[{"abstract":[{"text":"We prove general topological Radon-type theorems for sets in ℝ^d, smooth real manifolds or finite dimensional simplicial complexes. Combined with a recent result of Holmsen and Lee, it gives fractional Helly theorem, and consequently the existence of weak ε-nets as well as a (p,q)-theorem. More precisely: Let X be either ℝ^d, smooth real d-manifold, or a finite d-dimensional simplicial complex. Then if F is a finite, intersection-closed family of sets in X such that the ith reduced Betti number (with ℤ₂ coefficients) of any set in F is at most b for every non-negative integer i less or equal to k, then the Radon number of F is bounded in terms of b and X. Here k is the smallest integer larger or equal to d/2 - 1 if X = ℝ^d; k=d-1 if X is a smooth real d-manifold and not a surface, k=0 if X is a surface and k=d if X is a d-dimensional simplicial complex. Using the recent result of the author and Kalai, we manage to prove the following optimal bound on fractional Helly number for families of open sets in a surface: Let F be a finite family of open sets in a surface S such that the intersection of any subfamily of F is either empty, or path-connected. Then the fractional Helly number of F is at most three. This also settles a conjecture of Holmsen, Kim, and Lee about an existence of a (p,q)-theorem for open subsets of a surface.","lang":"eng"}],"scopus_import":"1","arxiv":1,"file_date_updated":"2020-07-14T12:48:06Z","type":"conference","publication_identifier":{"isbn":["9783959771436"],"issn":["18688969"]},"citation":{"chicago":"Patakova, Zuzana. “Bounding Radon Number via Betti Numbers.” In <i>36th International Symposium on Computational Geometry</i>, Vol. 164. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.61\">https://doi.org/10.4230/LIPIcs.SoCG.2020.61</a>.","ista":"Patakova Z. 2020. Bounding radon number via Betti numbers. 36th International Symposium on Computational Geometry. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 164, 61:1-61:13.","short":"Z. Patakova, in:, 36th International Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020.","ieee":"Z. Patakova, “Bounding radon number via Betti numbers,” in <i>36th International Symposium on Computational Geometry</i>, Zürich, Switzerland, 2020, vol. 164.","ama":"Patakova Z. Bounding radon number via Betti numbers. In: <i>36th International Symposium on Computational Geometry</i>. Vol 164. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2020. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.61\">10.4230/LIPIcs.SoCG.2020.61</a>","mla":"Patakova, Zuzana. “Bounding Radon Number via Betti Numbers.” <i>36th International Symposium on Computational Geometry</i>, vol. 164, 61:1-61:13, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.61\">10.4230/LIPIcs.SoCG.2020.61</a>.","apa":"Patakova, Z. (2020). Bounding radon number via Betti numbers. In <i>36th International Symposium on Computational Geometry</i> (Vol. 164). Zürich, Switzerland: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.61\">https://doi.org/10.4230/LIPIcs.SoCG.2020.61</a>"},"quality_controlled":"1","_id":"7989","publication_status":"published","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","has_accepted_license":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"full_name":"Patakova, Zuzana","orcid":"0000-0002-3975-1683","last_name":"Patakova","first_name":"Zuzana","id":"48B57058-F248-11E8-B48F-1D18A9856A87"}],"title":"Bounding radon number via Betti numbers","file":[{"date_updated":"2020-07-14T12:48:06Z","date_created":"2020-06-23T06:56:23Z","file_name":"2020_LIPIcsSoCG_Patakova_61.pdf","relation":"main_file","checksum":"d0996ca5f6eb32ce955ce782b4f2afbe","access_level":"open_access","creator":"dernst","file_size":645421,"content_type":"application/pdf","file_id":"8005"}],"department":[{"_id":"UlWa"}],"article_processing_charge":"No","language":[{"iso":"eng"}],"volume":164,"status":"public","day":"01","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"ddc":["510"],"date_created":"2020-06-22T09:14:18Z","publication":"36th