[{"oa":1,"citation":{"ieee":"Y. Du <i>et al.</i>, “Salicylic acid interferes with clathrin-mediated endocytic protein trafficking,” <i>PNAS</i>, vol. 110, no. 19. National Academy of Sciences, pp. 7946–7951, 2013.","short":"Y. Du, R. Tejos, M. Beck, E. Himschoot, H. Li, S. Robatzek, S. Vanneste, J. Friml, PNAS 110 (2013) 7946–7951.","ista":"Du Y, Tejos R, Beck M, Himschoot E, Li H, Robatzek S, Vanneste S, Friml J. 2013. Salicylic acid interferes with clathrin-mediated endocytic protein trafficking. PNAS. 110(19), 7946–7951.","ama":"Du Y, Tejos R, Beck M, et al. Salicylic acid interferes with clathrin-mediated endocytic protein trafficking. <i>PNAS</i>. 2013;110(19):7946-7951. doi:<a href=\"https://doi.org/10.1073/pnas.1220205110\">10.1073/pnas.1220205110</a>","mla":"Du, Yunlong, et al. “Salicylic Acid Interferes with Clathrin-Mediated Endocytic Protein Trafficking.” <i>PNAS</i>, vol. 110, no. 19, National Academy of Sciences, 2013, pp. 7946–51, doi:<a href=\"https://doi.org/10.1073/pnas.1220205110\">10.1073/pnas.1220205110</a>.","chicago":"Du, Yunlong, Ricardo Tejos, Martina Beck, Ellie Himschoot, Hongjiang Li, Silke Robatzek, Steffen Vanneste, and Jiří Friml. “Salicylic Acid Interferes with Clathrin-Mediated Endocytic Protein Trafficking.” <i>PNAS</i>. National Academy of Sciences, 2013. <a href=\"https://doi.org/10.1073/pnas.1220205110\">https://doi.org/10.1073/pnas.1220205110</a>.","apa":"Du, Y., Tejos, R., Beck, M., Himschoot, E., Li, H., Robatzek, S., … Friml, J. (2013). Salicylic acid interferes with clathrin-mediated endocytic protein trafficking. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1220205110\">https://doi.org/10.1073/pnas.1220205110</a>"},"date_created":"2018-12-11T11:59:48Z","quality_controlled":"1","publist_id":"3972","page":"7946 - 7951","title":"Salicylic acid interferes with clathrin-mediated endocytic protein trafficking","volume":110,"day":"07","publication":"PNAS","pmid":1,"intvolume":"       110","date_published":"2013-05-07T00:00:00Z","doi":"10.1073/pnas.1220205110","publisher":"National Academy of Sciences","oa_version":"Submitted Version","type":"journal_article","_id":"2827","issue":"19","publication_status":"published","external_id":{"pmid":["23613581"]},"month":"05","year":"2013","project":[{"_id":"2574781E-B435-11E9-9278-68D0E5697425","name":"Koerber Prize 2010"}],"department":[{"_id":"JiFr"}],"date_updated":"2021-01-12T06:59:59Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Removal of cargos from the cell surface via endocytosis is an efficient mechanism to regulate activities of plasma membrane (PM)-resident proteins, such as receptors or transporters. Salicylic acid (SA) is an important plant hormone that is traditionally associated with pathogen defense. Here, we describe an unanticipated effect of SA on subcellular endocytic cycling of proteins. Both exogenous treatments and endogenously enhanced SA levels repressed endocytosis of different PM proteins. The SA effect on endocytosis did not involve transcription or known components of the SA signaling pathway for transcriptional regulation. SA likely targets an endocytic mechanism that involves the coat protein clathrin, because SA interfered with the clathrin incidence at the PM and clathrin-deficient mutants were less sensitive to the impact of SA on the auxin distribution and root bending during the gravitropic response. By contrast, SA did not affect the ligand-induced endocytosis of the FLAGELLIN SENSING2 (FLS2) receptor during pathogen responses. Our data suggest that the established SA impact on transcription in plant immunity and the nontranscriptional effect of SA on clathrin-mediated endocytosis are independent mechanisms by which SA regulates distinct aspects of plant physiology."}],"main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3651428/"}],"scopus_import":1,"author":[{"full_name":"Du, Yunlong","last_name":"Du","first_name":"Yunlong"},{"first_name":"Ricardo","last_name":"Tejos","full_name":"Tejos, Ricardo"},{"first_name":"Martina","full_name":"Beck, Martina","last_name":"Beck"},{"first_name":"Ellie","full_name":"Himschoot, Ellie","last_name":"Himschoot"},{"full_name":"Li, Hongjiang","last_name":"Li","orcid":"0000-0001-5039-9660","id":"33CA54A6-F248-11E8-B48F-1D18A9856A87","first_name":"Hongjiang"},{"first_name":"Silke","last_name":"Robatzek","full_name":"Robatzek, Silke"},{"first_name":"Steffen","full_name":"Vanneste, Steffen","last_name":"Vanneste"},{"full_name":"Friml, Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí"}],"status":"public"},{"publist_id":"3971","title":"The complexity of conservative valued CSPs","oa":1,"article_number":"10","citation":{"ama":"Kolmogorov V, Živný S. The complexity of conservative valued CSPs. <i>Journal of the ACM</i>. 2013;60(2). doi:<a href=\"https://doi.org/10.1145/2450142.2450146\">10.1145/2450142.2450146</a>","ista":"Kolmogorov V, Živný S. 2013. The complexity of conservative valued CSPs. Journal of the ACM. 60(2), 10.","ieee":"V. Kolmogorov and S. Živný, “The complexity of conservative valued CSPs,” <i>Journal of the ACM</i>, vol. 60, no. 2. ACM, 2013.","short":"V. Kolmogorov, S. Živný, Journal of the ACM 60 (2013).","apa":"Kolmogorov, V., &#38; Živný, S. (2013). The complexity of conservative valued CSPs. <i>Journal of the ACM</i>. ACM. <a href=\"https://doi.org/10.1145/2450142.2450146\">https://doi.org/10.1145/2450142.2450146</a>","chicago":"Kolmogorov, Vladimir, and Stanislav Živný. “The Complexity of Conservative Valued CSPs.” <i>Journal of the ACM</i>. ACM, 2013. <a href=\"https://doi.org/10.1145/2450142.2450146\">https://doi.org/10.1145/2450142.2450146</a>.","mla":"Kolmogorov, Vladimir, and Stanislav Živný. “The Complexity of Conservative Valued CSPs.” <i>Journal of the ACM</i>, vol. 60, no. 2, 10, ACM, 2013, doi:<a href=\"https://doi.org/10.1145/2450142.2450146\">10.1145/2450142.2450146</a>."},"date_created":"2018-12-11T11:59:48Z","quality_controlled":"1","arxiv":1,"doi":"10.1145/2450142.2450146","publication":"Journal of the ACM","day":"02","volume":60,"intvolume":"        60","date_published":"2013-04-02T00:00:00Z","year":"2013","month":"04","department":[{"_id":"VlKo"}],"publisher":"ACM","oa_version":"Preprint","type":"journal_article","external_id":{"arxiv":["1110.2809"]},"publication_status":"published","issue":"2","_id":"2828","status":"public","author":[{"full_name":"Kolmogorov, Vladimir","last_name":"Kolmogorov","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87","first_name":"Vladimir"},{"full_name":"Živný, Stanislav","last_name":"Živný","first_name":"Stanislav"}],"date_updated":"2021-01-12T07:00:00Z","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1110.2809"}],"abstract":[{"lang":"eng","text":"We study the complexity of valued constraint satisfaction problems (VCSPs) parametrized by a constraint language, a fixed set of cost functions over a finite domain. An instance of the problem is specified by a sum of cost functions from the language and the goal is to minimize the sum. Under the unique games conjecture, the approximability of finite-valued VCSPs is well understood, see Raghavendra [2008]. However, there is no characterization of finite-valued VCSPs, let alone general-valued VCSPs, that can be solved exactly in polynomial time, thus giving insights from a combinatorial optimization perspective. We consider the case of languages containing all possible unary cost functions. In the case of languages consisting of only {0, ∞}-valued cost functions (i.e., relations), such languages have been called conservative and studied by Bulatov [2003, 2011] and recently by Barto [2011]. Since we study valued languages, we call a language conservative if it contains all finite-valued unary cost functions. The computational complexity of conservative valued languages has been studied by Cohen et al. [2006] for languages over Boolean domains, by Deineko et al. [2008] for {0, 1}-valued languages (a.k.a Max-CSP), and by Takhanov [2010a] for {0, ∞}-valued languages containing all finite-valued unary cost functions (a.k.a. Min-Cost-Hom). We prove a Schaefer-like dichotomy theorem for conservative valued languages: if all cost functions in the language satisfy a certain condition (specified by a complementary combination of STP and MJN multimor-phisms), then any instance can be solved in polynomial time (via a new algorithm developed in this article), otherwise the language is NP-hard. This is the first complete complexity classification of general-valued constraint languages over non-Boolean domains. It is a common phenomenon that complexity classifications of problems over non-Boolean domains are significantly harder than the Boolean cases. The polynomial-time algorithm we present for the tractable cases is a generalization of the submodular minimization problem and a result of Cohen et al. [2008]. Our results generalize previous results by Takhanov [2010a] and (a subset of results) by Cohen et al. [2006] and Deineko et al. [2008]. Moreover, our results do not rely on any computer-assisted search as in Deineko et al. [2008], and provide a powerful tool for proving hardness of finite-valued and general-valued languages."}],"scopus_import":1},{"title":"Scale invariance at the onset of turbulence in couette flow","publist_id":"3970","quality_controlled":"1","arxiv":1,"date_created":"2018-12-11T11:59:49Z","citation":{"ieee":"L. Shi, M. Avila, and B. Hof, “Scale invariance at the onset of turbulence in couette flow,” <i>Physical Review Letters</i>, vol. 110, no. 20. American Physical Society, 2013.","ista":"Shi L, Avila M, Hof B. 2013. Scale invariance at the onset of turbulence in couette flow. Physical Review Letters. 110(20), 204502.","short":"L. Shi, M. Avila, B. Hof, Physical Review Letters 110 (2013).","ama":"Shi L, Avila M, Hof B. Scale invariance at the onset of turbulence in couette flow. <i>Physical Review Letters</i>. 2013;110(20). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.110.204502\">10.1103/PhysRevLett.110.204502</a>","chicago":"Shi, Liang, Marc Avila, and Björn Hof. “Scale Invariance at the Onset of Turbulence in Couette Flow.” <i>Physical Review Letters</i>. American Physical Society, 2013. <a href=\"https://doi.org/10.1103/PhysRevLett.110.204502\">https://doi.org/10.1103/PhysRevLett.110.204502</a>.","apa":"Shi, L., Avila, M., &#38; Hof, B. (2013). Scale invariance at the onset of turbulence in couette flow. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.110.204502\">https://doi.org/10.1103/PhysRevLett.110.204502</a>","mla":"Shi, Liang, et al. “Scale Invariance at the Onset of Turbulence in Couette Flow.” <i>Physical Review Letters</i>, vol. 110, no. 20, 204502, American Physical Society, 2013, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.110.204502\">10.1103/PhysRevLett.110.204502</a>."},"oa":1,"article_number":"204502","ec_funded":1,"doi":"10.1103/PhysRevLett.110.204502","date_published":"2013-05-13T00:00:00Z","intvolume":"       110","publication":"Physical Review Letters","day":"13","volume":110,"department":[{"_id":"BjHo"}],"project":[{"_id":"25152F3A-B435-11E9-9278-68D0E5697425","name":"Decoding the complexity of turbulence at its origin","call_identifier":"FP7","grant_number":"306589"},{"grant_number":"SFB 963  TP A8","name":"Astrophysical instability of currents and turbulences","_id":"2511D90C-B435-11E9-9278-68D0E5697425"}],"year":"2013","month":"05","external_id":{"arxiv":["1304.5446"]},"publication_status":"published","_id":"2829","issue":"20","oa_version":"Preprint","type":"journal_article","publisher":"American Physical Society","status":"public","author":[{"id":"374A3F1A-F248-11E8-B48F-1D18A9856A87","first_name":"Liang","full_name":"Shi, Liang","last_name":"Shi"},{"first_name":"Marc","last_name":"Avila","full_name":"Avila, Marc"},{"orcid":"0000-0003-2057-2754","full_name":"Hof, Björn","last_name":"Hof","first_name":"Björn","id":"3A374330-F248-11E8-B48F-1D18A9856A87"}],"scopus_import":1,"main_file_link":[{"url":"http://arxiv.org/abs/1304.5446","open_access":"1"}],"abstract":[{"text":"Laminar-turbulent intermittency is intrinsic to the transitional regime of a wide range of fluid flows including pipe, channel, boundary layer, and Couette flow. In the latter turbulent spots can grow and form continuous stripes, yet in the stripe-normal direction they remain interspersed by laminar fluid. We carry out direct numerical simulations in a long narrow domain and observe that individual turbulent stripes are transient. In agreement with recent observations in pipe flow, we find that turbulence becomes sustained at a distinct critical point once the spatial proliferation outweighs the inherent decaying process. By resolving the asymptotic size distributions close to criticality we can for the first time demonstrate scale invariance at the onset of turbulence.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"date_updated":"2021-01-12T07:00:00Z"},{"author":[{"first_name":"Christine","id":"3356F664-F248-11E8-B48F-1D18A9856A87","last_name":"Moussion","full_name":"Moussion, Christine"},{"orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K","last_name":"Sixt","first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"}],"status":"public","doi":"10.1016/j.immuni.2013.05.005","date_published":"2013-05-23T00:00:00Z","scopus_import":1,"intvolume":"        38","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T07:00:01Z","volume":38,"publication":"Immunity","day":"23","title":"A conduit to amplify innate immunity","department":[{"_id":"MiSi"}],"year":"2013","month":"05","publist_id":"3969","page":"853 - 854","issue":"5","_id":"2830","publication_status":"published","quality_controlled":"1","citation":{"mla":"Moussion, Christine, and Michael K. Sixt. “A Conduit to Amplify Innate Immunity.” <i>Immunity</i>, vol. 38, no. 5, Cell Press, 2013, pp. 853–54, doi:<a href=\"https://doi.org/10.1016/j.immuni.2013.05.005\">10.1016/j.immuni.2013.05.005</a>.","chicago":"Moussion, Christine, and Michael K Sixt. “A Conduit to Amplify Innate Immunity.” <i>Immunity</i>. Cell Press, 2013. <a href=\"https://doi.org/10.1016/j.immuni.2013.05.005\">https://doi.org/10.1016/j.immuni.2013.05.005</a>.","apa":"Moussion, C., &#38; Sixt, M. K. (2013). A conduit to amplify innate immunity. <i>Immunity</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.immuni.2013.05.005\">https://doi.org/10.1016/j.immuni.2013.05.005</a>","short":"C. Moussion, M.K. Sixt, Immunity 38 (2013) 853–854.","ista":"Moussion C, Sixt MK. 2013. A conduit to amplify innate immunity. Immunity. 38(5), 853–854.","ieee":"C. Moussion and M. K. Sixt, “A conduit to amplify innate immunity,” <i>Immunity</i>, vol. 38, no. 5. Cell Press, pp. 853–854, 2013.","ama":"Moussion C, Sixt MK. A conduit to amplify innate immunity. <i>Immunity</i>. 2013;38(5):853-854. doi:<a href=\"https://doi.org/10.1016/j.immuni.2013.05.005\">10.1016/j.immuni.2013.05.005</a>"},"date_created":"2018-12-11T11:59:49Z","oa_version":"None","type":"journal_article","publisher":"Cell Press"},{"doi":"10.1007/s10703-012-0180-2","article_processing_charge":"No","ec_funded":1,"volume":42,"day":"01","publication":"Formal Methods in System Design","intvolume":"        42","date_published":"2013-06-01T00:00:00Z","page":"301 - 327","publist_id":"3968","title":"Symbolic algorithms for qualitative analysis of Markov decision processes with Büchi objectives","oa":1,"citation":{"short":"K. Chatterjee, M.H. Henzinger, M. Joglekar, N. Shah, Formal Methods in System Design 42 (2013) 301–327.","ista":"Chatterjee K, Henzinger MH, Joglekar M, Shah N. 2013. Symbolic algorithms for qualitative analysis of Markov decision processes with Büchi objectives. Formal Methods in System Design. 42(3), 301–327.","ieee":"K. Chatterjee, M. H. Henzinger, M. Joglekar, and N. Shah, “Symbolic algorithms for qualitative analysis of Markov decision processes with Büchi objectives,” <i>Formal Methods in System Design</i>, vol. 42, no. 3. Springer, pp. 301–327, 2013.","ama":"Chatterjee K, Henzinger MH, Joglekar M, Shah N. Symbolic algorithms for qualitative analysis of Markov decision processes with Büchi objectives. <i>Formal Methods in System Design</i>. 2013;42(3):301-327. doi:<a href=\"https://doi.org/10.1007/s10703-012-0180-2\">10.1007/s10703-012-0180-2</a>","chicago":"Chatterjee, Krishnendu, Monika H Henzinger, Manas Joglekar, and Nisarg Shah. “Symbolic Algorithms for Qualitative Analysis of Markov Decision Processes with Büchi Objectives.” <i>Formal Methods in System Design</i>. Springer, 2013. <a href=\"https://doi.org/10.1007/s10703-012-0180-2\">https://doi.org/10.1007/s10703-012-0180-2</a>.","apa":"Chatterjee, K., Henzinger, M. H., Joglekar, M., &#38; Shah, N. (2013). Symbolic algorithms for qualitative analysis of Markov decision processes with Büchi objectives. <i>Formal Methods in System Design</i>. Springer. <a href=\"https://doi.org/10.1007/s10703-012-0180-2\">https://doi.org/10.1007/s10703-012-0180-2</a>","mla":"Chatterjee, Krishnendu, et al. “Symbolic Algorithms for Qualitative Analysis of Markov Decision Processes with Büchi Objectives.” <i>Formal Methods in System Design</i>, vol. 42, no. 3, Springer, 2013, pp. 301–27, doi:<a href=\"https://doi.org/10.1007/s10703-012-0180-2\">10.1007/s10703-012-0180-2</a>."},"date_created":"2018-12-11T11:59:49Z","quality_controlled":"1","arxiv":1,"author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X"},{"full_name":"Henzinger, Monika H","last_name":"Henzinger","orcid":"0000-0002-5008-6530","first_name":"Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630"},{"full_name":"Joglekar, Manas","last_name":"Joglekar","first_name":"Manas"},{"first_name":"Nisarg","last_name":"Shah","full_name":"Shah, Nisarg"}],"status":"public","date_updated":"2023-02-23T11:23:04Z","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"We consider Markov decision processes (MDPs) with Büchi (liveness) objectives. We consider the problem of computing the set of almost-sure winning states from where the objective can be ensured with probability 1. Our contributions are as follows: First, we present the first subquadratic symbolic algorithm to compute the almost-sure winning set for MDPs with Büchi objectives; our algorithm takes O(n · √ m) symbolic steps as compared to the previous known algorithm that takes O(n 2) symbolic steps, where n is the number of states and m is the number of edges of the MDP. In practice MDPs have constant out-degree, and then our symbolic algorithm takes O(n · √ n) symbolic steps, as compared to the previous known O(n 2) symbolic steps algorithm. Second, we present a new algorithm, namely win-lose algorithm, with the following two properties: (a) the algorithm iteratively computes subsets of the almost-sure winning set and its complement, as compared to all previous algorithms that discover the almost-sure winning set upon termination; and (b) requires O(n · √ K) symbolic steps, where K is the maximal number of edges of strongly connected components (scc's) of the MDP. The win-lose algorithm requires symbolic computation of scc's. Third, we improve the algorithm for symbolic scc computation; the previous known algorithm takes linear symbolic steps, and our new algorithm improves the constants associated with the linear number of steps. In the worst case the previous known algorithm takes 5×n symbolic steps, whereas our new algorithm takes 4×n symbolic steps."}],"related_material":{"record":[{"id":"3342","relation":"earlier_version","status":"public"}]},"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1104.3348"}],"scopus_import":"1","year":"2013","month":"06","project":[{"name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF","_id":"2584A770-B435-11E9-9278-68D0E5697425","grant_number":"P 23499-N23"},{"grant_number":"S11407","name":"Game Theory","call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425"},{"name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307"},{"_id":"2587B514-B435-11E9-9278-68D0E5697425","name":"Microsoft Research Faculty Fellowship"}],"department":[{"_id":"KrCh"}],"publisher":"Springer","oa_version":"Preprint","type":"journal_article","issue":"3","_id":"2831","publication_status":"published","external_id":{"arxiv":["1104.3348"]}},{"title":"Cell polarity and patterning by PIN trafficking through early endosomal compartments in arabidopsis thaliana","publist_id":"3967","citation":{"apa":"Tanaka, H., Kitakura, S., Rakusová, H., Uemura, T., Feraru, M., De Rycke, R., … Friml, J. (2013). Cell polarity and patterning by PIN trafficking through early endosomal compartments in arabidopsis thaliana. <i>PLoS Genetics</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pgen.1003540\">https://doi.org/10.1371/journal.pgen.1003540</a>","chicago":"Tanaka, Hirokazu, Saeko Kitakura, Hana Rakusová, Tomohiro Uemura, Mugurel Feraru, Riet De Rycke, Stéphanie Robert, Tatsuo Kakimoto, and Jiří Friml. “Cell Polarity and Patterning by PIN Trafficking through Early Endosomal Compartments in Arabidopsis Thaliana.” <i>PLoS Genetics</i>. Public Library of Science, 2013. <a href=\"https://doi.org/10.1371/journal.pgen.1003540\">https://doi.org/10.1371/journal.pgen.1003540</a>.","mla":"Tanaka, Hirokazu, et al. “Cell Polarity and Patterning by PIN Trafficking through Early Endosomal Compartments in Arabidopsis Thaliana.” <i>PLoS Genetics</i>, vol. 9, no. 5, e1003540, Public Library of Science, 2013, doi:<a href=\"https://doi.org/10.1371/journal.pgen.1003540\">10.1371/journal.pgen.1003540</a>.","ama":"Tanaka H, Kitakura S, Rakusová H, et al. Cell polarity and patterning by PIN trafficking through early endosomal compartments in arabidopsis thaliana. <i>PLoS Genetics</i>. 