[{"author":[{"id":"3D85B7C4-F248-11E8-B48F-1D18A9856A87","first_name":"Chaitanya S","last_name":"Paranjape","full_name":"Paranjape, Chaitanya S"}],"article_processing_charge":"No","title":"Onset of turbulence in plane Poiseuille flow","citation":{"ista":"Paranjape CS. 2019. Onset of turbulence in plane Poiseuille flow. Institute of Science and Technology Austria.","chicago":"Paranjape, Chaitanya S. “Onset of Turbulence in Plane Poiseuille Flow.” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:6957.","ieee":"C. S. Paranjape, “Onset of turbulence in plane Poiseuille flow,” Institute of Science and Technology Austria, 2019.","short":"C.S. Paranjape, Onset of Turbulence in Plane Poiseuille Flow, Institute of Science and Technology Austria, 2019.","apa":"Paranjape, C. S. (2019). Onset of turbulence in plane Poiseuille flow. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6957","ama":"Paranjape CS. Onset of turbulence in plane Poiseuille flow. 2019. doi:10.15479/AT:ISTA:6957","mla":"Paranjape, Chaitanya S. Onset of Turbulence in Plane Poiseuille Flow. Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:6957."},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publisher":"Institute of Science and Technology Austria","oa":1,"page":"138","date_published":"2019-10-24T00:00:00Z","doi":"10.15479/AT:ISTA:6957","date_created":"2019-10-22T12:08:43Z","has_accepted_license":"1","year":"2019","day":"24","type":"dissertation","status":"public","keyword":["Instabilities","Turbulence","Nonlinear dynamics"],"_id":"6957","file_date_updated":"2020-07-14T12:47:46Z","department":[{"_id":"BjHo"}],"supervisor":[{"id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn","last_name":"Hof","orcid":"0000-0003-2057-2754","full_name":"Hof, Björn"}],"date_updated":"2023-09-07T12:53:25Z","ddc":["532"],"alternative_title":["ISTA Thesis"],"month":"10","abstract":[{"lang":"eng","text":"In many shear flows like pipe flow, plane Couette flow, plane Poiseuille flow, etc. turbulence emerges subcritically. Here, when subjected to strong enough perturbations, the flow becomes turbulent in spite of the laminar base flow being linearly stable. The nature of this instability has puzzled the scientific community for decades. At onset, turbulence appears in localized patches and flows are spatio-temporally intermittent. In pipe flow the localized turbulent structures are referred to as puffs and in planar flows like plane Couette and channel flow, patches arise in the form of localized oblique bands. In this thesis, we study the onset of turbulence in channel flow in direct numerical simulations from a dynamical system theory perspective, as well as by performing experiments in a large aspect ratio channel.\r\n\r\nThe aim of the experimental work is to determine the critical Reynolds number where turbulence first becomes sustained. Recently, the onset of turbulence has been described in analogy to absorbing state phase transition (i.e. directed percolation). In particular, it has been shown that the critical point can be estimated from the competition between spreading and decay processes. Here, by performing experiments, we identify the mechanisms underlying turbulence proliferation in channel flow and find the critical Reynolds number, above which turbulence becomes sustained. Above the critical point, the continuous growth at the tip of the stripes outweighs the stochastic shedding of turbulent patches at the tail and the stripes expand. For growing stripes, the probability to decay decreases while the probability of stripe splitting increases. Consequently, and unlike for the puffs in pipe flow, neither of these two processes is time-independent i.e. memoryless. Coupling between stripe expansion and creation of new stripes via splitting leads to a significantly lower critical point ($Re_c=670+/-10$) than most earlier studies suggest. \r\n\r\nWhile the above approach sheds light on how turbulence first becomes sustained, it provides no insight into the origin of the stripes themselves. In the numerical part of the thesis we investigate how turbulent stripes form from invariant solutions of the Navier-Stokes equations. The origin of these turbulent stripes can be identified by applying concepts from the