing_charge":"No","title":"Computational approaches for stochastic shortest path on succinct MDPs","date_created":"2019-02-13T13:26:27Z","_id":"5977","intvolume":"      2018","ec_funded":1,"language":[{"iso":"eng"}],"type":"conference","project":[{"name":"Efficient Algorithms for Computer Aided Verification","_id":"25892FC0-B435-11E9-9278-68D0E5697425","grant_number":"ICT15-003"},{"grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Rigorous Systems Engineering"},{"_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7"}],"publication_identifier":{"issn":["1045-0823"],"isbn":["9780999241127"]},"department":[{"_id":"KrCh"}],"publisher":"IJCAI","author":[{"full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee"},{"first_name":"Hongfei","full_name":"Fu, Hongfei","last_name":"Fu","id":"3AAD03D6-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Goharshady","id":"391365CE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1702-6584","first_name":"Amir","full_name":"Goharshady, Amir"},{"full_name":"Okati, Nastaran","first_name":"Nastaran","last_name":"Okati"}],"quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1804.08984"}]},{"quality_controlled":"1","author":[{"full_name":"Li, Lanxin","first_name":"Lanxin","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X","last_name":"Li"},{"first_name":"Gabriel","full_name":"Krens, Gabriel","last_name":"Krens","id":"2B819732-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4761-5996"},{"full_name":"Fendrych, Matyas","first_name":"Matyas","orcid":"0000-0002-9767-8699","id":"43905548-F248-11E8-B48F-1D18A9856A87","last_name":"Fendrych"},{"last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","full_name":"Friml, Jirí"}],"department":[{"_id":"JiFr"},{"_id":"Bio"}],"publisher":"Bio-protocol","issue":"1","project":[{"name":"International IST Doctoral Program","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385"}],"publication_identifier":{"eissn":["2331-8325"]},"ec_funded":1,"intvolume":"         8","_id":"442","type":"journal_article","language":[{"iso":"eng"}],"file":[{"creator":"system","content_type":"application/pdf","file_name":"IST-2018-970-v1+1_2018_Lanxin_Real-time_analysis.pdf","file_size":11352389,"access_level":"open_access","date_created":"2018-12-12T10:17:43Z","file_id":"5299","date_updated":"2020-07-14T12:46:29Z","checksum":"6644ba698206eda32b0abf09128e63e3","relation":"main_file"}],"publist_id":"7381","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"corr_author":"1","date_created":"2018-12-11T11:46:30Z","pubrep_id":"970","title":"Real-time analysis of auxin response, cell wall pH and elongation in Arabidopsis thaliana Hypocotyls","article_processing_charge":"No","article_type":"original","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"10083"}]},"month":"01","status":"public","oa_version":"Published Version","citation":{"ieee":"L. Li, G. Krens, M. Fendrych, and J. Friml, “Real-time analysis of auxin response, cell wall pH and elongation in Arabidopsis thaliana Hypocotyls,” <i>Bio-protocol</i>, vol. 8, no. 1. Bio-protocol, 2018.","ama":"Li L, Krens G, Fendrych M, Friml J. Real-time analysis of auxin response, cell wall pH and elongation in Arabidopsis thaliana Hypocotyls. <i>Bio-protocol</i>. 2018;8(1). doi:<a href=\"https://doi.org/10.21769/BioProtoc.2685\">10.21769/BioProtoc.2685</a>","short":"L. Li, G. Krens, M. Fendrych, J. Friml, Bio-Protocol 8 (2018).","ista":"Li L, Krens G, Fendrych M, Friml J. 2018. Real-time analysis of auxin response, cell wall pH and elongation in Arabidopsis thaliana Hypocotyls. Bio-protocol. 8(1).","apa":"Li, L., Krens, G., Fendrych, M., &#38; Friml, J. (2018). Real-time analysis of auxin response, cell wall pH and elongation in Arabidopsis thaliana Hypocotyls. <i>Bio-Protocol</i>. Bio-protocol. <a href=\"https://doi.org/10.21769/BioProtoc.2685\">https://doi.org/10.21769/BioProtoc.2685</a>","chicago":"Li, Lanxin, Gabriel Krens, Matyas Fendrych, and Jiří Friml. “Real-Time Analysis of Auxin Response, Cell Wall PH and Elongation in Arabidopsis Thaliana Hypocotyls.” <i>Bio-Protocol</i>. Bio-protocol, 2018. <a href=\"https://doi.org/10.21769/BioProtoc.2685\">https://doi.org/10.21769/BioProtoc.2685</a>.","mla":"Li, Lanxin, et al. “Real-Time Analysis of Auxin Response, Cell Wall PH and Elongation in Arabidopsis Thaliana Hypocotyls.” <i>Bio-Protocol</i>, vol. 8, no. 1, Bio-protocol, 2018, doi:<a href=\"https://doi.org/10.21769/BioProtoc.2685\">10.21769/BioProtoc.2685</a>."},"doi":"10.21769/BioProtoc.2685","abstract":[{"text":"The rapid auxin-triggered growth of the Arabidopsis hypocotyls involves the nuclear TIR1/AFB-Aux/IAA signaling and is accompanied by acidification of the apoplast and cell walls (Fendrych et al., 2016). Here, we describe in detail the method for analysis of the elongation and the TIR1/AFB-Aux/IAA-dependent auxin response in hypocotyl segments as well as the determination of relative values of the cell wall pH.","lang":"eng"}],"publication_status":"published","year":"2018","has_accepted_license":"1","day":"05","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2026-04-15T22:31:01Z","volume":8,"publication":"Bio-protocol","acknowledgement":"This protocol was adapted from Fendrych et al., 2016. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 665385, and Austrian Science Fund (FWF) [M 2128-B21]. ","oa":1,"file_date_updated":"2020-07-14T12:46:29Z","date_published":"2018-01-05T00:00:00Z","ddc":["576","581"]},{"publisher":"Oxford University Press","department":[{"_id":"SiHi"}],"issue":"9","author":[{"first_name":"Ximena","full_name":"Contreras, Ximena","last_name":"Contreras","id":"475990FE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Simon","full_name":"Hippenmeyer, Simon","last_name":"Hippenmeyer","id":"37B36620-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2279-1061"}],"quality_controlled":"1","_id":"28","intvolume":"       141","language":[{"iso":"eng"}],"type":"journal_article","date_created":"2018-12-11T11:44:14Z","external_id":{"isi":["000446548100012"]},"article_processing_charge":"No","title":"Incorrect trafficking route leads to autism","citation":{"ieee":"X. Contreras and S. Hippenmeyer, “Incorrect trafficking route leads to autism,” <i>Brain a journal of neurology</i>, vol. 141, no. 9. Oxford University Press, pp. 2542–2544, 2018.","short":"X. Contreras, S. Hippenmeyer, Brain a Journal of Neurology 141 (2018) 2542–2544.","ama":"Contreras X, Hippenmeyer S. Incorrect trafficking route leads to autism. <i>Brain a journal of neurology</i>. 