2013;9(5). doi:<a href=\"https://doi.org/10.1371/journal.pgen.1003540\">10.1371/journal.pgen.1003540</a>","ista":"Tanaka H, Kitakura S, Rakusová H, Uemura T, Feraru M, De Rycke R, Robert S, Kakimoto T, Friml J. 2013. Cell polarity and patterning by PIN trafficking through early endosomal compartments in arabidopsis thaliana. PLoS Genetics. 9(5), e1003540.","short":"H. Tanaka, S. Kitakura, H. Rakusová, T. Uemura, M. Feraru, R. De Rycke, S. Robert, T. Kakimoto, J. Friml, PLoS Genetics 9 (2013).","ieee":"H. Tanaka <i>et al.</i>, “Cell polarity and patterning by PIN trafficking through early endosomal compartments in arabidopsis thaliana,” <i>PLoS Genetics</i>, vol. 9, no. 5. Public Library of Science, 2013."},"date_created":"2018-12-11T11:59:50Z","quality_controlled":"1","oa":1,"article_number":"e1003540","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ec_funded":1,"doi":"10.1371/journal.pgen.1003540","file_date_updated":"2020-07-14T12:45:50Z","intvolume":"         9","has_accepted_license":"1","date_published":"2013-05-05T00:00:00Z","publication":"PLoS Genetics","day":"05","volume":9,"department":[{"_id":"JiFr"}],"project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","grant_number":"282300"}],"month":"05","year":"2013","oa_version":"Published Version","type":"journal_article","ddc":["570"],"file":[{"date_updated":"2020-07-14T12:45:50Z","access_level":"open_access","content_type":"application/pdf","date_created":"2018-12-12T10:12:39Z","checksum":"050237d6c53e8d1601b26808ee1dd6d8","file_size":3813091,"file_name":"IST-2016-411-v1+1_journal.pgen.1003540.pdf","relation":"main_file","file_id":"4957","creator":"system"}],"publication_status":"published","_id":"2832","issue":"5","publisher":"Public Library of Science","pubrep_id":"411","status":"public","author":[{"first_name":"Hirokazu","full_name":"Tanaka, Hirokazu","last_name":"Tanaka"},{"full_name":"Kitakura, Saeko","last_name":"Kitakura","first_name":"Saeko"},{"last_name":"Rakusová","full_name":"Rakusová, Hana","first_name":"Hana"},{"last_name":"Uemura","full_name":"Uemura, Tomohiro","first_name":"Tomohiro"},{"first_name":"Mugurel","last_name":"Feraru","full_name":"Feraru, Mugurel"},{"first_name":"Riet","last_name":"De Rycke","full_name":"De Rycke, Riet"},{"first_name":"Stéphanie","last_name":"Robert","full_name":"Robert, Stéphanie"},{"first_name":"Tatsuo","full_name":"Kakimoto, Tatsuo","last_name":"Kakimoto"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","last_name":"Friml","full_name":"Friml, Jirí","orcid":"0000-0002-8302-7596"}],"abstract":[{"lang":"eng","text":"PIN-FORMED (PIN) proteins localize asymmetrically at the plasma membrane and mediate intercellular polar transport of the plant hormone auxin that is crucial for a multitude of developmental processes in plants. PIN localization is under extensive control by environmental or developmental cues, but mechanisms regulating PIN localization are not fully understood. Here we show that early endosomal components ARF GEF BEN1 and newly identified Sec1/Munc18 family protein BEN2 are involved in distinct steps of early endosomal trafficking. BEN1 and BEN2 are collectively required for polar PIN localization, for their dynamic repolarization, and consequently for auxin activity gradient formation and auxin-related developmental processes including embryonic patterning, organogenesis, and vasculature venation patterning. These results show that early endosomal trafficking is crucial for cell polarity and auxin-dependent regulation of plant architecture."}],"scopus_import":1,"date_updated":"2021-01-12T07:00:03Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}]},{"abstract":[{"text":"During development, mechanical forces cause changes in size, shape, number, position, and gene expression of cells. They are therefore integral to any morphogenetic processes. Force generation by actin-myosin networks and force transmission through adhesive complexes are two self-organizing phenomena driving tissue morphogenesis. Coordination and integration of forces by long-range force transmission and mechanosensing of cells within tissues produce large-scale tissue shape changes. Extrinsic mechanical forces also control tissue patterning by modulating cell fate specification and differentiation. Thus, the interplay between tissue mechanics and biochemical signaling orchestrates tissue morphogenesis and patterning in development.","lang":"eng"}],"intvolume":"       153","scopus_import":1,"date_published":"2013-05-23T00:00:00Z","date_updated":"2021-01-12T07:00:04Z","volume":153,"publication":"Cell","acknowledgement":"C.-P.H. is supported by the Institute of Science and Technology Austria and grants from the Deutsche Forschungsgemeinschaft (DFG) and Fonds zur Förderung der wissenschaftlichen Forschung (FWF).","day":"23","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"author":[{"id":"39427864-F248-11E8-B48F-1D18A9856A87","first_name":"Carl-Philipp J","orcid":"0000-0002-0912-4566","full_name":"Heisenberg, Carl-Philipp J","last_name":"Heisenberg"},{"full_name":"Bellaïche, Yohanns","last_name":"Bellaïche","first_name":"Yohanns"}],"status":"public","doi":"10.1016/j.cell.2013.05.008","date_created":"2018-12-11T11:59:50Z","citation":{"mla":"Heisenberg, Carl-Philipp J., and Yohanns Bellaïche. “Forces in Tissue Morphogenesis and Patterning.” <i>Cell</i>, vol. 153, no. 5, Cell Press, 2013, pp. 948–62, doi:<a href=\"https://doi.org/10.1016/j.cell.2013.05.008\">10.1016/j.cell.2013.05.008</a>.","chicago":"Heisenberg, Carl-Philipp J, and Yohanns Bellaïche. “Forces in Tissue Morphogenesis and Patterning.” <i>Cell</i>. Cell Press, 2013. <a href=\"https://doi.org/10.1016/j.cell.2013.05.008\">https://doi.org/10.1016/j.cell.2013.05.008</a>.","apa":"Heisenberg, C.-P. J., &#38; Bellaïche, Y. (2013). Forces in tissue morphogenesis and patterning. <i>Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cell.2013.05.008\">https://doi.org/10.1016/j.cell.2013.05.008</a>","short":"C.-P.J. Heisenberg, Y. Bellaïche, Cell 153 (2013) 948–962.","ieee":"C.-P. J. Heisenberg and Y. Bellaïche, “Forces in tissue morphogenesis and patterning,” <i>Cell</i>, vol. 153, no. 5. Cell Press, pp. 948–962, 2013.","ista":"Heisenberg C-PJ, Bellaïche Y. 2013. Forces in tissue morphogenesis and patterning. Cell. 153(5), 948–962.","ama":"Heisenberg C-PJ, Bellaïche Y. Forces in tissue morphogenesis and patterning. <i>Cell</i>. 2013;153(5):948-962. doi:<a href=\"https://doi.org/10.1016/j.cell.2013.05.008\">10.1016/j.cell.2013.05.008</a>"},"oa_version":"None","type":"journal_article","issue":"5","_id":"2833","publication_status":"published","quality_controlled":"1","publisher":"Cell Press","title":"Forces in tissue morphogenesis and patterning","department":[{"_id":"CaHe"}],"year":"2013","month":"05","publist_id":"3966","page":"948 - 962"},{"ec_funded":1,"doi":"10.1103/PhysRevLett.110.224502","date_published":"2013-05-29T00:00:00Z","intvolume":"       110","volume":110,"publication":"Physical Review Letters","day":"29","title":"Streamwise-localized solutions at the onset of turbulence in pipe flow","publist_id":"3965","arxiv":1,"quality_controlled":"1","date_created":"2018-12-11T11:59:50Z","citation":{"ama":"Avila M, Mellibovsky F, Roland N, Hof B. Streamwise-localized solutions at the onset of turbulence in pipe flow. <i>Physical Review Letters</i>. 2013;110(22). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.110.224502\">10.1103/PhysRevLett.110.224502</a>","short":"M. Avila, F. Mellibovsky, N. Roland, B. Hof, Physical Review Letters 110 (2013).","ista":"Avila M, Mellibovsky F, Roland N, Hof B. 2013. Streamwise-localized solutions at the onset of turbulence in pipe flow. Physical Review Letters. 110(22), 224502.","ieee":"M. Avila, F. Mellibovsky, N. Roland, and B. Hof, “Streamwise-localized solutions at the onset of turbulence in pipe flow,” <i>Physical Review Letters</i>, vol. 110, no. 22. American Physical Society, 2013.","mla":"Avila, Marc, et al. “Streamwise-Localized Solutions at the Onset of Turbulence in Pipe Flow.” <i>Physical Review Letters</i>, vol. 110, no. 22, 224502, American Physical Society, 2013, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.110.224502\">10.1103/PhysRevLett.110.224502</a>.","apa":"Avila, M., Mellibovsky, F., Roland, N., &#38; Hof, B. (2013). Streamwise-localized solutions at the onset of turbulence in pipe flow. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.110.224502\">https://doi.org/10.1103/PhysRevLett.110.224502</a>","chicago":"Avila, Marc, Fernando Mellibovsky, Nicolas Roland, and Björn Hof. “Streamwise-Localized Solutions at the Onset of Turbulence in Pipe Flow.” <i>Physical Review Letters</i>. American Physical Society, 2013. <a href=\"https://doi.org/10.1103/PhysRevLett.110.224502\">https://doi.org/10.1103/PhysRevLett.110.224502</a>."},"article_number":"224502","oa":1,"author":[{"first_name":"Marc","last_name":"Avila","full_name":"Avila, Marc"},{"first_name":"Fernando","full_name":"Mellibovsky, Fernando","last_name":"Mellibovsky"},{"last_name":"Roland","full_name":"Roland, Nicolas","first_name":"Nicolas"},{"orcid":"0000-0003-2057-2754","last_name":"Hof","full_name":"Hof, Björn","first_name":"Björn","id":"3A374330-F248-11E8-B48F-1D18A9856A87"}],"status":"public","scopus_import":1,"abstract":[{"lang":"eng","text":"Although the equations governing fluid flow are well known, there are no analytical expressions that describe the complexity of turbulent motion. A recent proposition is that in analogy to low dimensional chaotic systems, turbulence is organized around unstable solutions of the governing equations which provide the building blocks of the disordered dynamics. We report the discovery of periodic solutions which just like intermittent turbulence are spatially localized and show that turbulent transients arise from one such solution branch."