International Symposium on Computational Geometry","doi":"10.4230/LIPIcs.SoCG.2020.61","oa_version":"Published Version","article_number":"61:1-61:13","date_published":"2020-06-01T00:00:00Z","alternative_title":["LIPIcs"],"intvolume":"       164","month":"06","oa":1,"date_updated":"2021-01-12T08:16:22Z","license":"https://creativecommons.org/licenses/by/4.0/","conference":{"location":"Zürich, Switzerland","end_date":"2020-06-26","start_date":"2020-06-22","name":"SoCG: Symposium on Computational Geometry"},"external_id":{"arxiv":["1908.01677"]},"year":"2020"},{"year":"2020","conference":{"name":"SoCG: Symposium on Computational Geometry","start_date":"2020-06-22","end_date":"2020-06-26","location":"Zürich, Switzerland"},"external_id":{"arxiv":["2003.13557"]},"oa":1,"date_updated":"2023-08-04T08:51:07Z","article_number":"67:1 - 67:16","alternative_title":["LIPIcs"],"date_published":"2020-06-01T00:00:00Z","intvolume":"       164","month":"06","oa_version":"Published Version","related_material":{"record":[{"relation":"later_version","status":"public","id":"12129"}]},"publication":"36th International Symposium on Computational Geometry","doi":"10.4230/LIPIcs.SoCG.2020.67","day":"01","status":"public","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2020-06-22T09:14:19Z","ddc":["510"],"volume":164,"language":[{"iso":"eng"}],"department":[{"_id":"UlWa"}],"article_processing_charge":"No","title":"Connectivity of triangulation flip graphs in the plane (Part II: Bistellar flips)","author":[{"first_name":"Uli","id":"36690CA2-F248-11E8-B48F-1D18A9856A87","last_name":"Wagner","orcid":"0000-0002-1494-0568","full_name":"Wagner, Uli"},{"first_name":"Emo","last_name":"Welzl","full_name":"Welzl, Emo"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"creator":"dernst","file_size":793187,"file_id":"8003","content_type":"application/pdf","relation":"main_file","checksum":"3f6925be5f3dcdb3b14cab92f410edf7","access_level":"open_access","file_name":"2020_LIPIcsSoCG_Wagner.pdf","date_created":"2020-06-23T06:37:27Z","date_updated":"2020-07-14T12:48:06Z"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","has_accepted_license":"1","publication_status":"published","quality_controlled":"1","_id":"7990","abstract":[{"text":"Given a finite point set P in general position in the plane, a full triangulation is a maximal straight-line embedded plane graph on P. A partial triangulation on P is a full triangulation of some subset P' of P containing all extreme points in P. A bistellar flip on a partial triangulation either flips an edge, removes a non-extreme point of degree 3, or adds a point in P ⧵ P' as vertex of degree 3. The bistellar flip graph has all partial triangulations as vertices, and a pair of partial triangulations is adjacent if they can be obtained from one another by a bistellar flip. The goal of this paper is to investigate the structure of this graph, with emphasis on its connectivity. For sets P of n points in general position, we show that the bistellar flip graph is (n-3)-connected, thereby answering, for sets in general position, an open questions raised in a book (by De Loera, Rambau, and Santos) and a survey (by Lee and Santos) on triangulations. This matches the situation for the subfamily of regular triangulations (i.e., partial triangulations obtained by lifting the points and projecting the lower convex hull), where (n-3)-connectivity has been known since the late 1980s through the secondary polytope (Gelfand, Kapranov, Zelevinsky) and Balinski’s Theorem. Our methods also yield the following results (see the full version [Wagner and Welzl, 2020]): (i) The bistellar flip graph can be covered by graphs of polytopes of dimension n-3 (products of secondary polytopes). (ii) A partial triangulation is regular, if it has distance n-3 in the Hasse diagram of the partial order of partial