dynamical system theory. In doing so, we identify the exact coherent structures underlying stripes and their bifurcations and how they give rise to the turbulent attractor in phase space. We first report a family of localized nonlinear traveling wave solutions of the Navier-Stokes equations in channel flow. These solutions show structural similarities with turbulent stripes in experiments like obliqueness, quasi-streamwise streaks and vortices, etc. A parametric study of these traveling wave solution is performed, with parameters like Reynolds number, stripe tilt angle and domain size, including the stability of the solutions. These solutions emerge through saddle-node bifurcations and form a phase space skeleton for the turbulent stripes observed in the experiments. The lower branches of these TW solutions at different tilt angles undergo Hopf bifurcation and new solutions branches of relative periodic orbits emerge. These RPO solutions do not belong to the same family and therefore the routes to chaos for different angles are different. \r\n\r\nIn shear flows, turbulence at onset is transient in nature. Consequently,turbulence can not be tracked to lower Reynolds numbers, where the dynamics may simplify. Before this happens, turbulence becomes short-lived and laminarizes. In the last part of the thesis, we show that using numerical simulations we can continue turbulent stripes in channel flow past the 'relaminarization barrier' all the way to their origin. Here, turbulent stripe dynamics simplifies and the fluctuations are no longer stochastic and the stripe settles down to a relative periodic orbit. This relative periodic orbit originates from the aforementioned traveling wave solutions. Starting from the relative periodic orbit, a small increase in speed i.e. Reynolds number gives rise to chaos and the attractor dimension sharply increases in contrast to the classical transition scenario where the instabilities affect the flow globally and give rise to much more gradual route to turbulence."}],"oa_version":"Published Version","publication_identifier":{"eissn":["2663-337X"]},"publication_status":"published","degree_awarded":"PhD","file":[{"date_updated":"2020-07-14T12:47:46Z","file_size":45828099,"creator":"cparanjape","date_created":"2019-10-23T09:54:43Z","file_name":"Chaitanya_Paranjape_source_files_tex_figures.zip","content_type":"application/zip","access_level":"closed","relation":"source_file","checksum":"7ba298ba0ce7e1d11691af6b8eaf0a0a","file_id":"6962"},{"relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_id":"6963","checksum":"642697618314e31ac31392da7909c2d9","creator":"cparanjape","file_size":19504197,"date_updated":"2020-07-14T12:47:46Z","file_name":"Chaitanya_Paranjape_Thesis.pdf","date_created":"2019-10-23T10:37:09Z"}],"language":[{"iso":"eng"}]},{"article_number":"e8","project":[{"_id":"258DCDE6-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"338804","name":"Random matrices, universality and disordered quantum systems"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","citation":{"apa":"Erdös, L., Krüger, T. H., & Schröder, D. J. (2019). Random matrices with slow correlation decay. Forum of Mathematics, Sigma. Cambridge University Press. https://doi.org/10.1017/fms.2019.2","ama":"Erdös L, Krüger TH, Schröder DJ. Random matrices with slow correlation decay. Forum of Mathematics, Sigma. 2019;7. doi:10.1017/fms.2019.2","short":"L. Erdös, T.H. Krüger, D.J. Schröder, Forum of Mathematics, Sigma 7 (2019).","ieee":"L. Erdös, T. H. Krüger, and D. J. Schröder, “Random matrices with slow correlation decay,” Forum of Mathematics, Sigma, vol. 7. Cambridge University Press, 2019.","mla":"Erdös, László, et al. “Random Matrices with Slow Correlation Decay.” Forum of Mathematics, Sigma, vol. 7, e8, Cambridge University Press, 2019, doi:10.1017/fms.2019.2.","ista":"Erdös L, Krüger TH, Schröder DJ. 2019. Random matrices with slow correlation decay. Forum of Mathematics, Sigma. 7, e8.","chicago":"Erdös, László, Torben H Krüger, and Dominik J Schröder. “Random Matrices with Slow Correlation Decay.” Forum of Mathematics, Sigma. Cambridge University Press, 2019. https://doi.org/10.1017/fms.2019.2."