}],"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1212.0230"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"date_updated":"2021-01-12T07:00:05Z","department":[{"_id":"BjHo"}],"month":"05","year":"2013","project":[{"grant_number":"306589","_id":"25152F3A-B435-11E9-9278-68D0E5697425","name":"Decoding the complexity of turbulence at its origin","call_identifier":"FP7"}],"issue":"22","_id":"2834","external_id":{"arxiv":["1212.0230"]},"publication_status":"published","type":"journal_article","oa_version":"Preprint","publisher":"American Physical Society"},{"date_created":"2018-12-11T11:59:51Z","citation":{"ama":"Yu H, Karampelias M, Robert S, et al. Root ultraviolet b-sensitive1/weak auxin response3 is essential for polar auxin transport in arabidopsis. <i>Plant Physiology</i>. 2013;162(2):965-976. doi:<a href=\"https://doi.org/10.1104/pp.113.217018\">10.1104/pp.113.217018</a>","ista":"Yu H, Karampelias M, Robert S, Peer W, Swarup R, Ye S, Ge L, Cohen J, Murphy A, Friml J, Estelle M. 2013. Root ultraviolet b-sensitive1/weak auxin response3 is essential for polar auxin transport in arabidopsis. Plant Physiology. 162(2), 965–976.","short":"H. Yu, M. Karampelias, S. Robert, W. Peer, R. Swarup, S. Ye, L. Ge, J. Cohen, A. Murphy, J. Friml, M. Estelle, Plant Physiology 162 (2013) 965–976.","ieee":"H. Yu <i>et al.</i>, “Root ultraviolet b-sensitive1/weak auxin response3 is essential for polar auxin transport in arabidopsis,” <i>Plant Physiology</i>, vol. 162, no. 2. American Society of Plant Biologists, pp. 965–976, 2013.","apa":"Yu, H., Karampelias, M., Robert, S., Peer, W., Swarup, R., Ye, S., … Estelle, M. (2013). Root ultraviolet b-sensitive1/weak auxin response3 is essential for polar auxin transport in arabidopsis. <i>Plant Physiology</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1104/pp.113.217018\">https://doi.org/10.1104/pp.113.217018</a>","chicago":"Yu, Hong, Michael Karampelias, Stéphanie Robert, Wendy Peer, Ranjan Swarup, Songqing Ye, Lei Ge, et al. “Root Ultraviolet B-Sensitive1/Weak Auxin Response3 Is Essential for Polar Auxin Transport in Arabidopsis.” <i>Plant Physiology</i>. American Society of Plant Biologists, 2013. <a href=\"https://doi.org/10.1104/pp.113.217018\">https://doi.org/10.1104/pp.113.217018</a>.","mla":"Yu, Hong, et al. “Root Ultraviolet B-Sensitive1/Weak Auxin Response3 Is Essential for Polar Auxin Transport in Arabidopsis.” <i>Plant Physiology</i>, vol. 162, no. 2, American Society of Plant Biologists, 2013, pp. 965–76, doi:<a href=\"https://doi.org/10.1104/pp.113.217018\">10.1104/pp.113.217018</a>."},"quality_controlled":"1","oa":1,"title":"Root ultraviolet b-sensitive1/weak auxin response3 is essential for polar auxin transport in arabidopsis","publist_id":"3964","page":"965 - 976","intvolume":"       162","date_published":"2013-06-01T00:00:00Z","volume":162,"publication":"Plant Physiology","day":"01","pmid":1,"doi":"10.1104/pp.113.217018","type":"journal_article","oa_version":"Submitted Version","_id":"2835","issue":"2","publication_status":"published","external_id":{"pmid":["23580592"]},"publisher":"American Society of Plant Biologists","department":[{"_id":"JiFr"}],"year":"2013","month":"06","abstract":[{"text":"The phytohormone auxin regulates virtually every aspect of plant development. To identify new genes involved in auxin activity, a genetic screen was performed for Arabidopsis (Arabidopsis thaliana) mutants with altered expression of the auxin-responsive reporter DR5rev:GFP. One of the mutants recovered in the screen, designated as weak auxin response3 (wxr3), exhibits much lower DR5rev:GFP expression when treated with the synthetic auxin 2,4-dichlorophenoxyacetic acid and displays severe defects in root development. The wxr3 mutant decreases polar auxin transport and results in a disruption of the asymmetric auxin distribution. The levels of the auxin transporters AUXIN1 and PIN-FORMED are dramatically reduced in the wxr3 root tip. Molecular analyses demonstrate that WXR3 is ROOT ULTRAVIOLET B-SENSITIVE1 (RUS1), a member of the conserved Domain of Unknown Function647 protein family found in diverse eukaryotic organisms. Our data suggest that RUS1/WXR3 plays an essential role in the regulation of polar auxin transport by maintaining the proper level of auxin transporters on the plasma membrane.","lang":"eng"}],"main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3668084/","open_access":"1"}],"scopus_import":1,"date_updated":"2021-01-12T07:00:05Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"author":[{"last_name":"Yu","full_name":"Yu, Hong","first_name":"Hong"},{"first_name":"Michael","full_name":"Karampelias, Michael","last_name":"Karampelias"},{"first_name":"Stéphanie","full_name":"Robert, Stéphanie","last_name":"Robert"},{"full_name":"Peer, Wendy","last_name":"Peer","first_name":"Wendy"},{"last_name":"Swarup","full_name":"Swarup, Ranjan","first_name":"Ranjan"},{"first_name":"Songqing","last_name":"Ye","full_name":"Ye, Songqing"},{"last_name":"Ge","full_name":"Ge, Lei","first_name":"Lei"},{"first_name":"Jerry","last_name":"Cohen","full_name":"Cohen, Jerry"},{"first_name":"Angus","full_name":"Murphy, Angus","last_name":"Murphy"},{"first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596"},{"full_name":"Estelle, Mark","last_name":"Estelle","first_name":"Mark"}],"status":"public"},{"ec_funded":1,"doi":"10.1007/s00165-013-0283-6","date_published":"2013-07-04T00:00:00Z","intvolume":"        26","day":"04","publication":"Formal Aspects of Computing","volume":26,"title":"Assume-guarantee synthesis for digital contract signing","publist_id":"3963","page":"825 - 859","quality_controlled":"1","arxiv":1,"citation":{"chicago":"Chatterjee, Krishnendu, and Vishwanath Raman. “Assume-Guarantee Synthesis for Digital Contract Signing.” <i>Formal Aspects of Computing</i>. Springer, 2013. <a href=\"https://doi.org/10.1007/s00165-013-0283-6\">https://doi.org/10.1007/s00165-013-0283-6</a>.","apa":"Chatterjee, K., &#38; Raman, V. (2013). Assume-guarantee synthesis for digital contract signing. <i>Formal Aspects of Computing</i>. Springer. <a href=\"https://doi.org/10.1007/s00165-013-0283-6\">https://doi.org/10.1007/s00165-013-0283-6</a>","mla":"Chatterjee, Krishnendu, and Vishwanath Raman. “Assume-Guarantee Synthesis for Digital Contract Signing.” <i>Formal Aspects of Computing</i>, vol. 26, no. 4, Springer, 2013, pp. 825–59, doi:<a href=\"https://doi.org/10.1007/s00165-013-0283-6\">10.1007/s00165-013-0283-6</a>.","ieee":"K. Chatterjee and V. Raman, “Assume-guarantee synthesis for digital contract signing,” <i>Formal Aspects of Computing</i>, vol. 26, no. 4. Springer, pp. 825–859, 2013.","short":"K. Chatterjee, V. Raman, Formal Aspects of Computing 26 (2013) 825–859.","ista":"Chatterjee K, Raman V. 2013. Assume-guarantee synthesis for digital contract signing. Formal Aspects of Computing. 26(4), 825–859.","ama":"Chatterjee K, Raman V. Assume-guarantee synthesis for digital contract signing. <i>Formal Aspects of Computing</i>. 2013;26(4):825-859. doi:<a href=\"https://doi.org/10.1007/s00165-013-0283-6\">10.1007/s00165-013-0283-6</a>"},"date_created":"2018-12-11T11:59:51Z","oa":1,"status":"public","author":[{"first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X"},{"full_name":"Raman, Vishwanath","last_name":"Raman","first_name":"Vishwanath"}],"scopus_import":1,"main_file_link":[{"url":"http://arxiv.org/abs/1004.2697","open_access":"1"}],"abstract":[{"text":"We study the automatic synthesis of fair non-repudiation protocols, a class of fair exchange protocols, used for digital contract signing. First, we show how to specify the objectives of the participating agents and the trusted third party as path formulas in linear temporal logic and prove that the satisfaction of these objectives imply fairness; a property required of fair exchange protocols. We then show that weak (co-operative) co-synthesis and classical (strictly competitive) co-synthesis fail, whereas assume-guarantee synthesis (AGS) succeeds. We demonstrate the success of AGS as follows: (a) any solution of AGS is attack-free; no subset of participants can violate the objectives of the other participants; (b) the Asokan-Shoup-Waidner certified mail protocol that has known vulnerabilities is not a solution of AGS; (c) the Kremer-Markowitch non-repudiation protocol is a solution of AGS; and (d) AGS presents a new and symmetric fair non-repudiation protocol that is attack-free. To our knowledge this is the first application of synthesis to fair non-repudiation protocols, and our results show how synthesis can both automatically discover vulnerabilities in protocols and generate correct protocols. The solution to AGS can be computed efficiently as the secure equilibrium solution of three-player graph games. ","lang":"eng"}],"language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T07:00:06Z","department":[{"_id":"KrCh"}],"project":[{"_id":"2584A770-B435-11E9-9278-68D0E5697425","name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF","grant_number":"P 23499-N23"},{"grant_number":"S11407","name":"Game Theory","call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307"},{"_id":"2587B514-B435-11E9-9278-68D0E5697425","name":"Microsoft Research Faculty Fellowship"}],"month":"07","year":"2013","external_id":{"arxiv":["1004.2697"]},"publication_status":"published","_id":"2836","issue":"4","type":"journal_article","oa_version":"Preprint","publisher":"Springer"},{"status":"public","author":[{"orcid":"0000-0001-5366-9603","full_name":"Erdös, László","last_name":"Erdös","first_name":"László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Antti","last_name":"Knowles","full_name":"Knowles, Antti"},{"last_name":"Yau","full_name":"Yau, Horng","first_name":"Horng"},{"first_name":"Jun","last_name":"Yin","full_name":"Yin, Jun"}],"scopus_import":1,"abstract":[{"text":"We consider a general class of N × N random matrices whose entries hij are independent up to a symmetry constraint, but not necessarily identically distributed. Our main result is a local semicircle law which improves previous results [17] both in the bulk and at the edge. The error bounds are given in terms of the basic small parameter of the model, maxi,j E|hij|2. As a consequence, we prove the universality of the local n-point correlation functions in the bulk spectrum for a class of matrices whose entries do not have comparable variances, including random band matrices with band width W ≫N1-εn with some εn &gt; 0 and with a negligible mean-field component. In addition, we provide a coherent and pedagogical proof of the local semicircle law, streamlining and strengthening previous arguments from [17, 19, 