2018;141(9):2542-2544. doi:<a href=\"https://doi.org/10.1093/brain/awy218\">10.1093/brain/awy218</a>","ista":"Contreras X, Hippenmeyer S. 2018. Incorrect trafficking route leads to autism. Brain a journal of neurology. 141(9), 2542–2544.","apa":"Contreras, X., &#38; Hippenmeyer, S. (2018). Incorrect trafficking route leads to autism. <i>Brain a Journal of Neurology</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/brain/awy218\">https://doi.org/10.1093/brain/awy218</a>","chicago":"Contreras, Ximena, and Simon Hippenmeyer. “Incorrect Trafficking Route Leads to Autism.” <i>Brain a Journal of Neurology</i>. Oxford University Press, 2018. <a href=\"https://doi.org/10.1093/brain/awy218\">https://doi.org/10.1093/brain/awy218</a>.","mla":"Contreras, Ximena, and Simon Hippenmeyer. “Incorrect Trafficking Route Leads to Autism.” <i>Brain a Journal of Neurology</i>, vol. 141, no. 9, Oxford University Press, 2018, pp. 2542–44, doi:<a href=\"https://doi.org/10.1093/brain/awy218\">10.1093/brain/awy218</a>."},"oa_version":"None","related_material":{"record":[{"relation":"part_of_dissertation","id":"7902","status":"public"}]},"month":"09","status":"public","page":"2542 - 2544","publication_status":"published","abstract":[{"text":"This scientific commentary refers to ‘NEGR1 and FGFR2 cooperatively regulate cortical development and core behaviours related to autism disorders in mice’ by Szczurkowska et al. ","lang":"eng"}],"doi":"10.1093/brain/awy218","scopus_import":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","year":"2018","day":"01","isi":1,"publication":"Brain a journal of neurology","date_published":"2018-09-01T00:00:00Z","date_updated":"2026-04-15T22:31:03Z","volume":141},{"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","scopus_import":"1","day":"01","has_accepted_license":"1","year":"2018","ddc":["530"],"date_published":"2018-01-01T00:00:00Z","oa":1,"file_date_updated":"2020-07-14T12:46:25Z","publication":"Flow Turbulence and Combustion","isi":1,"volume":100,"date_updated":"2026-04-15T22:31:04Z","citation":{"ama":"Kühnen J, Scarselli D, Schaner M, Hof B. Relaminarization by steady modification of the streamwise velocity profile in a pipe. <i>Flow Turbulence and Combustion</i>. 2018;100(4):919-942. doi:<a href=\"https://doi.org/10.1007/s10494-018-9896-4\">10.1007/s10494-018-9896-4</a>","short":"J. Kühnen, D. Scarselli, M. Schaner, B. Hof, Flow Turbulence and Combustion 100 (2018) 919–942.","ieee":"J. Kühnen, D. Scarselli, M. Schaner, and B. Hof, “Relaminarization by steady modification of the streamwise velocity profile in a pipe,” <i>Flow Turbulence and Combustion</i>, vol. 100, no. 4. Springer, pp. 919–942, 2018.","mla":"Kühnen, Jakob, et al. “Relaminarization by Steady Modification of the Streamwise Velocity Profile in a Pipe.” <i>Flow Turbulence and Combustion</i>, vol. 100, no. 4, Springer, 2018, pp. 919–42, doi:<a href=\"https://doi.org/10.1007/s10494-018-9896-4\">10.1007/s10494-018-9896-4</a>.","chicago":"Kühnen, Jakob, Davide Scarselli, Markus Schaner, and Björn Hof. “Relaminarization by Steady Modification of the Streamwise Velocity Profile in a Pipe.” <i>Flow Turbulence and Combustion</i>. Springer, 2018. <a href=\"https://doi.org/10.1007/s10494-018-9896-4\">https://doi.org/10.1007/s10494-018-9896-4</a>.","apa":"Kühnen, J., Scarselli, D., Schaner, M., &#38; Hof, B. (2018). Relaminarization by steady modification of the streamwise velocity profile in a pipe. <i>Flow Turbulence and Combustion</i>. Springer. <a href=\"https://doi.org/10.1007/s10494-018-9896-4\">https://doi.org/10.1007/s10494-018-9896-4</a>","ista":"Kühnen J, Scarselli D, Schaner M, Hof B. 2018. Relaminarization by steady modification of the streamwise velocity profile in a pipe. Flow Turbulence and Combustion. 100(4), 919–942."},"oa_version":"Published Version","month":"01","status":"public","related_material":{"record":[{"status":"public","id":"7258","relation":"dissertation_contains"}]},"publication_status":"published","page":"919 - 942","doi":"10.1007/s10494-018-9896-4","abstract":[{"lang":"eng","text":"We show that a rather simple, steady modification of the streamwise velocity profile in a pipe can lead to a complete collapse of turbulence and the flow fully relaminarizes. Two different devices, a stationary obstacle (inset) and a device which injects fluid through an annular gap close to the wall, are used to control the flow. Both devices modify the streamwise velocity profile such that the flow in the center of the pipe is decelerated and the flow in the near wall region is accelerated. We present measurements with stereoscopic particle image velocimetry to investigate and capture the development of the relaminarizing flow downstream these devices and the specific circumstances responsible for relaminarization. We find total relaminarization up to Reynolds numbers of 6000, where the skin friction in the far downstream distance is reduced by a factor of 3.4 due to relaminarization. In a smooth straight pipe the flow remains completely laminar downstream of the control. Furthermore, we show that transient (temporary) relaminarization in a spatially confined region right downstream the devices occurs also at much higher Reynolds numbers, accompanied by a significant local skin friction drag reduction. The underlying physical mechanism of relaminarization is attributed to a weakening of the near-wall turbulence production cycle."