},"title":"Random matrices with slow correlation decay","article_processing_charge":"No","external_id":{"isi":["000488847100001"],"arxiv":["1705.10661"]},"author":[{"orcid":"0000-0001-5366-9603","full_name":"Erdös, László","last_name":"Erdös","first_name":"László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Torben H","id":"3020C786-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4821-3297","full_name":"Krüger, Torben H","last_name":"Krüger"},{"last_name":"Schröder","orcid":"0000-0002-2904-1856","full_name":"Schröder, Dominik J","first_name":"Dominik J","id":"408ED176-F248-11E8-B48F-1D18A9856A87"}],"oa":1,"quality_controlled":"1","publisher":"Cambridge University Press","publication":"Forum of Mathematics, Sigma","day":"26","year":"2019","isi":1,"has_accepted_license":"1","date_created":"2019-03-28T09:05:23Z","doi":"10.1017/fms.2019.2","date_published":"2019-03-26T00:00:00Z","_id":"6182","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"article_type":"original","type":"journal_article","ddc":["510"],"date_updated":"2023-09-07T12:54:12Z","file_date_updated":"2020-07-14T12:47:22Z","department":[{"_id":"LaEr"}],"oa_version":"Published Version","abstract":[{"lang":"eng","text":"We consider large random matrices with a general slowly decaying correlation among its entries. We prove universality of the local eigenvalue statistics and optimal local laws for the resolvent away from the spectral edges, generalizing the recent result of Ajanki et al. [‘Stability of the matrix Dyson equation and random matrices with correlations’, Probab. Theory Related Fields 173(1–2) (2019), 293–373] to allow slow correlation decay and arbitrary expectation. The main novel tool is\r\na systematic diagrammatic control of a multivariate cumulant expansion."}],"intvolume":" 7","month":"03","scopus_import":"1","language":[{"iso":"eng"}],"file":[{"date_created":"2019-09-17T14:24:13Z","file_name":"2019_Forum_Erdoes.pdf","creator":"dernst","date_updated":"2020-07-14T12:47:22Z","file_size":1520344,"file_id":"6883","checksum":"933a472568221c73b2c3ce8c87bf6d15","access_level":"open_access","relation":"main_file","content_type":"application/pdf"}],"publication_status":"published","publication_identifier":{"eissn":["20505094"]},"license":"https://creativecommons.org/licenses/by/4.0/","ec_funded":1,"volume":7,"related_material":{"record":[{"id":"6179","status":"public","relation":"dissertation_contains"}]}},{"title":"Cusp universality for random matrices, II: The real symmetric case","article_processing_charge":"No","external_id":{"arxiv":["1811.04055"]},"author":[{"last_name":"Cipolloni","full_name":"Cipolloni, Giorgio","orcid":"0000-0002-4901-7992","first_name":"Giorgio","id":"42198EFA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","last_name":"Erdös","full_name":"Erdös, László","orcid":"0000-0001-5366-9603"},{"last_name":"Krüger","full_name":"Krüger, Torben H","orcid":"0000-0002-4821-3297","id":"3020C786-F248-11E8-B48F-1D18A9856A87","first_name":"Torben H"},{"id":"408ED176-F248-11E8-B48F-1D18A9856A87","first_name":"Dominik J","orcid":"0000-0002-2904-1856","full_name":"Schröder, Dominik J","last_name":"Schröder"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Cipolloni G, Erdös L, Krüger TH, Schröder DJ. 2019. Cusp universality for random matrices, II: The real symmetric case. Pure and Applied Analysis . 1(4), 615–707.","chicago":"Cipolloni, Giorgio, László Erdös, Torben H Krüger, and Dominik J Schröder. “Cusp Universality for Random Matrices, II: The Real Symmetric Case.” Pure and Applied Analysis . MSP, 2019. https://doi.org/10.2140/paa.2019.1.615.","ieee":"G. Cipolloni, L. Erdös, T. H. Krüger, and D. J. Schröder, “Cusp universality for random matrices, II: The real symmetric case,” Pure and Applied Analysis , vol. 1, no. 4. MSP, pp. 615–707, 2019.","short":"G. Cipolloni, L. Erdös, T.H. Krüger, D.J. Schröder, Pure and Applied Analysis 1 (2019) 615–707.","ama":"Cipolloni G, Erdös L, Krüger TH, Schröder DJ. Cusp universality for random matrices, II: The real symmetric case. Pure and Applied Analysis . 2019;1(4):615–707. doi:10.2140/paa.2019.1.615","apa":"Cipolloni, G., Erdös, L., Krüger, T. H., & Schröder, D. J. (2019). Cusp universality for random matrices, II: The real symmetric case. Pure and Applied Analysis . MSP. https://doi.org/10.2140/paa.2019.1.615","mla":"Cipolloni, Giorgio, et al. “Cusp Universality for Random Matrices, II: The Real Symmetric Case.” Pure and Applied Analysis , vol. 1, no. 4, MSP, 2019, pp. 615–707, doi:10.2140/paa.2019.1.615."