6].","lang":"eng"}],"language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T07:00:06Z","department":[{"_id":"LaEr"}],"month":"05","year":"2013","publication_status":"published","issue":"59","_id":"2837","oa_version":"Published Version","file":[{"creator":"system","file_id":"5169","relation":"main_file","file_name":"IST-2016-406-v1+1_2473-13759-1-PB.pdf","checksum":"aac9e52a00cb2f5149dc9e362b5ccf44","file_size":651497,"date_created":"2018-12-12T10:15:46Z","content_type":"application/pdf","access_level":"open_access","date_updated":"2020-07-14T12:45:50Z"}],"type":"journal_article","ddc":["530"],"publisher":"Institute of Mathematical Statistics","pubrep_id":"406","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file_date_updated":"2020-07-14T12:45:50Z","doi":"10.1214/EJP.v18-2473","date_published":"2013-05-29T00:00:00Z","has_accepted_license":"1","intvolume":"        18","day":"29","publication":"Electronic Journal of Probability","volume":18,"title":"The local semicircle law for a general class of random matrices","page":"1-58","publist_id":"3962","quality_controlled":"1","date_created":"2018-12-11T11:59:51Z","citation":{"mla":"Erdös, László, et al. “The Local Semicircle Law for a General Class of Random Matrices.” <i>Electronic Journal of Probability</i>, vol. 18, no. 59, Institute of Mathematical Statistics, 2013, pp. 1–58, doi:<a href=\"https://doi.org/10.1214/EJP.v18-2473\">10.1214/EJP.v18-2473</a>.","apa":"Erdös, L., Knowles, A., Yau, H., &#38; Yin, J. (2013). The local semicircle law for a general class of random matrices. <i>Electronic Journal of Probability</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/EJP.v18-2473\">https://doi.org/10.1214/EJP.v18-2473</a>","chicago":"Erdös, László, Antti Knowles, Horng Yau, and Jun Yin. “The Local Semicircle Law for a General Class of Random Matrices.” <i>Electronic Journal of Probability</i>. Institute of Mathematical Statistics, 2013. <a href=\"https://doi.org/10.1214/EJP.v18-2473\">https://doi.org/10.1214/EJP.v18-2473</a>.","ama":"Erdös L, Knowles A, Yau H, Yin J. The local semicircle law for a general class of random matrices. <i>Electronic Journal of Probability</i>. 2013;18(59):1-58. doi:<a href=\"https://doi.org/10.1214/EJP.v18-2473\">10.1214/EJP.v18-2473</a>","short":"L. Erdös, A. Knowles, H. Yau, J. Yin, Electronic Journal of Probability 18 (2013) 1–58.","ista":"Erdös L, Knowles A, Yau H, Yin J. 2013. The local semicircle law for a general class of random matrices. Electronic Journal of Probability. 18(59), 1–58.","ieee":"L. Erdös, A. Knowles, H. Yau, and J. Yin, “The local semicircle law for a general class of random matrices,” <i>Electronic Journal of Probability</i>, vol. 18, no. 59. Institute of Mathematical Statistics, pp. 1–58, 2013."},"oa":1},{"author":[{"first_name":"Gloria","id":"3CF33908-F248-11E8-B48F-1D18A9856A87","last_name":"Arquè Fuste","full_name":"Arquè Fuste, Gloria"},{"first_name":"Anna","last_name":"Casanovas","full_name":"Casanovas, Anna"},{"full_name":"Dierssen, Mara","last_name":"Dierssen","first_name":"Mara"}],"status":"public","abstract":[{"text":"Individuals with Down syndrome (DS) present important motor deficits that derive from altered motor development of infants and young children. DYRK1A, a candidate gene for DS abnormalities has been implicated in motor function due to its expression in motor nuclei in the adult brain, and its overexpression in DS mouse models leads to hyperactivity and altered motor learning. However, its precise role in the adult motor system, or its possible involvement in postnatal locomotor development has not yet been clarified. During the postnatal period we observed time-specific expression of Dyrk1A in discrete subsets of brainstem nuclei and spinal cord motor neurons. Interestingly, we describe for the first time the presence of Dyrk1A in the presynaptic terminal of the neuromuscular junctions and its axonal transport from the facial nucleus, suggesting a function for Dyrk1A in these structures. Relevant to DS, Dyrk1A overexpression in transgenic mice (TgDyrk1A) produces motor developmental alterations possibly contributing to DS motor phenotypes and modifies the numbers of motor cholinergic neurons, suggesting that the kinase may have a role in the development of the brainstem and spinal cord motor system.","lang":"eng"}],"scopus_import":1,"date_updated":"2021-01-12T07:00:07Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"department":[{"_id":"SiHi"}],"month":"01","year":"2013","ddc":["570"],"type":"journal_article","file":[{"date_created":"2018-12-12T10:15:38Z","checksum":"512733b21419574a45f10cabef3d7f81","file_size":4795977,"date_updated":"2020-07-14T12:45:50Z","access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_id":"5160","creator":"system","file_name":"IST-2016-407-v1+1_journal.pone.0054285.pdf"}],"oa_version":"Published Version","_id":"2838","issue":"1","publication_status":"published","pubrep_id":"407","publisher":"Public Library of Science","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"doi":"10.1371/journal.pone.0054285","file_date_updated":"2020-07-14T12:45:50Z","has_accepted_license":"1","intvolume":"         8","date_published":"2013-01-16T00:00:00Z","volume":8,"day":"16","publication":"PLoS One","title":"Dyrk1A is dynamically expressed on subsets of motor neurons and in the neuromuscular junction: Possible role in Down syndrome","publist_id":"3960","citation":{"ista":"Arquè Fuste G, Casanovas A, Dierssen M. 2013. Dyrk1A is dynamically expressed on subsets of motor neurons and in the neuromuscular junction: Possible role in Down syndrome. PLoS One. 8(1), e54285.","short":"G. Arquè Fuste, A. Casanovas, M. Dierssen, PLoS One 8 (2013).","ieee":"G. Arquè Fuste, A. Casanovas, and M. Dierssen, “Dyrk1A is dynamically expressed on subsets of motor neurons and in the neuromuscular junction: Possible role in Down syndrome,” <i>PLoS One</i>, vol. 8, no. 1. Public Library of Science, 2013.","ama":"Arquè Fuste G, Casanovas A, Dierssen M. Dyrk1A is dynamically expressed on subsets of motor neurons and in the neuromuscular junction: Possible role in Down syndrome. <i>PLoS One</i>. 2013;8(1). doi:<a href=\"https://doi.org/10.1371/journal.pone.0054285\">10.1371/journal.pone.0054285</a>","chicago":"Arquè Fuste, Gloria, Anna Casanovas, and Mara Dierssen. “Dyrk1A Is Dynamically Expressed on Subsets of Motor Neurons and in the Neuromuscular Junction: Possible Role in Down Syndrome.” <i>PLoS One</i>. Public Library of Science, 2013. <a href=\"https://doi.org/10.1371/journal.pone.0054285\">https://doi.org/10.1371/journal.pone.0054285</a>.","apa":"Arquè Fuste, G., Casanovas, A., &#38; Dierssen, M. (2013). Dyrk1A is dynamically expressed on subsets of motor neurons and in the neuromuscular junction: Possible role in Down syndrome. <i>PLoS One</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0054285\">https://doi.org/10.1371/journal.pone.0054285</a>","mla":"Arquè Fuste, Gloria, et al. “Dyrk1A Is Dynamically Expressed on Subsets of Motor Neurons and in the Neuromuscular Junction: Possible Role in Down Syndrome.” <i>PLoS One</i>, vol. 8, no. 1, e54285, Public Library of Science, 2013, doi:<a href=\"https://doi.org/10.1371/journal.pone.0054285\">10.1371/journal.pone.0054285</a>."},"date_created":"2018-12-11T11:59:52Z","quality_controlled":"1","article_number":"e54285","oa":1},{"title":"Interstitial dendritic cell guidance by haptotactic chemokine gradients","publist_id":"3959","page":"328 - 332","citation":{"ama":"Weber M, Hauschild R, Schwarz J, et al. Interstitial dendritic cell guidance by haptotactic chemokine gradients. <i>Science</i>. 2013;339(6117):328-332. doi:<a href=\"https://doi.org/10.1126/science.1228456\">10.1126/science.1228456</a>","ieee":"M. Weber <i>et al.</i>, “Interstitial dendritic cell guidance by haptotactic chemokine gradients,” <i>Science</i>, vol. 339, no. 6117. American Association for the Advancement of Science, pp. 328–332, 2013.","short":"M. Weber, R. Hauschild, J. Schwarz, C. Moussion, I. de Vries, D. Legler, S. Luther, M.T. Bollenbach, M.K. Sixt, Science 339 (2013) 328–332.","ista":"Weber M, Hauschild R, Schwarz J, Moussion C, de Vries I, Legler D, Luther S, Bollenbach MT, Sixt MK. 2013. Interstitial dendritic cell guidance by haptotactic chemokine gradients. Science. 339(6117), 328–332.","mla":"Weber, Michele, et al. “Interstitial Dendritic Cell Guidance by Haptotactic Chemokine Gradients.” <i>Science</i>, vol. 339, no. 6117, American Association for the Advancement of Science, 2013, pp. 328–32, doi:<a href=\"https://doi.org/10.1126/science.1228456\">10.1126/science.1228456</a>.","apa":"Weber, M., Hauschild, R., Schwarz, J., Moussion, C., de Vries, I., Legler, D., … Sixt, M. K. (2013). Interstitial dendritic cell guidance by haptotactic chemokine gradients. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1228456\">https://doi.org/10.1126/science.1228456</a>","chicago":"Weber, Michele, Robert Hauschild, Jan Schwarz, Christine Moussion, Ingrid de Vries, Daniel Legler, Sanjiv Luther, Mark Tobias Bollenbach, and Michael K Sixt. “Interstitial Dendritic Cell Guidance by Haptotactic Chemokine Gradients.” <i>Science</i>. American Association for the Advancement of Science, 2013. <a href=\"https://doi.org/10.1126/science.1228456\">https://doi.org/10.1126/science.1228456</a>."