}],"date_created":"2018-12-11T11:46:23Z","corr_author":"1","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"publist_id":"7401","file":[{"file_id":"5717","date_created":"2018-12-17T15:52:37Z","file_size":2210020,"access_level":"open_access","file_name":"2018_FlowTurbulenceCombust_Kuehnen.pdf","content_type":"application/pdf","creator":"dernst","relation":"main_file","checksum":"d7c0bade150faabca150b0a9986e60ca","date_updated":"2020-07-14T12:46:25Z"}],"external_id":{"isi":["000433113900004"]},"article_processing_charge":"Yes (via OA deal)","title":"Relaminarization by steady modification of the streamwise velocity profile in a pipe","issue":"4","department":[{"_id":"BjHo"}],"publisher":"Springer","author":[{"full_name":"Kühnen, Jakob","first_name":"Jakob","orcid":"0000-0003-4312-0179","id":"3A47AE32-F248-11E8-B48F-1D18A9856A87","last_name":"Kühnen"},{"orcid":"0000-0001-5227-4271","id":"40315C30-F248-11E8-B48F-1D18A9856A87","last_name":"Scarselli","full_name":"Scarselli, Davide","first_name":"Davide"},{"first_name":"Markus","full_name":"Schaner, Markus","last_name":"Schaner","id":"316CE034-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Björn","full_name":"Hof, Björn","last_name":"Hof","id":"3A374330-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2057-2754"}],"quality_controlled":"1","language":[{"iso":"eng"}],"type":"journal_article","_id":"422","intvolume":"       100","ec_funded":1,"project":[{"call_identifier":"FP7","name":"Decoding the complexity of turbulence at its origin","_id":"25152F3A-B435-11E9-9278-68D0E5697425","grant_number":"306589"}]},{"corr_author":"1","date_created":"2018-12-11T11:46:36Z","publist_id":"7360","external_id":{"arxiv":["1711.06543"],"isi":["000429434100020"]},"article_processing_charge":"No","title":"Destabilizing turbulence in pipe flow","publisher":"Nature Publishing Group","department":[{"_id":"BjHo"}],"author":[{"id":"3A47AE32-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4312-0179","last_name":"Kühnen","full_name":"Kühnen, Jakob","first_name":"Jakob"},{"last_name":"Song","first_name":"Baofang","full_name":"Song, Baofang"},{"first_name":"Davide","full_name":"Scarselli, Davide","last_name":"Scarselli","id":"40315C30-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5227-4271"},{"first_name":"Nazmi B","full_name":"Budanur, Nazmi B","last_name":"Budanur","id":"3EA1010E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0423-5010"},{"orcid":"0000-0003-4844-6311","id":"3BE60946-F248-11E8-B48F-1D18A9856A87","last_name":"Riedl","full_name":"Riedl, Michael","first_name":"Michael"},{"full_name":"Willis, Ashley","first_name":"Ashley","last_name":"Willis"},{"last_name":"Avila","first_name":"Marc","full_name":"Avila, Marc"},{"first_name":"Björn","full_name":"Hof, Björn","last_name":"Hof","orcid":"0000-0003-2057-2754","id":"3A374330-F248-11E8-B48F-1D18A9856A87"}],"quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1711.06543"}],"_id":"461","ec_funded":1,"intvolume":"        14","language":[{"iso":"eng"}],"type":"journal_article","project":[{"grant_number":"306589","_id":"25152F3A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Decoding the complexity of turbulence at its origin"},{"name":"Eliminating turbulence in oil pipelines","call_identifier":"H2020","grant_number":"737549","_id":"25104D44-B435-11E9-9278-68D0E5697425"}],"scopus_import":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","day":"08","isi":1,"acknowledgement":"We acknowledge the European Research Council under the European Union’s Seventh Framework Programme (FP/2007-2013)/ERC Grant Agreement 306589, the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement no. 737549) and the Deutsche Forschungsgemeinschaft (Project No. FOR 1182) for financial support. We thank our technician P. Maier for providing highly valuable ideas and greatly supporting us in all technical aspects. We thank M. Schaner for technical drawings, construction and design. We thank M. Schwegel for a Matlab code to post-process experimental data.","publication":"Nature Physics","arxiv":1,"date_published":"2018-01-08T00:00:00Z","oa":1,"date_updated":"2026-04-15T22:31:04Z","volume":14,"citation":{"short":"J. Kühnen, B. Song, D. Scarselli, N.B. Budanur, M. Riedl, A. Willis, M. Avila, B. Hof, Nature Physics 14 (2018) 386–390.","ama":"Kühnen J, Song B, Scarselli D, et al. Destabilizing turbulence in pipe flow. <i>Nature Physics</i>. 2018;14:386-390. doi:<a href=\"https://doi.org/10.1038/s41567-017-0018-3\">10.1038/s41567-017-0018-3</a>","ieee":"J. Kühnen <i>et al.</i>, “Destabilizing turbulence in pipe flow,” <i>Nature Physics</i>, vol. 14. Nature Publishing Group, pp. 386–390, 2018.","chicago":"Kühnen, Jakob, Baofang Song, Davide Scarselli, Nazmi B Budanur, Michael Riedl, Ashley Willis, Marc Avila, and Björn Hof. “Destabilizing Turbulence in Pipe Flow.” <i>Nature Physics</i>. Nature Publishing Group, 2018. <a href=\"https://doi.org/10.1038/s41567-017-0018-3\">https://doi.org/10.1038/s41567-017-0018-3</a>.","mla":"Kühnen, Jakob, et al. “Destabilizing Turbulence in Pipe Flow.” <i>Nature Physics</i>, vol. 14, Nature Publishing Group, 2018, pp. 386–90, doi:<a href=\"https://doi.org/10.1038/s41567-017-0018-3\">10.1038/s41567-017-0018-3</a>.","ista":"Kühnen J, Song B, Scarselli D, Budanur NB, Riedl M, Willis A, Avila M, Hof B. 2018. Destabilizing turbulence in pipe flow. Nature Physics. 14, 386–390.","apa":"Kühnen, J., Song, B., Scarselli, D., Budanur, N. B., Riedl, M., Willis, A., … Hof, B. (2018). Destabilizing turbulence in pipe flow. <i>Nature Physics</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41567-017-0018-3\">https://doi.org/10.1038/s41567-017-0018-3</a>"},"oa_version":"Preprint","related_material":{"record":[{"relation":"dissertation_contains","id":"12726","status":"public"},{"relation":"dissertation_contains","id":"14530","status":"public"},{"id":"7258","status":"public","relation":"dissertation_contains"}]},"status":"public","month":"01","page":"386-390","publication_status":"published","abstract":[{"lang":"eng","text":"Turbulence is the major cause of friction losses in transport processes and it is responsible for a drastic drag increase in flows over bounding surfaces. While much effort is invested into developing ways to control and reduce turbulence intensities, so far no methods exist to altogether eliminate turbulence if velocities are sufficiently large. We demonstrate for pipe flow that appropriate distortions to the velocity profile lead to a complete collapse of turbulence and subsequently friction losses are reduced by as much as 90%. Counterintuitively, the return to laminar motion is accomplished by initially increasing turbulence intensities or by transiently amplifying wall shear. Since neither the Reynolds number nor the shear stresses decrease (the latter often increase), these measures are not indicative of turbulence collapse. Instead, an amplification mechanism                      measuring the interaction between eddies and the mean shear is found to set a threshold below which turbulence is suppressed beyond recovery."