},"project":[{"grant_number":"338804","name":"Random matrices, universality and disordered quantum systems","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"},{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"665385","name":"International IST Doctoral Program"}],"date_created":"2019-03-28T10:21:17Z","date_published":"2019-10-12T00:00:00Z","doi":"10.2140/paa.2019.1.615","page":"615–707","publication":"Pure and Applied Analysis ","day":"12","year":"2019","oa":1,"publisher":"MSP","quality_controlled":"1","department":[{"_id":"LaEr"}],"date_updated":"2023-09-07T12:54:12Z","status":"public","article_type":"original","type":"journal_article","_id":"6186","ec_funded":1,"issue":"4","volume":1,"related_material":{"record":[{"id":"6179","status":"public","relation":"dissertation_contains"}]},"language":[{"iso":"eng"}],"publication_status":"published","publication_identifier":{"eissn":["2578-5885"],"issn":["2578-5893"]},"intvolume":" 1","month":"10","main_file_link":[{"url":"https://arxiv.org/abs/1811.04055","open_access":"1"}],"oa_version":"Preprint","abstract":[{"lang":"eng","text":"We prove that the local eigenvalue statistics of real symmetric Wigner-type\r\nmatrices near the cusp points of the eigenvalue density are universal. Together\r\nwith the companion paper [arXiv:1809.03971], which proves the same result for\r\nthe complex Hermitian symmetry class, this completes the last remaining case of\r\nthe Wigner-Dyson-Mehta universality conjecture after bulk and edge\r\nuniversalities have been established in the last years. We extend the recent\r\nDyson Brownian motion analysis at the edge [arXiv:1712.03881] to the cusp\r\nregime using the optimal local law from [arXiv:1809.03971] and the accurate\r\nlocal shape analysis of the density from [arXiv:1506.05095, arXiv:1804.07752].\r\nWe also present a PDE-based method to improve the estimate on eigenvalue\r\nrigidity via the maximum principle of the heat flow related to the Dyson\r\nBrownian motion."}]},{"abstract":[{"text":"Across diverse biological systems—ranging from neural networks to intracellular signaling and genetic regulatory networks—the information about changes in the environment is frequently encoded in the full temporal dynamics of the network nodes. A pressing data-analysis challenge has thus been to efficiently estimate the amount of information that these dynamics convey from experimental data. Here we develop and evaluate decoding-based estimation methods to lower bound the mutual information about a finite set of inputs, encoded in single-cell high-dimensional time series data. For biological reaction networks governed by the chemical Master equation, we derive model-based information approximations and analytical upper bounds, against which we benchmark our proposed model-free decoding estimators. In contrast to the frequently-used k-nearest-neighbor estimator, decoding-based estimators robustly extract a large fraction of the available information from high-dimensional trajectories with a realistic number of data samples. We apply these estimators to previously published data on Erk and Ca2+ signaling in mammalian cells and to yeast stress-response, and find that substantial amount of information about environmental state can be encoded by non-trivial response statistics even in stationary signals. We argue that these single-cell, decoding-based information estimates, rather than the commonly-used tests for significant differences between selected population response statistics, provide a proper and unbiased measure for the performance of biological signaling networks.","lang":"eng"}],"oa_version":"Published Version","pmid":1,"scopus_import":"1","intvolume":" 