},"date_created":"2018-12-11T11:59:52Z","quality_controlled":"1","oa":1,"ec_funded":1,"article_processing_charge":"No","doi":"10.1126/science.1228456","intvolume":"       339","date_published":"2013-01-18T00:00:00Z","volume":339,"acknowledgement":"We thank M. Frank for technical assistance and S. Cremer, P. Schmalhorst, and E. Kiermaier for critical reading of the manuscript. This work was supported by a Humboldt Foundation postdoctoral fellowship (to M.W.), the German Research Foundation (Si1323 1,2 to M.S.), the Human Frontier Science Program (HFSP RGP0058/2011 to M.S.), the European Research Council (ERC StG 281556 to M.S.), and the Swiss National Science Foundation (31003A 127474 to D.F.L., 130488 to S.A.L.).","day":"18","publication":"Science","department":[{"_id":"MiSi"},{"_id":"Bio"}],"article_type":"original","year":"2013","month":"01","project":[{"name":"Cytoskeletal force generation and force transduction of migrating leukocytes (EU)","call_identifier":"FP7","_id":"25A603A2-B435-11E9-9278-68D0E5697425","grant_number":"281556"},{"name":"Cell migration in complex environments: from in vivo experiments to theoretical models","_id":"25ABD200-B435-11E9-9278-68D0E5697425","grant_number":"RGP0058/2011"}],"type":"journal_article","oa_version":"Published Version","issue":"6117","_id":"2839","publication_status":"published","publisher":"American Association for the Advancement of Science","author":[{"first_name":"Michele","id":"3A3FC708-F248-11E8-B48F-1D18A9856A87","last_name":"Weber","full_name":"Weber, Michele"},{"full_name":"Hauschild, Robert","last_name":"Hauschild","orcid":"0000-0001-9843-3522","first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Schwarz, Jan","last_name":"Schwarz","id":"346C1EC6-F248-11E8-B48F-1D18A9856A87","first_name":"Jan"},{"full_name":"Moussion, Christine","last_name":"Moussion","id":"3356F664-F248-11E8-B48F-1D18A9856A87","first_name":"Christine"},{"last_name":"De Vries","full_name":"De Vries, Ingrid","id":"4C7D837E-F248-11E8-B48F-1D18A9856A87","first_name":"Ingrid"},{"full_name":"Legler, Daniel","last_name":"Legler","first_name":"Daniel"},{"last_name":"Luther","full_name":"Luther, Sanjiv","first_name":"Sanjiv"},{"id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87","first_name":"Mark Tobias","orcid":"0000-0003-4398-476X","full_name":"Bollenbach, Mark Tobias","last_name":"Bollenbach"},{"last_name":"Sixt","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael K"}],"status":"public","abstract":[{"text":"Directional guidance of cells via gradients of chemokines is considered crucial for embryonic development, cancer dissemination, and immune responses. Nevertheless, the concept still lacks direct experimental confirmation in vivo. Here, we identify endogenous gradients of the chemokine CCL21 within mouse skin and show that they guide dendritic cells toward lymphatic vessels. Quantitative imaging reveals depots of CCL21 within lymphatic endothelial cells and steeply decaying gradients within the perilymphatic interstitium. These gradients match the migratory patterns of the dendritic cells, which directionally approach vessels from a distance of up to 90-micrometers. Interstitial CCL21 is immobilized to heparan sulfates, and its experimental delocalization or swamping the endogenous gradients abolishes directed migration. These findings functionally establish the concept of haptotaxis, directed migration along immobilized gradients, in tissues.","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://kops.uni-konstanz.de/bitstream/123456789/26341/2/Weber_263418.pdf"}],"scopus_import":"1","date_updated":"2022-06-10T10:21:40Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}]},{"year":"2013","month":"02","publist_id":"3958","page":"451 - 459","title":"Distinct roles of medial and lateral entorhinal cortex in spatial cognition","department":[{"_id":"JoCs"}],"publisher":"Oxford University Press","date_created":"2018-12-11T11:59:52Z","citation":{"mla":"Van Cauter, Tiffany, et al. “Distinct Roles of Medial and Lateral Entorhinal Cortex in Spatial Cognition.” <i>Cerebral Cortex</i>, vol. 23, no. 2, Oxford University Press, 2013, pp. 451–59, doi:<a href=\"https://doi.org/10.1093/cercor/bhs033\">10.1093/cercor/bhs033</a>.","chicago":"Van Cauter, Tiffany, Jeremy Camon, Alice Alvernhe, Coralie Elduayen, Francesca Sargolini, and Étienne Save. “Distinct Roles of Medial and Lateral Entorhinal Cortex in Spatial Cognition.” <i>Cerebral Cortex</i>. Oxford University Press, 2013. <a href=\"https://doi.org/10.1093/cercor/bhs033\">https://doi.org/10.1093/cercor/bhs033</a>.","apa":"Van Cauter, T., Camon, J., Alvernhe, A., Elduayen, C., Sargolini, F., &#38; Save, É. (2013). Distinct roles of medial and lateral entorhinal cortex in spatial cognition. <i>Cerebral Cortex</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/cercor/bhs033\">https://doi.org/10.1093/cercor/bhs033</a>","short":"T. Van Cauter, J. Camon, A. Alvernhe, C. Elduayen, F. Sargolini, É. Save, Cerebral Cortex 23 (2013) 451–459.","ieee":"T. Van Cauter, J. Camon, A. Alvernhe, C. Elduayen, F. Sargolini, and É. Save, “Distinct roles of medial and lateral entorhinal cortex in spatial cognition,” <i>Cerebral Cortex</i>, vol. 23, no. 2. Oxford University Press, pp. 451–459, 2013.","ista":"Van Cauter T, Camon J, Alvernhe A, Elduayen C, Sargolini F, Save É. 2013. Distinct roles of medial and lateral entorhinal cortex in spatial cognition. Cerebral Cortex. 23(2), 451–459.","ama":"Van Cauter T, Camon J, Alvernhe A, Elduayen C, Sargolini F, Save É. Distinct roles of medial and lateral entorhinal cortex in spatial cognition. <i>Cerebral Cortex</i>. 2013;23(2):451-459. doi:<a href=\"https://doi.org/10.1093/cercor/bhs033\">10.1093/cercor/bhs033</a>"},"type":"journal_article","oa_version":"None","_id":"2840","issue":"2","publication_status":"published","quality_controlled":"1","doi":"10.1093/cercor/bhs033","author":[{"full_name":"Van Cauter, Tiffany","last_name":"Van Cauter","first_name":"Tiffany"},{"first_name":"Jeremy","full_name":"Camon, Jeremy","last_name":"Camon"},{"full_name":"Alvernhe, Alice","last_name":"Alvernhe","first_name":"Alice","id":"467FB3D4-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Elduayen","full_name":"Elduayen, Coralie","first_name":"Coralie"},{"first_name":"Francesca","full_name":"Sargolini, Francesca","last_name":"Sargolini"},{"first_name":"Étienne","full_name":"Save, Étienne","last_name":"Save"}],"status":"public","date_updated":"2021-01-12T07:00:08Z","volume":23,"day":"01","publication":"Cerebral Cortex","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"It is known that the entorhinal cortex plays a crucial role in spatial cognition in rodents. Neuroanatomical and electrophysiological data suggest that there is a functional distinction between 2 subregions within the entorhinal cortex, the medial entorhinal cortex (MEC), and the lateral entorhinal cortex (LEC). Rats with MEC or LEC lesions were trained in 2 navigation tasks requiring allothetic (water maze task) or idiothetic (path integration) information processing and 2-object exploration tasks allowing testing of spatial and nonspatial processing of intramaze objects. MEC lesions mildly affected place navigation in the water maze and produced a path integration deficit. They also altered the processing of spatial information in both exploration tasks while sparing the processing of nonspatial information. LEC lesions did not affect navigation abilities in both the water maze and the path integration tasks. They altered spatial and nonspatial processing in the object exploration task but not in the one-trial recognition task. Overall, these results indicate that the MEC is important for spatial processing and path integration. The LEC has some influence on both spatial and nonspatial processes, suggesting that the 2 kinds of information interact at the level of the EC."}],"intvolume":"        23","scopus_import":1,"date_published":"2013-02-01T00:00:00Z"},{"doi":"10.1016/j.devcel.2013.03.007","status":"public","author":[{"first_name":"Hitoshi","id":"4C6E54C6-F248-11E8-B48F-1D18A9856A87","last_name":"Morita","full_name":"Morita, Hitoshi"},{"orcid":"0000-0002-0912-4566","full_name":"Heisenberg, Carl-Philipp J","last_name":"Heisenberg","id":"39427864-F248-11E8-B48F-1D18A9856A87","first_name":"Carl-Philipp J"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"day":"25","publication":"Developmental Cell","date_updated":"2021-01-12T07:00:09Z","volume":24,"date_published":"2013-05-25T00:00:00Z","scopus_import":1,"intvolume":"        24","abstract":[{"lang":"eng","text":"In zebrafish early development, blastoderm cells undergo extensive radial intercalations, triggering the spreading of the blastoderm over the yolk cell and thereby initiating embryonic body axis formation. Now reporting in Developmental Cell, Song et al. (2013) demonstrate a critical function for EGF-dependent E-cadherin endocytosis in promoting blastoderm cell intercalations."}],"page":"567 - 569","publist_id":"3956","year":"2013","month":"05","department":[{"_id":"CaHe"}],"title":"Holding on and letting go: Cadherin turnover in cell intercalation","publisher":"Cell Press","publication_status":"published","quality_controlled":"1","_id":"2841","issue":"6","type":"journal_article","oa_version":"None","citation":{"ieee":"H. Morita and C.-P. J. Heisenberg, “Holding on and letting go: Cadherin turnover in cell intercalation,” <i>Developmental Cell</i>, vol. 24, no. 6. Cell Press, pp. 567–569, 2013.","ista":"Morita H, Heisenberg C-PJ. 2013. Holding on and letting go: Cadherin turnover in cell intercalation. Developmental Cell. 24(6), 567–569.","short":"H. Morita, C.-P.J. Heisenberg, Developmental Cell 24 (2013) 567–569.","ama":"Morita H, Heisenberg C-PJ. Holding on and letting go: Cadherin turnover in cell intercalation. <i>Developmental Cell</i>. 2013;24(6):567-569. doi:<a href=\"https://doi.org/10.1016/j.devcel.2013.03.007\">10.1016/j.devcel.2013.03.007</a>","mla":"Morita, Hitoshi, and Carl-Philipp J. Heisenberg. “Holding on and Letting Go: Cadherin Turnover in Cell Intercalation.” <i>Developmental Cell</i>, vol. 24, no. 6, Cell Press, 2013, pp. 567–69, doi:<a href=\"https://doi.org/10.1016/j.devcel.2013.03.007\">10.1016/j.devcel.2013.03.007</a>.","chicago":"Morita, Hitoshi, and Carl-Philipp J Heisenberg. “Holding on and Letting Go: Cadherin Turnover in Cell Intercalation.” <i>Developmental Cell</i>. Cell Press, 2013. <a href=\"https://doi.org/10.1016/j.devcel.2013.03.007\">https://doi.org/10.1016/j.devcel.2013.03.007</a>.","apa":"Morita, H., &#38; Heisenberg, C.-P. J. (2013). Holding on and letting go: Cadherin turnover in cell intercalation. <i>Developmental Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.devcel.2013.03.007\">https://doi.org/10.1016/j.devcel.2013.03.007</a>"},"date_created":"2018-12-11T11:59:52Z"},{"file_date_updated":"2020-07-14T12:45:50Z","doi":"10.1016/j.tpb.2013.03.001","ec_funded":1,"publication":"Theoretical Population Biology","day":"01","volume":87,"date_published":"2013-08-01T00:00:00Z","has_accepted_license":"1","intvolume":"        87","publist_id":"3953","page":"105 - 119","title":"Inference in two dimensions: Allele frequencies versus lengths of shared sequence blocks","oa":1,"quality_controlled":"1","date_created":"2018-12-11T11:59:53Z","citation":{"mla":"Barton, Nicholas H., et al. “Inference in Two Dimensions: Allele Frequencies versus Lengths of Shared Sequence Blocks.” <i>Theoretical Population Biology</i>, vol. 87, no. 1, Elsevier, 2013, pp. 105–19, doi:<a href=\"https://doi.org/10.1016/j.tpb.2013.03.001\">10.1016/j.tpb.2013.03.001</a>.","chicago":"Barton, Nicholas H, Alison Etheridge, Jerome Kelleher, and Amandine Véber. “Inference in Two Dimensions: Allele Frequencies versus Lengths of Shared Sequence Blocks.” <i>Theoretical Population Biology</i>. Elsevier, 2013. <a href=\"https://doi.org/10.1016/j.tpb.2013.03.001\">https://doi.org/10.1016/j.tpb.2013.03.001</a>.","apa":"Barton, N. H., Etheridge, A., Kelleher, J., &#38; Véber, A. (2013). Inference in two dimensions: Allele frequencies versus lengths of shared sequence blocks. <i>Theoretical Population Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tpb.2013.03.001\">https://doi.org/10.1016/j.tpb.2013.03.001</a>","ieee":"N. H. Barton, A. Etheridge, J. Kelleher, and A. Véber, “Inference in two dimensions: Allele frequencies versus lengths of shared sequence blocks,” <i>Theoretical Population Biology</i>, vol. 87, no. 1. Elsevier, pp. 105–119, 2013.","short":"N.H. Barton, A. Etheridge, J. Kelleher, A. Véber, Theoretical Population Biology 87 (2013) 105–119.","ista":"Barton NH, Etheridge A, Kelleher J, Véber A. 2013. Inference in two dimensions: Allele frequencies versus lengths of shared sequence blocks. Theoretical Population Biology. 