}],"doi":"10.1038/s41567-017-0018-3"},{"project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300","name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7"}],"ec_funded":1,"intvolume":"        14","_id":"449","type":"journal_article","language":[{"iso":"eng"}],"quality_controlled":"1","author":[{"full_name":"Prat, Tomas","first_name":"Tomas","id":"3DA3BFEE-F248-11E8-B48F-1D18A9856A87","last_name":"Prat"},{"last_name":"Hajny","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2140-7195","first_name":"Jakub","full_name":"Hajny, Jakub"},{"first_name":"Wim","full_name":"Grunewald, Wim","last_name":"Grunewald"},{"last_name":"Vasileva","id":"3407EB18-F248-11E8-B48F-1D18A9856A87","first_name":"Mina K","full_name":"Vasileva, Mina K"},{"full_name":"Molnar, Gergely","first_name":"Gergely","id":"34F1AF46-F248-11E8-B48F-1D18A9856A87","last_name":"Molnar"},{"last_name":"Tejos","full_name":"Tejos, Ricardo","first_name":"Ricardo"},{"last_name":"Schmid","first_name":"Markus","full_name":"Schmid, Markus"},{"last_name":"Sauer","first_name":"Michael","full_name":"Sauer, Michael"},{"last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","full_name":"Friml, Jirí"}],"department":[{"_id":"JiFr"}],"publisher":"Public Library of Science","issue":"1","pubrep_id":"967","title":"WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity","article_processing_charge":"Yes","external_id":{"isi":["000423718600034"]},"file":[{"date_created":"2018-12-12T10:10:52Z","file_id":"4843","content_type":"application/pdf","access_level":"open_access","file_name":"IST-2018-967-v1+1_journal.pgen.1007177.pdf","file_size":24709062,"creator":"system","relation":"main_file","checksum":"0276d66788ec076f4924164a39e6a712","date_updated":"2020-07-14T12:46:30Z"}],"publist_id":"7373","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"corr_author":"1","date_created":"2018-12-11T11:46:32Z","abstract":[{"text":"Auxin is unique among plant hormones due to its directional transport that is mediated by the polarly distributed PIN auxin transporters at the plasma membrane. The canalization hypothesis proposes that the auxin feedback on its polar flow is a crucial, plant-specific mechanism mediating multiple self-organizing developmental processes. Here, we used the auxin effect on the PIN polar localization in Arabidopsis thaliana roots as a proxy for the auxin feedback on the PIN polarity during canalization. We performed microarray experiments to find regulators of this process that act downstream of auxin. We identified genes that were transcriptionally regulated by auxin in an AXR3/IAA17- and ARF7/ARF19-dependent manner. Besides the known components of the PIN polarity, such as PID and PIP5K kinases, a number of potential new regulators were detected, among which the WRKY23 transcription factor, which was characterized in more detail. Gain- and loss-of-function mutants confirmed a role for WRKY23 in mediating the auxin effect on the PIN polarity. Accordingly, processes requiring auxin-mediated PIN polarity rearrangements, such as vascular tissue development during leaf venation, showed a higher WRKY23 expression and required the WRKY23 activity. Our results provide initial insights into the auxin transcriptional network acting upstream of PIN polarization and, potentially, canalization-mediated plant development.","lang":"eng"}],"doi":"10.1371/journal.pgen.1007177","publication_status":"published","related_material":{"record":[{"id":"7172","status":"public","relation":"dissertation_contains"},{"status":"public","id":"1127","relation":"dissertation_contains"},{"relation":"dissertation_contains","id":"8822","status":"public"}]},"month":"01","status":"public","oa_version":"Published Version","citation":{"ama":"Prat T, Hajny J, Grunewald W, et al. WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity. <i>PLoS Genetics</i>. 2018;14(1). doi:<a href=\"https://doi.org/10.1371/journal.pgen.1007177\">10.1371/journal.pgen.1007177</a>","short":"T. Prat, J. Hajny, W. Grunewald, M.K. Vasileva, G. Molnar, R. Tejos, M. Schmid, M. Sauer, J. Friml, PLoS Genetics 14 (2018).","ieee":"T. Prat <i>et al.</i>, “WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity,” <i>PLoS Genetics</i>, vol. 14, no. 1. Public Library of Science, 2018.","chicago":"Prat, Tomas, Jakub Hajny, Wim Grunewald, Mina K Vasileva, Gergely Molnar, Ricardo Tejos, Markus Schmid, Michael Sauer, and Jiří Friml. “WRKY23 Is a Component of the Transcriptional Network Mediating Auxin Feedback on PIN Polarity.” <i>PLoS Genetics</i>. Public Library of Science, 2018. <a href=\"https://doi.org/10.1371/journal.pgen.1007177\">https://doi.org/10.1371/journal.pgen.1007177</a>.","mla":"Prat, Tomas, et al. “WRKY23 Is a Component of the Transcriptional Network Mediating Auxin Feedback on PIN Polarity.” <i>PLoS Genetics</i>, vol. 14, no. 1, Public Library of Science, 2018, doi:<a href=\"https://doi.org/10.1371/journal.pgen.1007177\">10.1371/journal.pgen.1007177</a>.","ista":"Prat T, Hajny J, Grunewald W, Vasileva MK, Molnar G, Tejos R, Schmid M, Sauer M, Friml J. 2018. WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity. PLoS Genetics. 14(1).","apa":"Prat, T., Hajny, J., Grunewald, W., Vasileva, M. K., Molnar, G., Tejos, R., … Friml, J. (2018). WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity. <i>PLoS Genetics</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pgen.1007177\">https://doi.org/10.1371/journal.pgen.1007177</a>"},"date_updated":"2026-04-15T22:31:05Z","volume":14,"publication":"PLoS Genetics","isi":1,"file_date_updated":"2020-07-14T12:46:30Z","oa":1,"ddc":["581"],"date_published":"2018-01-29T00:00:00Z","year":"2018","has_accepted_license":"1","day":"29","scopus_import":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1"},{"oa":1,"file_date_updated":"2020-07-14T12:45:20Z","date_published":"2018-07-06T00:00:00Z","ddc":["581"],"publication":"Scientific Reports","isi":1,"volume":8,"date_updated":"2026-04-15T22:31:06Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","scopus_import":"1","day":"06","year":"2018","has_accepted_license":"1","publication_status":"published","abstract":[{"text":"Intercellular distribution of the plant hormone auxin largely depends on the polar subcellular distribution of the plasma membrane PIN-FORMED (PIN) auxin transporters. PIN polarity switches in response to different developmental and environmental signals have been shown to redirect auxin fluxes mediating certain developmental responses. PIN phosphorylation at different sites and by different kinases is crucial