15","month":"09","publication_status":"published","publication_identifier":{"eissn":["15537358"]},"language":[{"iso":"eng"}],"file":[{"relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_id":"6925","checksum":"81bdce1361c9aa8395d6fa635fb6ab47","creator":"kschuh","file_size":3081855,"date_updated":"2020-07-14T12:47:44Z","file_name":"2019_PLoS_Cepeda-Humerez.pdf","date_created":"2019-10-01T10:53:45Z"}],"volume":15,"issue":"9","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"6473"}]},"_id":"6900","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","status":"public","date_updated":"2023-09-07T12:55:21Z","ddc":["570"],"file_date_updated":"2020-07-14T12:47:44Z","department":[{"_id":"GaTk"}],"oa":1,"publisher":"Public Library of Science","quality_controlled":"1","year":"2019","has_accepted_license":"1","isi":1,"publication":"PLoS computational biology","day":"03","page":"e1007290","date_created":"2019-09-22T22:00:37Z","date_published":"2019-09-03T00:00:00Z","doi":"10.1371/journal.pcbi.1007290","project":[{"call_identifier":"FWF","_id":"254E9036-B435-11E9-9278-68D0E5697425","name":"Biophysics of information processing in gene regulation","grant_number":"P28844-B27"}],"citation":{"mla":"Cepeda Humerez, Sarah A., et al. “Estimating Information in Time-Varying Signals.” PLoS Computational Biology, vol. 15, no. 9, Public Library of Science, 2019, p. e1007290, doi:10.1371/journal.pcbi.1007290.","short":"S.A. Cepeda Humerez, J. Ruess, G. Tkačik, PLoS Computational Biology 15 (2019) e1007290.","ieee":"S. A. Cepeda Humerez, J. Ruess, and G. Tkačik, “Estimating information in time-varying signals,” PLoS computational biology, vol. 15, no. 9. Public Library of Science, p. e1007290, 2019.","ama":"Cepeda Humerez SA, Ruess J, Tkačik G. Estimating information in time-varying signals. PLoS computational biology. 2019;15(9):e1007290. doi:10.1371/journal.pcbi.1007290","apa":"Cepeda Humerez, S. A., Ruess, J., & Tkačik, G. (2019). Estimating information in time-varying signals. PLoS Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1007290","chicago":"Cepeda Humerez, Sarah A, Jakob Ruess, and Gašper Tkačik. “Estimating Information in Time-Varying Signals.” PLoS Computational Biology. Public Library of Science, 2019. https://doi.org/10.1371/journal.pcbi.1007290.","ista":"Cepeda Humerez SA, Ruess J, Tkačik G. 2019. Estimating information in time-varying signals. PLoS computational biology. 15(9), e1007290."},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","article_processing_charge":"No","external_id":{"pmid":["31479447"],"isi":["000489741800021"]},"author":[{"id":"3DEE19A4-F248-11E8-B48F-1D18A9856A87","first_name":"Sarah A","last_name":"Cepeda Humerez","full_name":"Cepeda Humerez, Sarah A"},{"first_name":"Jakob","full_name":"Ruess, Jakob","orcid":"0000-0003-1615-3282","last_name":"Ruess"},{"id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gašper","last_name":"Tkačik","orcid":"0000-0002-6699-1455","full_name":"Tkačik, Gašper"}],"title":"Estimating information in time-varying signals"},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","citation":{"mla":"Dejonghe, Wim, et al. “Disruption of Endocytosis through Chemical Inhibition of Clathrin Heavy Chain Function.” Nature Chemical Biology, vol. 15, no. 6, Springer Nature, 2019, pp. 641–649, doi:10.1038/s41589-019-0262-1.","apa":"Dejonghe, W., Sharma, I., Denoo, B., De Munck, S., Lu, Q., Mishev, K., … Russinova, E. (2019). Disruption of endocytosis through chemical inhibition of clathrin heavy chain function. Nature Chemical Biology. Springer Nature. https://doi.org/10.1038/s41589-019-0262-1","ama":"Dejonghe W, Sharma I, Denoo B, et al. Disruption of endocytosis through chemical inhibition of clathrin heavy chain function. Nature Chemical Biology. 2019;15(6):641–649. doi:10.1038/s41589-019-0262-1","short":"W. Dejonghe, I. Sharma, B. Denoo, S. De Munck, Q. Lu, K. Mishev, H. Bulut, E. Mylle, R. De Rycke, M.K. Vasileva, D.V. Savatin, W. Nerinckx, A. Staes, A. Drozdzecki, D. Audenaert, K. Yperman, A. Madder, J. Friml, D. Van Damme, K. Gevaert, V. Haucke, S.N. Savvides, J. Winne, E. Russinova, Nature Chemical Biology 15 (2019) 641–649.","ieee":"W. Dejonghe et al., “Disruption of endocytosis through chemical inhibition of clathrin heavy chain function,” Nature Chemical Biology, vol. 15, no. 6. Springer Nature, pp. 641–649, 2019.","chicago":"Dejonghe, Wim, Isha Sharma, Bram Denoo, Steven De Munck, Qing Lu, Kiril Mishev, Haydar Bulut, et al. “Disruption of Endocytosis through Chemical Inhibition of Clathrin Heavy Chain Function.” Nature Chemical Biology. Springer Nature, 2019. https://doi.org/10.1038/s41589-019-0262-1.","ista":"Dejonghe W, Sharma I, Denoo B, De Munck S, Lu Q, Mishev K, Bulut H, Mylle E, De Rycke R, Vasileva MK, Savatin DV, Nerinckx W, Staes A, Drozdzecki A, Audenaert D, Yperman K, Madder A, Friml J, Van Damme D, Gevaert K, Haucke V, Savvides SN, Winne J, Russinova E. 2019. Disruption of endocytosis through chemical inhibition of clathrin heavy chain function. Nature Chemical Biology. 