87(1), 105–119.","ama":"Barton NH, Etheridge A, Kelleher J, Véber A. Inference in two dimensions: Allele frequencies versus lengths of shared sequence blocks. <i>Theoretical Population Biology</i>. 2013;87(1):105-119. doi:<a href=\"https://doi.org/10.1016/j.tpb.2013.03.001\">10.1016/j.tpb.2013.03.001</a>"},"status":"public","author":[{"last_name":"Barton","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas H"},{"first_name":"Alison","last_name":"Etheridge","full_name":"Etheridge, Alison"},{"first_name":"Jerome","last_name":"Kelleher","full_name":"Kelleher, Jerome"},{"last_name":"Véber","full_name":"Véber, Amandine","first_name":"Amandine"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"date_updated":"2021-01-12T07:00:09Z","scopus_import":1,"abstract":[{"text":"We outline two approaches to inference of neighbourhood size, N, and dispersal rate, σ2, based on either allele frequencies or on the lengths of sequence blocks that are shared between genomes. Over intermediate timescales (10-100 generations, say), populations that live in two dimensions approach a quasi-equilibrium that is independent of both their local structure and their deeper history. Over such scales, the standardised covariance of allele frequencies (i.e. pairwise FS T) falls with the logarithm of distance, and depends only on neighbourhood size, N, and a 'local scale', κ; the rate of gene flow, σ2, cannot be inferred. We show how spatial correlations can be accounted for, assuming a Gaussian distribution of allele frequencies, giving maximum likelihood estimates of N and κ. Alternatively, inferences can be based on the distribution of the lengths of sequence that are identical between blocks of genomes: long blocks (&gt;0.1 cM, say) tell us about intermediate timescales, over which we assume a quasi-equilibrium. For large neighbourhood size, the distribution of long blocks is given directly by the classical Wright-Malécot formula; this relationship can be used to infer both N and σ2. With small neighbourhood size, there is an appreciable chance that recombinant lineages will coalesce back before escaping into the distant past. For this case, we show that if genomes are sampled from some distance apart, then the distribution of lengths of blocks that are identical in state is geometric, with a mean that depends on N and σ2.","lang":"eng"}],"project":[{"_id":"25B07788-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Limits to selection in biology and in evolutionary computation","grant_number":"250152"}],"month":"08","year":"2013","department":[{"_id":"NiBa"}],"publisher":"Elsevier","pubrep_id":"558","publication_status":"published","_id":"2842","issue":"1","type":"journal_article","oa_version":"Submitted Version","ddc":["570"],"file":[{"date_updated":"2020-07-14T12:45:50Z","access_level":"open_access","content_type":"application/pdf","date_created":"2018-12-12T10:17:33Z","file_size":1554712,"checksum":"9bf9d9a6fd03dd9df50906891f393bf8","file_name":"IST-2016-558-v1+1_inference_revised3101NB.pdf","relation":"main_file","file_id":"5288","creator":"system"},{"checksum":"2bceddb76edacd0cd5fad73051e2a928","file_size":822964,"date_created":"2018-12-12T10:17:34Z","access_level":"open_access","content_type":"application/pdf","date_updated":"2020-07-14T12:45:50Z","file_id":"5289","creator":"system","relation":"main_file","file_name":"IST-2016-558-v1+2_inference_revised3101NBApp.pdf"}]},{"month":"02","year":"2013","publist_id":"3952","page":"XV - XIX","title":"Stable length estimates of tube-like shapes","department":[{"_id":"HeEd"}],"publisher":"Springer","date_created":"2018-12-11T11:59:53Z","citation":{"mla":"Edelsbrunner, Herbert, and Florian Pausinger. “Stable Length Estimates of Tube-like Shapes.” <i>17th IAPR International Conference on Discrete Geometry for Computer Imagery</i>, vol. 7749, Springer, 2013, pp. XV–XIX, doi:<a href=\"https://doi.org/10.1007/978-3-642-37067-0\">10.1007/978-3-642-37067-0</a>.","chicago":"Edelsbrunner, Herbert, and Florian Pausinger. “Stable Length Estimates of Tube-like Shapes.” In <i>17th IAPR International Conference on Discrete Geometry for Computer Imagery</i>, 7749:XV–XIX. Springer, 2013. <a href=\"https://doi.org/10.1007/978-3-642-37067-0\">https://doi.org/10.1007/978-3-642-37067-0</a>.","apa":"Edelsbrunner, H., &#38; Pausinger, F. (2013). Stable length estimates of tube-like shapes. In <i>17th IAPR International Conference on Discrete Geometry for Computer Imagery</i> (Vol. 7749, pp. XV–XIX). Seville, Spain: Springer. <a href=\"https://doi.org/10.1007/978-3-642-37067-0\">https://doi.org/10.1007/978-3-642-37067-0</a>","ieee":"H. Edelsbrunner and F. Pausinger, “Stable length estimates of tube-like shapes,” in <i>17th IAPR International Conference on Discrete Geometry for Computer Imagery</i>, Seville, Spain, 2013, vol. 7749, pp. XV–XIX.","ista":"Edelsbrunner H, Pausinger F. 2013. Stable length estimates of tube-like shapes. 17th IAPR International Conference on Discrete Geometry for Computer Imagery. DGCI: Discrete Geometry for Computer Imagery, LNCS, vol. 7749, XV–XIX.","short":"H. Edelsbrunner, F. Pausinger, in:, 17th IAPR International Conference on Discrete Geometry for Computer Imagery, Springer, 2013, pp. XV–XIX.","ama":"Edelsbrunner H, Pausinger F. Stable length estimates of tube-like shapes. In: <i>17th IAPR International Conference on Discrete Geometry for Computer Imagery</i>. Vol 7749. Springer; 2013:XV-XIX. doi:<a href=\"https://doi.org/10.1007/978-3-642-37067-0\">10.1007/978-3-642-37067-0</a>"},"type":"conference","oa_version":"None","_id":"2843","conference":{"end_date":"2013-03-22","location":"Seville, Spain","name":"DGCI: Discrete Geometry for Computer Imagery","start_date":"2013-03-20"},"quality_controlled":"1","alternative_title":["LNCS"],"publication_status":"published","doi":"10.1007/978-3-642-37067-0","author":[{"orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","full_name":"Edelsbrunner, Herbert","first_name":"Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Pausinger, Florian","last_name":"Pausinger","orcid":"0000-0002-8379-3768","id":"2A77D7A2-F248-11E8-B48F-1D18A9856A87","first_name":"Florian"}],"status":"public","volume":7749,"date_updated":"2023-02-23T10:35:00Z","publication":"17th IAPR International Conference on Discrete Geometry for Computer Imagery","day":"21","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"abstract":[{"text":"Mathematical objects can be measured unambiguously, but not so objects from our physical world. Even the total length of tubelike shapes has its difficulties. We introduce a combination of geometric, probabilistic, and topological methods to design a stable length estimate for tube-like shapes; that is: one that is insensitive to small shape changes.","lang":"eng"}],"related_material":{"record":[{"id":"2255","status":"public","relation":"later_version"}]},"intvolume":"      7749","date_published":"2013-02-21T00:00:00Z","scopus_import":1},{"date_published":"2013-05-06T00:00:00Z","scopus_import":1,"intvolume":"        23","abstract":[{"text":"As soon as a seed germinates, plant growth relates to gravity to ensure that the root penetrates the soil and the shoot expands aerially. Whereas mechanisms of positive and negative orthogravitropism of primary roots and shoots are relatively well understood [1-3], lateral organs often show more complex growth behavior [4]. Lateral roots (LRs) seemingly suppress positive gravitropic growth and show a defined gravitropic set-point angle (GSA) that allows radial expansion of the root system (plagiotropism) [3, 4]. Despite its eminent importance for root architecture, it so far remains completely unknown how lateral organs partially suppress positive orthogravitropism. Here we show that the phytohormone auxin steers GSA formation and limits positive orthogravitropism in LR. Low and high auxin levels/signaling lead to radial or axial root systems, respectively. At a cellular level, it is the auxin transport-dependent regulation of asymmetric growth in the elongation zone that determines GSA. Our data suggest that strong repression of PIN4/PIN7 and transient PIN3 expression limit auxin redistribution in young LR columella cells. We conclude that PIN activity, by temporally limiting the asymmetric auxin fluxes in the tip of LRs, induces transient, differential growth responses in the elongation zone and, consequently, controls root architecture.