for PIN function. Here we investigate the role of PIN phosphorylation during gravitropic response. Loss- and gain-of-function mutants in PINOID and related kinases but not in D6PK kinase as well as mutations mimicking constitutive dephosphorylated or phosphorylated status of two clusters of predicted phosphorylation sites partially disrupted PIN3 phosphorylation and caused defects in gravitropic bending in roots and hypocotyls. In particular, they impacted PIN3 polarity rearrangements in response to gravity and during feed-back regulation by auxin itself. Thus PIN phosphorylation, besides regulating transport activity and apical-basal targeting, is also important for the rapid polarity switches in response to environmental and endogenous signals.","lang":"eng"}],"doi":"10.1038/s41598-018-28188-1","oa_version":"Published Version","citation":{"chicago":"Grones, Peter, Melinda F Abas, Jakub Hajny, Angharad Jones, Sascha Waidmann, Jürgen Kleine Vehn, and Jiří Friml. “PID/WAG-Mediated Phosphorylation of the Arabidopsis PIN3 Auxin Transporter Mediates Polarity Switches during Gravitropism.” <i>Scientific Reports</i>. Springer, 2018. <a href=\"https://doi.org/10.1038/s41598-018-28188-1\">https://doi.org/10.1038/s41598-018-28188-1</a>.","mla":"Grones, Peter, et al. “PID/WAG-Mediated Phosphorylation of the Arabidopsis PIN3 Auxin Transporter Mediates Polarity Switches during Gravitropism.” <i>Scientific Reports</i>, vol. 8, no. 1, 10279, Springer, 2018, doi:<a href=\"https://doi.org/10.1038/s41598-018-28188-1\">10.1038/s41598-018-28188-1</a>.","ista":"Grones P, Abas MF, Hajny J, Jones A, Waidmann S, Kleine Vehn J, Friml J. 2018. PID/WAG-mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism. Scientific Reports. 8(1), 10279.","apa":"Grones, P., Abas, M. F., Hajny, J., Jones, A., Waidmann, S., Kleine Vehn, J., &#38; Friml, J. (2018). PID/WAG-mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism. <i>Scientific Reports</i>. Springer. <a href=\"https://doi.org/10.1038/s41598-018-28188-1\">https://doi.org/10.1038/s41598-018-28188-1</a>","ama":"Grones P, Abas MF, Hajny J, et al. PID/WAG-mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism. <i>Scientific Reports</i>. 2018;8(1). doi:<a href=\"https://doi.org/10.1038/s41598-018-28188-1\">10.1038/s41598-018-28188-1</a>","short":"P. Grones, M.F. Abas, J. Hajny, A. Jones, S. Waidmann, J. Kleine Vehn, J. Friml, Scientific Reports 8 (2018).","ieee":"P. Grones <i>et al.</i>, “PID/WAG-mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism,” <i>Scientific Reports</i>, vol. 8, no. 1. Springer, 2018."},"status":"public","month":"07","related_material":{"record":[{"id":"8822","status":"public","relation":"dissertation_contains"}]},"external_id":{"isi":["000437673200053"]},"title":"PID/WAG-mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism","article_processing_charge":"No","date_created":"2018-12-11T11:45:06Z","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"file":[{"relation":"main_file","date_updated":"2020-07-14T12:45:20Z","checksum":"266b03f4fb8198e83141617aaa99dcab","content_type":"application/pdf","file_size":2413876,"file_name":"2018_ScientificReports_Grones.pdf","access_level":"open_access","date_created":"2018-12-17T15:38:56Z","file_id":"5714","creator":"dernst"}],"publist_id":"7729","type":"journal_article","language":[{"iso":"eng"}],"intvolume":"         8","ec_funded":1,"_id":"191","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300","name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7"},{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"}],"issue":"1","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"publisher":"Springer","quality_controlled":"1","article_number":"10279","author":[{"last_name":"Grones","id":"399876EC-F248-11E8-B48F-1D18A9856A87","first_name":"Peter","full_name":"Grones, Peter"},{"full_name":"Abas, Melinda F","first_name":"Melinda F","id":"3CFB3B1C-F248-11E8-B48F-1D18A9856A87","last_name":"Abas"},{"last_name":"Hajny","orcid":"0000-0003-2140-7195","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","first_name":"Jakub","full_name":"Hajny, Jakub"},{"first_name":"Angharad","full_name":"Jones, Angharad","last_name":"Jones"},{"last_name":"Waidmann","full_name":"Waidmann, Sascha","first_name":"Sascha"},{"last_name":"Kleine Vehn","full_name":"Kleine Vehn, Jürgen","first_name":"Jürgen"},{"full_name":"Friml, Jirí","first_name":"Jirí","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml"}]},{"related_material":{"record":[{"status":"public","id":"6849","relation":"dissertation_contains"}]},"month":"07","status":"public","oa_version":"Published Version","citation":{"ama":"Rangel Guerrero DK, Donnett JG, Csicsvari JL, Kovács K. Tetrode recording from the hippocampus of behaving mice coupled with four-point-irradiation closed-loop optogenetics: A technique to study the contribution of Hippocampal SWR events to learning. <i>eNeuro</i>. 2018;5(4). doi:<a href=\"https://doi.org/10.1523/ENEURO.0087-18.2018\">10.1523/ENEURO.0087-18.2018</a>","short":"D.K. Rangel Guerrero, J.G. Donnett, J.L. Csicsvari, K. Kovács, ENeuro 5 (2018).","ieee":"D. K. Rangel Guerrero, J. G. Donnett, J. L. Csicsvari, and K. Kovács, “Tetrode recording from the hippocampus of behaving mice coupled with four-point-irradiation closed-loop optogenetics: A technique to study the contribution of Hippocampal SWR events to learning,” <i>eNeuro</i>, vol. 5, no. 4. Society for Neuroscience, 2018.","mla":"Rangel Guerrero, Dámaris K., et al. “Tetrode Recording from the Hippocampus of Behaving Mice Coupled with Four-Point-Irradiation Closed-Loop Optogenetics: A Technique to Study the Contribution of Hippocampal SWR Events to Learning.” <i>ENeuro</i>, vol. 5, no. 4, e0087, Society for Neuroscience, 2018, doi:<a href=\"https://doi.org/10.1523/ENEURO.0087-18.2018\">10.1523/ENEURO.0087-18.2018</a>.","chicago":"Rangel Guerrero, Dámaris K, James G. Donnett, Jozsef L Csicsvari, and Krisztián Kovács. “Tetrode Recording from the Hippocampus of Behaving Mice Coupled with Four-Point-Irradiation Closed-Loop Optogenetics: A Technique to Study the Contribution of Hippocampal SWR Events to Learning.” <i>ENeuro</i>. Society for Neuroscience, 2018. <a href=\"https://doi.org/10.1523/ENEURO.0087-18.2018\">https://doi.org/10.1523/ENEURO.0087-18.2018</a>.","apa":"Rangel Guerrero, D. K., Donnett, J. G., Csicsvari, J. L., &#38; Kovács, K. (2018). Tetrode recording from the hippocampus of behaving mice coupled with four-point-irradiation closed-loop optogenetics: A technique to study the contribution of Hippocampal SWR events to learning. <i>ENeuro</i>. Society for Neuroscience. <a href=\"https://doi.org/10.1523/ENEURO.0087-18.2018\">https://doi.org/10.1523/ENEURO.0087-18.2018</a>","ista":"Rangel Guerrero DK, Donnett JG, Csicsvari JL, Kovács K. 2018. Tetrode recording from the hippocampus of behaving mice coupled with four-point-irradiation closed-loop optogenetics: A technique to study the contribution of Hippocampal SWR events to learning. eNeuro. 