15(6), 641–649."},"title":"Disruption of endocytosis through chemical inhibition of clathrin heavy chain function","author":[{"first_name":"Wim","last_name":"Dejonghe","full_name":"Dejonghe, Wim"},{"first_name":"Isha","last_name":"Sharma","full_name":"Sharma, Isha"},{"full_name":"Denoo, Bram","last_name":"Denoo","first_name":"Bram"},{"first_name":"Steven","last_name":"De Munck","full_name":"De Munck, Steven"},{"last_name":"Lu","full_name":"Lu, Qing","first_name":"Qing"},{"full_name":"Mishev, Kiril","last_name":"Mishev","first_name":"Kiril"},{"first_name":"Haydar","full_name":"Bulut, Haydar","last_name":"Bulut"},{"first_name":"Evelien","full_name":"Mylle, Evelien","last_name":"Mylle"},{"last_name":"De Rycke","full_name":"De Rycke, Riet","first_name":"Riet"},{"first_name":"Mina K","id":"3407EB18-F248-11E8-B48F-1D18A9856A87","full_name":"Vasileva, Mina K","last_name":"Vasileva"},{"first_name":"Daniel V.","full_name":"Savatin, Daniel V.","last_name":"Savatin"},{"last_name":"Nerinckx","full_name":"Nerinckx, Wim","first_name":"Wim"},{"last_name":"Staes","full_name":"Staes, An","first_name":"An"},{"full_name":"Drozdzecki, Andrzej","last_name":"Drozdzecki","first_name":"Andrzej"},{"first_name":"Dominique","full_name":"Audenaert, Dominique","last_name":"Audenaert"},{"first_name":"Klaas","full_name":"Yperman, Klaas","last_name":"Yperman"},{"last_name":"Madder","full_name":"Madder, Annemieke","first_name":"Annemieke"},{"first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml"},{"last_name":"Van Damme","full_name":"Van Damme, Daniël","first_name":"Daniël"},{"last_name":"Gevaert","full_name":"Gevaert, Kris","first_name":"Kris"},{"full_name":"Haucke, Volker","last_name":"Haucke","first_name":"Volker"},{"first_name":"Savvas N.","full_name":"Savvides, Savvas N.","last_name":"Savvides"},{"last_name":"Winne","full_name":"Winne, Johan","first_name":"Johan"},{"full_name":"Russinova, Eugenia","last_name":"Russinova","first_name":"Eugenia"}],"external_id":{"isi":["000468195600018"]},"article_processing_charge":"No","day":"01","publication":"Nature Chemical Biology","isi":1,"year":"2019","doi":"10.1038/s41589-019-0262-1","date_published":"2019-06-01T00:00:00Z","date_created":"2019-05-05T21:59:11Z","page":"641–649","publisher":"Springer Nature","quality_controlled":"1","date_updated":"2023-09-07T12:54:35Z","department":[{"_id":"JiFr"}],"_id":"6377","status":"public","type":"journal_article","article_type":"original","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["15524469"],"issn":["15524450"]},"publication_status":"published","volume":15,"issue":"6","related_material":{"record":[{"status":"public","id":"7172","relation":"dissertation_contains"}]},"oa_version":"None","abstract":[{"lang":"eng","text":"Clathrin-mediated endocytosis (CME) is a highly conserved and essential cellular process in eukaryotic cells, but its dynamic and vital nature makes it challenging to study using classical genetics tools. In contrast, although small molecules can acutely and reversibly perturb CME, the few chemical CME inhibitors that have been applied to plants are either ineffective or show undesirable side effects. Here, we identify the previously described endosidin9 (ES9) as an inhibitor of clathrin heavy chain (CHC) function in both Arabidopsis and human cells through affinity-based target isolation, in vitro binding studies and X-ray crystallography. Moreover, we present a chemically improved ES9 analog, ES9-17, which lacks the undesirable side effects of ES9 while retaining the ability to target CHC. ES9 and ES9-17 have expanded the chemical toolbox used to probe CHC function, and present chemical scaffolds for further design of more specific and potent CHC inhibitors across different systems."}],"month":"06","intvolume":" 15","scopus_import":"1"}]