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"publication":"Current Biology","day":"06","date_updated":"2021-01-12T07:00:10Z","volume":23,"status":"public","author":[{"first_name":"Michel","last_name":"Rosquete","full_name":"Rosquete, Michel"},{"full_name":"Von Wangenheim, Daniel","last_name":"Von Wangenheim","orcid":"0000-0002-6862-1247","first_name":"Daniel","id":"49E91952-F248-11E8-B48F-1D18A9856A87"},{"id":"3F45B078-F248-11E8-B48F-1D18A9856A87","first_name":"Peter","orcid":"0000-0001-5227-5741","full_name":"Marhavy, Peter","last_name":"Marhavy"},{"last_name":"Barbez","full_name":"Barbez, Elke","first_name":"Elke"},{"first_name":"Ernst","full_name":"Stelzer, Ernst","last_name":"Stelzer"},{"id":"38F4F166-F248-11E8-B48F-1D18A9856A87","first_name":"Eva","orcid":"0000-0002-8510-9739","last_name":"Benková","full_name":"Benková, Eva"},{"first_name":"Alexis","last_name":"Maizel","full_name":"Maizel, Alexis"},{"last_name":"Kleine Vehn","full_name":"Kleine Vehn, Jürgen","first_name":"Jürgen"}],"ec_funded":1,"doi":"10.1016/j.cub.2013.03.064","publication_status":"published","quality_controlled":"1","issue":"9","_id":"2844","oa_version":"None","type":"journal_article","date_created":"2018-12-11T11:59:53Z","citation":{"mla":"Rosquete, Michel, et al. “An Auxin Transport Mechanism Restricts Positive Orthogravitropism in Lateral Roots.” <i>Current Biology</i>, vol. 23, no. 9, Cell Press, 2013, pp. 817–22, doi:<a href=\"https://doi.org/10.1016/j.cub.2013.03.064\">10.1016/j.cub.2013.03.064</a>.","apa":"Rosquete, M., von Wangenheim, D., Marhavý, P., Barbez, E., Stelzer, E., Benková, E., … Kleine Vehn, J. (2013). An auxin transport mechanism restricts positive orthogravitropism in lateral roots. <i>Current Biology</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cub.2013.03.064\">https://doi.org/10.1016/j.cub.2013.03.064</a>","chicago":"Rosquete, Michel, Daniel von Wangenheim, Peter Marhavý, Elke Barbez, Ernst Stelzer, Eva Benková, Alexis Maizel, and Jürgen Kleine Vehn. “An Auxin Transport Mechanism Restricts Positive Orthogravitropism in Lateral Roots.” <i>Current Biology</i>. Cell Press, 2013. <a href=\"https://doi.org/10.1016/j.cub.2013.03.064\">https://doi.org/10.1016/j.cub.2013.03.064</a>.","ama":"Rosquete M, von Wangenheim D, Marhavý P, et al. An auxin transport mechanism restricts positive orthogravitropism in lateral roots. <i>Current Biology</i>. 2013;23(9):817-822. doi:<a href=\"https://doi.org/10.1016/j.cub.2013.03.064\">10.1016/j.cub.2013.03.064</a>","short":"M. Rosquete, D. von Wangenheim, P. Marhavý, E. Barbez, E. Stelzer, E. Benková, A. Maizel, J. Kleine Vehn, Current Biology 23 (2013) 817–822.","ieee":"M. Rosquete <i>et al.</i>, “An auxin transport mechanism restricts positive orthogravitropism in lateral roots,” <i>Current Biology</i>, vol. 23, no. 9. Cell Press, pp. 817–822, 2013.","ista":"Rosquete M, von Wangenheim D, Marhavý P, Barbez E, Stelzer E, Benková E, Maizel A, Kleine Vehn J. 2013. An auxin transport mechanism restricts positive orthogravitropism in lateral roots. Current Biology. 23(9), 817–822."},"publisher":"Cell Press","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"title":"An auxin transport mechanism restricts positive orthogravitropism in lateral roots","page":"817 - 822","publist_id":"3950","project":[{"grant_number":"207362","_id":"253FCA6A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Hormonal cross-talk in plant organogenesis"}],"year":"2013","month":"05"},{"doi":"10.1016/j.neuron.2013.01.021","status":"public","author":[{"full_name":"Rose, Tobias","last_name":"Rose","first_name":"Tobias"},{"id":"3B9D816C-F248-11E8-B48F-1D18A9856A87","first_name":"Philipp","last_name":"Schönenberger","full_name":"Schönenberger, Philipp"},{"full_name":"Jezek, Karel","last_name":"Jezek","first_name":"Karel"},{"full_name":"Oertner, Thomas","last_name":"Oertner","first_name":"Thomas"}],"language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"20","publication":"Neuron","volume":77,"date_updated":"2021-01-12T07:00:11Z","date_published":"2013-03-20T00:00:00Z","scopus_import":1,"intvolume":"        77","abstract":[{"text":"At synapses formed between dissociated neurons, about half of all synaptic vesicles are refractory to evoked release, forming the so-called &quot;resting pool.&quot; Here, we use optical measurements of vesicular pH to study developmental changes in pool partitioning and vesicle cycling in cultured hippocampal slices. Two-photon imaging of a genetically encoded two-color release sensor (ratio-sypHy) allowed us to perform calibrated measurements at individual Schaffer collateral boutons. Mature boutons released a large fraction of their vesicles during simulated place field activity, and vesicle retrieval rates were 7-fold higher compared to immature boutons. Saturating stimulation mobilized essentially all vesicles at mature synapses. Resting pool formation and a concomitant reduction in evoked release was induced by chronic depolarization but not by acute inhibition of the protein phosphatase calcineurin. We conclude that synapses in CA1 undergo a prominent refinement of vesicle use during early postnatal development that is not recapitulated in dissociated neuronal culture.","lang":"eng"}],"page":"1109 - 1121","publist_id":"3949","month":"03","year":"2013","department":[{"_id":"JoCs"}],"title":"Developmental refinement of vesicle cycling at Schaffer collateral synapses","publisher":"Elsevier","quality_controlled":"1","publication_status":"published","issue":"6","_id":"2845","oa_version":"None","type":"journal_article","date_created":"2018-12-11T11:59:54Z","citation":{"ama":"Rose T, Schönenberger P, Jezek K, Oertner T. Developmental refinement of vesicle cycling at Schaffer collateral synapses. <i>Neuron</i>. 2013;77(6):1109-1121. doi:<a href=\"https://doi.org/10.1016/j.neuron.2013.01.021\">10.1016/j.neuron.2013.01.021</a>","short":"T. Rose, P. Schönenberger, K. Jezek, T. Oertner, Neuron 77 (2013) 1109–1121.","ieee":"T. Rose, P. Schönenberger, K. Jezek, and T. Oertner, “Developmental refinement of vesicle cycling at Schaffer collateral synapses,” <i>Neuron</i>, vol. 77, no. 6. Elsevier, pp. 1109–1121, 2013.","ista":"Rose T, Schönenberger P, Jezek K, Oertner T. 2013. Developmental refinement of vesicle cycling at Schaffer collateral synapses. Neuron. 77(6), 1109–1121.","mla":"Rose, Tobias, et al. “Developmental Refinement of Vesicle Cycling at Schaffer Collateral Synapses.” <i>Neuron</i>, vol. 77, no. 6, Elsevier, 2013, pp. 1109–21, doi:<a href=\"https://doi.org/10.1016/j.neuron.2013.01.021\">10.1016/j.neuron.2013.01.021</a>.","apa":"Rose, T., Schönenberger, P., Jezek, K., &#38; Oertner, T. (2013). Developmental refinement of vesicle cycling at Schaffer collateral synapses. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2013.01.021\">https://doi.org/10.1016/j.neuron.2013.01.021</a>","chicago":"Rose, Tobias, Philipp Schönenberger, Karel Jezek, and Thomas Oertner. “Developmental Refinement of Vesicle Cycling at Schaffer Collateral Synapses.” <i>Neuron</i>. Elsevier, 2013. <a href=\"https://doi.org/10.1016/j.neuron.2013.01.021\">https://doi.org/10.1016/j.neuron.2013.01.021</a>."}},{"title":"Structural Counter Abstraction","publist_id":"3947","page":"62 - 77","quality_controlled":"1","conference":{"location":"Rome, Italy","end_date":"2013-03-24","name":"TACAS: Tools and Algorithms for the Construction and Analysis of Systems","start_date":"2013-03-16"},"citation":{"mla":"Bansal, Kshitij, et al. <i>Structural Counter Abstraction</i>. Edited by Nir Piterman and Scott Smolka, vol. 7795, Springer, 2013, pp. 62–77, doi:<a href=\"https://doi.org/10.1007/978-3-642-36742-7_5\">10.1007/978-3-642-36742-7_5</a>.","apa":"Bansal, K., Koskinen, E., Wies, T., &#38; Zufferey, D. (2013). Structural Counter Abstraction. (N. Piterman &#38; S. Smolka, Eds.). Presented at the TACAS: Tools and Algorithms for the Construction and Analysis of Systems, Rome, Italy: Springer. <a href=\"https://doi.org/10.1007/978-3-642-36742-7_5\">https://doi.org/10.1007/978-3-642-36742-7_5</a>","chicago":"Bansal, Kshitij, Eric Koskinen, Thomas Wies, and Damien Zufferey. “Structural Counter Abstraction.” Edited by Nir Piterman and Scott Smolka. Lecture Notes in Computer Science. Springer, 2013. <a href=\"https://doi.org/10.1007/978-3-642-36742-7_5\">https://doi.org/10.1007/978-3-642-36742-7_5</a>.","ama":"Bansal K, Koskinen E, Wies T, Zufferey D. Structural Counter Abstraction. Piterman N, Smolka S, eds. 2013;7795:62-77. doi:<a href=\"https://doi.org/10.1007/978-3-642-36742-7_5\">10.1007/978-3-642-36742-7_5</a>","ieee":"K. Bansal, E. Koskinen, T. Wies, and D. Zufferey, “Structural Counter Abstraction,” vol. 7795. Springer, pp. 62–77, 2013.","ista":"Bansal K, Koskinen E, Wies T, Zufferey D. 2013. Structural Counter Abstraction (eds. N. Piterman &#38; S. Smolka). 7795, 62–77.","short":"K. Bansal, E. Koskinen, T. Wies, D. Zufferey, 7795 (2013) 62–77."},"date_created":"2018-12-11T11:59:54Z","oa":1,"ec_funded":1,"doi":"10.1007/978-3-642-36742-7_5","date_published":"2013-03-01T00:00:00Z","editor":[{"first_name":"Nir","full_name":"Piterman, Nir","last_name":"Piterman"},{"first_name":"Scott","last_name":"Smolka","full_name":"Smolka, Scott"}],"intvolume":"      7795","day":"01","volume":7795,"department":[{"_id":"ToHe"}],"project":[{"grant_number":"267989","_id":"25EE3708-B435-11E9-9278-68D0E5697425","name":"Quantitative Reactive Modeling","call_identifier":"FP7"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering","call_identifier":"FWF","grant_number":"S 11407_N23"}],"year":"2013","month":"03","publication_status":"published","alternative_title":["LNCS"],"_id":"2847","type":"conference","oa_version":"Submitted Version","publisher":"Springer","status":"public","author":[{"first_name":"Kshitij","last_name":"Bansal","full_name":"Bansal, Kshitij"},{"last_name":"Koskinen","full_name":"Koskinen, Eric","first_name":"Eric"},{"id":"447BFB88-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas","full_name":"Wies, Thomas","last_name":"Wies"},{"last_name":"Zufferey","full_name":"Zufferey, Damien","orcid":"0000-0002-3197-8736","first_name":"Damien","id":"4397AC76-F248-11E8-B48F-1D18A9856A87"}],"scopus_import":1,"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"1405"}]},"main_file_link":[{"open_access":"1","url":"http://arise.or.at/pubpdf/Structural_Counter_Abstraction.pdf"}],"abstract":[{"text":"Depth-Bounded Systems form an expressive class of well-structured transition systems. They can model a wide range of concurrent infinite-state systems including those with dynamic thread creation, dynamically changing communication topology, and complex shared heap structures. We present the first method to automatically prove fair termination of depth-bounded systems. Our method uses a numerical abstraction of the system, which we obtain by systematically augmenting an over-approximation of the system’s reachable states with a finite set of counters. This numerical abstraction can be analyzed with existing termination provers. What makes our approach unique is the way in which it exploits the well-structuredness of the analyzed system. We have implemented our work in a prototype tool and used it to automatically prove liveness properties of complex concurrent systems, including nonblocking algorithms such as Treiber’s stack and several distributed processes. Many of these examples are beyond the scope of termination analyses that are based on traditional counter abstractions.","lang":"eng"}],"language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-09-07T11:36:36Z","series_title":"Lecture Notes in Computer Science"}]