5(4), e0087."},"abstract":[{"lang":"eng","text":"With the advent of optogenetics, it became possible to change the activity of a targeted population of neurons in a temporally controlled manner. To combine the advantages of 60-channel in vivo tetrode recording and laser-based optogenetics, we have developed a closed-loop recording system that allows for the actual electrophysiological signal to be used as a trigger for the laser light mediating the optogenetic intervention. We have optimized the weight, size, and shape of the corresponding implant to make it compatible with the size, force, and movements of a behaving mouse, and we have shown that the system can efficiently block sharp wave ripple (SWR) events using those events themselves as a trigger. To demonstrate the full potential of the optogenetic recording system we present a pilot study addressing the contribution of SWR events to learning in a complex behavioral task."}],"doi":"10.1523/ENEURO.0087-18.2018","publication_status":"published","year":"2018","has_accepted_license":"1","day":"27","scopus_import":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2026-04-15T22:31:07Z","volume":5,"publication":"eNeuro","isi":1,"oa":1,"file_date_updated":"2020-07-14T12:47:13Z","ddc":["570"],"date_published":"2018-07-27T00:00:00Z","quality_controlled":"1","article_number":"e0087","author":[{"last_name":"Rangel Guerrero","id":"4871BCE6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8602-4374","first_name":"Dámaris K","full_name":"Rangel Guerrero, Dámaris K"},{"last_name":"Donnett","full_name":"Donnett, James G.","first_name":"James G."},{"last_name":"Csicsvari","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5193-4036","first_name":"Jozsef L","full_name":"Csicsvari, Jozsef L"},{"orcid":"0000-0001-6251-1007","id":"2AB5821E-F248-11E8-B48F-1D18A9856A87","last_name":"Kovács","full_name":"Kovács, Krisztián","first_name":"Krisztián"}],"publisher":"Society for Neuroscience","department":[{"_id":"JoCs"}],"issue":"4","project":[{"name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425"},{"_id":"257D4372-B435-11E9-9278-68D0E5697425","grant_number":"I2072-B27","name":"Interneuron plasticity during spatial learning","call_identifier":"FWF"}],"ec_funded":1,"intvolume":"         5","_id":"5914","type":"journal_article","language":[{"iso":"eng"}],"file":[{"file_id":"5921","date_created":"2019-02-05T12:48:36Z","access_level":"open_access","file_name":"2018_ENeuro_Guerrero.pdf","file_size":3746884,"content_type":"application/pdf","creator":"dernst","relation":"main_file","checksum":"f4915d45fc7ad4648b7b7a13fdecca01","date_updated":"2020-07-14T12:47:13Z"}],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2019-02-03T22:59:16Z","title":"Tetrode recording from the hippocampus of behaving mice coupled with four-point-irradiation closed-loop optogenetics: A technique to study the contribution of Hippocampal SWR events to learning","article_processing_charge":"No","external_id":{"isi":["000443994700007"]}},{"volume":30,"date_updated":"2026-04-15T22:31:09Z","oa":1,"file_date_updated":"2022-05-23T09:12:38Z","ddc":["580"],"date_published":"2018-04-09T00:00:00Z","acknowledgement":"We thank James Matthew Watson, Monika Borowska, and Peggy Stolt-Bergner at ProTech Facility of the Vienna Biocenter Core Facilities for the CRISPR/CAS9 construct; Anna Müller for assistance with molecular cloning; Sebastian Bednarek, Liwen Jiang, and Daniël Van Damme for sharing published material; Matyáš Fendrych, Daniël Van Damme, and Lindy Abas for valuable discussions; and Martine De Cock for help with correcting the manuscript. This work was supported by the European Research Council under the European Union Seventh Framework Programme (FP7/2007-2013)/ERC Grant 282300 and by the Ministry of Education of the Czech Republic/MŠMT project NPUI-LO1417.","isi":1,"publication":"The Plant Cell","day":"09","year":"2018","has_accepted_license":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","scopus_import":"1","abstract":[{"text":"Clathrin-mediated endocytosis (CME) is a cellular trafficking process in which cargoes and lipids are internalized from the plasma membrane into vesicles coated with clathrin and adaptor proteins. CME is essential for many developmental and physiological processes in plants, but its underlying mechanism is not well characterised compared to that in yeast and animal systems. Here, we searched for new factors involved in CME in Arabidopsis thaliana by performing Tandem Affinity Purification of proteins that interact with clathrin light chain, a principal component of the clathrin coat. Among the confirmed interactors, we found two putative homologues of the clathrin-coat uncoating factor auxilin previously described in non-plant systems. Overexpression of AUXILIN-LIKE1 and AUXILIN-LIKE2 in A. thaliana caused an arrest of seedling growth and development. This was concomitant with inhibited endocytosis due to blocking of clathrin recruitment after the initial step of adaptor protein binding to the plasma membrane. By contrast, auxilin-like(1/2) loss-of-function lines did not present endocytosis-related developmental or cellular phenotypes under normal growth conditions. This work contributes to the on-going characterization of the endocytotic machinery in plants and provides a robust tool for conditionally and specifically interfering with CME in A. thaliana.","lang":"eng"}],"doi":"10.1105/tpc.17.00785","page":"700 - 716","publication_status":"published","month":"04","status":"public","related_material":{"record":[{"relation":"dissertation_contains","id":"6269","status":"public"}]},"pmid":1,"oa_version":"Published Version","citation":{"ieee":"M. Adamowski, M. Narasimhan, U. Kania, M. Glanc, G. De Jaeger, and J. Friml, “A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis,” <i>The Plant Cell</i>, vol. 30, no. 3. American Society of Plant Biologists, pp. 700–716, 2018.","short":"M. Adamowski, M. Narasimhan, U. Kania, M. Glanc, G. De Jaeger, J. Friml, The Plant Cell 30 (2018) 700–716.","ama":"Adamowski M, Narasimhan M, Kania U, Glanc M, De Jaeger G, Friml J. A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis. <i>The Plant Cell</i>. 2018;30(3):700-716. doi:<a href=\"https://doi.org/10.1105/tpc.17.00785\">10.1105/tpc.17.00785</a>","apa":"Adamowski, M., Narasimhan, M., Kania, U., Glanc, M., De Jaeger, G., &#38; Friml, J. (2018). A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis. <i>The Plant Cell</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1105/tpc.17.00785\">https://doi.org/10.1105/tpc.17.00785</a>","ista":"Adamowski M, Narasimhan M, Kania U, Glanc M, De Jaeger G, Friml J. 2018. A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis. The Plant Cell. 30(3), 700–716.","mla":"Adamowski, Maciek, et al. “A Functional Study of AUXILIN LIKE1 and 2 Two Putative Clathrin Uncoating Factors in Arabidopsis.” <i>The Plant Cell</i>, vol. 30, no. 3, American Society of Plant Biologists, 2018, pp. 700–16, doi:<a href=\"https://doi.org/10.1105/tpc.17.00785\">10.1105/tpc.17.00785</a>.","chicago":"Adamowski, Maciek, Madhumitha Narasimhan, Urszula Kania, Matous Glanc, Geert De Jaeger, and Jiří Friml. “A Functional Study of AUXILIN LIKE1 and 2 Two Putative Clathrin Uncoating Factors in Arabidopsis.” <i>The Plant Cell</i>. American Society of Plant Biologists, 2018. <a href=\"https://doi.org/10.1105/tpc.17.00785\">https://doi.org/10.1105/tpc.17.00785</a>."},"title":"A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis","article_processing_charge":"No","external_id":{"pmid":["29511054"],"isi":["000429441400018"]},"article_type":"original","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"file":[{"relation":"main_file","checksum":"4e165e653b67d3f0684697f21aace5a1","date_updated":"2022-05-23T09:12:38Z","date_created":"2022-05-23T09:12:38Z","success":1,"file_id":"11406","content_type":"application/pdf","file_name":"2018_PlantCell_Adamowski.pdf","file_size":4407538,"access_level":"open_access","creator":"dernst"}],"publist_id":"7417","date_created":"2018-12-11T11:46:20Z","corr_author":"1","publication_identifier":{"eissn":["1532-298X"],"issn":["1040-4651"]},"project":[{"call_identifier":"FP7","name":"Polarity and subcellular dynamics in plants","grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425"}],"type":"journal_article","language":[{"iso":"eng"}],"ec_funded":1,"intvolume":"        30","_id":"412","quality_controlled":"1","author":[{"first_name":"Maciek","full_name":"Adamowski, Maciek","last_name":"Adamowski","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6463-5257"},{"orcid":"0000-0002-8600-0671","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","last_name":"Narasimhan","full_name":"Narasimhan, Madhumitha","first_name":"Madhumitha"},{"full_name":"Kania, Urszula","first_name":"Urszula","id":"4AE5C486-F248-11E8-B48F-1D18A9856A87","last_name":"Kania"},{"full_name":"Glanc, Matous","first_name":"Matous","orcid":"0000-0003-0619-7783","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","last_name":"Glanc"},{"full_name":"De Jaeger, Geert","first_name":"Geert","last_name":"De Jaeger"},{"full_name":"Friml, Jirí","first_name":"Jirí","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml"}],"issue":"3","department":[{"_id":"JiFr"}],"publisher":"American Society of Plant Biologists"},{"title":"Evolutionary potential of transcription factors for gene regulatory rewiring","article_processing_charge":"No","external_id":{"isi":["000447947600021"]},"article_type":"original","file":[{"checksum":"383a2e2c944a856e2e821ec8e7bf71b6","date_updated":"2020-07-14T12:47:37Z","relation":"main_file","creator":"dernst","file_id":"7830","date_created":"2020-05-14T11:28:52Z","file_size":1135973,"file_name":"2018_NatureEcology_Igler.pdf","access_level":"open_access","content_type":"application/pdf"}],"publist_id":"7987","date_created":"2018-12-11T11:44:27Z","project":[{"name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425"},{"name":"Selective Barriers to Horizontal Gene Transfer","call_identifier":"H2020","grant_number":"648440","_id":"2578D616-B435-11E9-9278-68D0E5697425"},{"name":"Design principles underlying genetic switch architecture","grant_number":"24573","_id":"251EE76E-B435-11E9-9278-68D0E5697425"}],"ec_funded":1,"intvolume":"         2","_id":"67","type":"journal_article","language":[{"iso":"eng"}],"quality_controlled":"1","author":[{"orcid":"0000-0001-7777-546X","id":"46613666-F248-11E8-B48F-1D18A9856A87","last_name":"Igler","full_name":"Igler, Claudia","first_name":"Claudia"},{"first_name":"Mato","full_name":"Lagator, Mato","last_name":"Lagator","id":"345D25EC-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Tkacik","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6699-1455","first_name":"Gasper","full_name":"Tkacik, Gasper"},{"orcid":"0000-0002-4624-4612","id":"2C6FA9CC-F248-11E8-B48F-1D18A9856A87","last_name":"Bollback","full_name":"Bollback, Jonathan P","first_name":"Jonathan P"},{"first_name":"Calin C","full_name":"Guet, Calin C","last_name":"Guet","orcid":"0000-0001-6220-2052","id":"47F8433E-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"CaGu"},{"_id":"GaTk"},{"_id":"JoBo"}],"publisher":"Nature Publishing Group","issue":"10","date_updated":"2026-04-15T22:31:10Z","volume":2,"isi":1,"publication":"Nature Ecology and Evolution","file_date_updated":"2020-07-14T12:47:37Z","oa":1,"ddc":["570"],"date_published":"2018-09-10T00:00:00Z","year":"2018","has_accepted_license":"1","day":"10","scopus_import":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","abstract":[{"text":"Gene regulatory networks evolve through rewiring of individual components—that is, through changes in regulatory connections. However, the mechanistic basis of regulatory rewiring is poorly understood. Using a canonical gene regulatory system, we quantify the properties of transcription factors that determine the evolutionary potential for rewiring of regulatory connections: robustness, tunability and evolvability. In vivo repression measurements of two repressors at mutated operator sites reveal their contrasting evolutionary potential: while robustness and evolvability were positively correlated, both were in trade-off with tunability. Epistatic interactions between adjacent operators alleviated this trade-off. A thermodynamic model explains how the differences in robustness, tunability and evolvability arise from biophysical characteristics of repressor–DNA binding. The model also uncovers that the energy matrix, which describes how mutations affect repressor–DNA binding, encodes crucial information about the evolutionary potential of a repressor. The biophysical determinants of evolutionary potential for regulatory rewiring constitute a mechanistic framework for understanding network evolution.","lang":"eng"}],"doi":"10.1038/s41559-018-0651-y","page":"1633 - 1643","publication_status":"published","related_material":{"record":[{"relation":"popular_science","status":"public","id":"5585"},{"relation":"dissertation_contains","id":"6371","status":"public"}]},"status":"public","month":"09","oa_version":"Submitted Version","citation":{"ista":"Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. 2018. Evolutionary potential of transcription factors for gene regulatory rewiring. Nature Ecology and Evolution. 2(10), 1633–1643.","apa":"Igler, C., Lagator, M., Tkačik, G., Bollback, J. P., &#38; Guet, C. C. (2018). Evolutionary potential of transcription factors for gene regulatory rewiring. <i>Nature Ecology and Evolution</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41559-018-0651-y\">https://doi.org/10.1038/s41559-018-0651-y</a>","chicago":"Igler, Claudia, Mato Lagator, Gašper Tkačik, Jonathan P Bollback, and Calin C Guet. “Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring.” <i>Nature Ecology and Evolution</i>. Nature Publishing Group, 2018. <a href=\"https://doi.org/10.1038/s41559-018-0651-y\">https://doi.org/10.1038/s41559-018-0651-y</a>.","mla":"Igler, Claudia, et al. “Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring.” <i>Nature Ecology and Evolution</i>, vol. 2, no. 10, Nature Publishing Group, 2018, pp. 1633–43, doi:<a href=\"https://doi.org/10.1038/s41559-018-0651-y\">10.1038/s41559-018-0651-y</a>.","ieee":"C. Igler, M. Lagator, G. Tkačik, J. P. Bollback, and C. C. Guet, “Evolutionary potential of transcription factors for gene regulatory rewiring,” <i>Nature Ecology and Evolution</i>, vol. 2, no. 10. Nature Publishing Group, pp. 1633–1643, 2018.","short":"C. Igler, M. Lagator, G. Tkačik, J.P. Bollback, C.C. Guet, Nature Ecology and Evolution 2 (2018) 1633–1643.","ama":"Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. Evolutionary potential of transcription factors for gene regulatory rewiring. <i>Nature Ecology and Evolution</i>. 2018;2(10):1633-1643. doi:<a href=\"https://doi.org/10.1038/s41559-018-0651-y\">10.1038/s41559-018-0651-y</a>"}},{"author":[{"full_name":"Igler, Claudia","first_name":"Claudia","orcid":"0000-0001-7777-546X","id":"46613666-F248-11E8-B48F-1D18A9856A87","last_name":"Igler"},{"last_name":"Lagator","id":"345D25EC-F248-11E8-B48F-1D18A9856A87","first_name":"Mato","full_name":"Lagator, Mato"},{"last_name":"Tkacik","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gasper","full_name":"Tkacik, Gasper"},{"last_name":"Bollback","id":"2C6FA9CC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4624-4612","first_name":"Jonathan P","full_name":"Bollback, Jonathan P"},{"id":"47F8433E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6220-2052","last_name":"Guet","full_name":"Guet, Calin C","first_name":"Calin C"}],"related_material":{"record":[{"relation":"research_paper","status":"public","id":"67"},{"relation":"research_paper","status":"public","id":"6371"}]},"month":"07","status":"public","citation":{"mla":"Igler, Claudia, et al. <i>Data for the Paper Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:108\">10.15479/AT:ISTA:108</a>.","chicago":"Igler, Claudia, Mato Lagator, Gašper Tkačik, Jonathan P Bollback, and Calin C Guet. “Data for the Paper Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:108\">https://doi.org/10.15479/AT:ISTA:108</a>.","apa":"Igler, C., Lagator, M., Tkačik, G., Bollback, J. P., &#38; Guet, C. C. (2018). Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:108\">https://doi.org/10.15479/AT:ISTA:108</a>","ista":"Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. 2018. Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:108\">10.15479/AT:ISTA:108</a>.","short":"C. Igler, M. Lagator, G. Tkačik, J.P. Bollback, C.C. Guet, (2018).","ama":"Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:108\">10.15479/AT:ISTA:108</a>","ieee":"C. Igler, M. Lagator, G. Tkačik, J. P. Bollback, and C. C. Guet, “Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring.” Institute of Science and Technology Austria, 2018."},"oa_version":"Published Version","department":[{"_id":"CaGu"},{"_id":"GaTk"}],"publisher":"Institute of Science and Technology Austria","project":[{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734"},{"grant_number":"648440","_id":"2578D616-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Selective Barriers to Horizontal Gene Transfer"},{"_id":"251EE76E-B435-11E9-9278-68D0E5697425","grant_number":"24573","name":"Design principles underlying genetic switch architecture"}],"doi":"10.15479/AT:ISTA:108","abstract":[{"text":"Mean repression values and standard error of the mean are given for all operator mutant libraries.","lang":"eng"}],"_id":"5585","ec_funded":1,"type":"research_data","has_accepted_license":"1","file":[{"date_created":"2018-12-12T13:02:45Z","file_id":"5611","content_type":"application/vnd.openxmlformats-officedocument.spreadsheetml.sheet","file_name":"IST-2018-108-v1+1_data_figures.xlsx","file_size":16507,"access_level":"open_access","creator":"system","relation":"main_file","checksum":"1435781526c77413802adee0d4583cce","date_updated":"2020-07-14T12:47:07Z"}],"year":"2018","day":"20","tmp":{"legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","image":"/images/cc_0.png","short":"CC0 (1.0)","name":"Creative Commons Public Domain Dedication (CC0 1.0)"},"datarep_id":"108","license":"https://creativecommons.org/publicdomain/zero/1.0/","date_created":"2018-12-12T12:31:40Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2026-04-15T22:31:11Z","article_processing_charge":"No","title":"Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring","date_published":"2018-07-20T00:00:00Z","ddc":["576"],"file_date_updated":"2020-07-14T12:47:07Z","oa":1}]