subdivisions from the trivial subdivision. (iii) All partial triangulations are regular iff the trivial subdivision has height n-3 in the partial order of partial subdivisions. (iv) There are arbitrarily large sets P with non-regular partial triangulations, while every proper subset has only regular triangulations, i.e., there are no small certificates for the existence of non-regular partial triangulations (answering a question by F. Santos in the unexpected direction).","lang":"eng"}],"arxiv":1,"scopus_import":1,"file_date_updated":"2020-07-14T12:48:06Z","type":"conference","citation":{"mla":"Wagner, Uli, and Emo Welzl. “Connectivity of Triangulation Flip Graphs in the Plane (Part II: Bistellar Flips).” <i>36th International Symposium on Computational Geometry</i>, vol. 164, 67:1-67:16, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.67\">10.4230/LIPIcs.SoCG.2020.67</a>.","apa":"Wagner, U., &#38; Welzl, E. (2020). Connectivity of triangulation flip graphs in the plane (Part II: Bistellar flips). In <i>36th International Symposium on Computational Geometry</i> (Vol. 164). Zürich, Switzerland: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.67\">https://doi.org/10.4230/LIPIcs.SoCG.2020.67</a>","chicago":"Wagner, Uli, and Emo Welzl. “Connectivity of Triangulation Flip Graphs in the Plane (Part II: Bistellar Flips).” In <i>36th International Symposium on Computational Geometry</i>, Vol. 164. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.67\">https://doi.org/10.4230/LIPIcs.SoCG.2020.67</a>.","ama":"Wagner U, Welzl E. Connectivity of triangulation flip graphs in the plane (Part II: Bistellar flips). In: <i>36th International Symposium on Computational Geometry</i>. Vol 164. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2020. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.67\">10.4230/LIPIcs.SoCG.2020.67</a>","short":"U. Wagner, E. Welzl, in:, 36th International Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020.","ista":"Wagner U, Welzl E. 2020. Connectivity of triangulation flip graphs in the plane (Part II: Bistellar flips). 36th International Symposium on Computational Geometry. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 164, 67:1-67:16.","ieee":"U. Wagner and E. Welzl, “Connectivity of triangulation flip graphs in the plane (Part II: Bistellar flips),” in <i>36th International Symposium on Computational Geometry</i>, Zürich, Switzerland, 2020, vol. 164."},"publication_identifier":{"isbn":["9783959771436"],"issn":["18688969"]}},{"oa_version":"Published Version","publication":"36th International Symposium on Computational Geometry","doi":"10.4230/LIPIcs.SoCG.2020.12","day":"01","status":"public","date_created":"2020-06-22T09:14:19Z","tmp":{"short":"CC BY (3.0)","name":"Creative Commons Attribution 3.0 Unported (CC BY 3.0)","legal_code_url":"https://creativecommons.org/licenses/by/3.0/legalcode","image":"/images/cc_by.png"},"ddc":["510"],"volume":164,"year":"2020","license":"https://creativecommons.org/licenses/by/3.0/","conference":{"name":"SoCG: Symposium on Computational Geometry","start_date":"2020-06-22","end_date":"2020-06-26","location":"Zürich, Switzerland"},"external_id":{"arxiv":["1909.00263"]},"oa":1,"date_updated":"2021-01-12T08:16:23Z","article_number":"12:1 - 12:15","alternative_title":["LIPIcs"],"date_published":"2020-06-01T00:00:00Z","intvolume":"       164","month":"06","publication_status":"published","project":[{"name":"Algorithms for Embeddings and Homotopy Theory","_id":"26611F5C-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"P31312"}],"quality_controlled":"1","_id":"7991","abstract":[{"text":"We define and study a discrete process that generalizes the convex-layer decomposition of a planar point set. Our process, which we call homotopic curve shortening (HCS), starts with a closed curve (which might self-intersect) in the presence of a set P⊂ ℝ² of point obstacles, and evolves in discrete steps, where each step consists of (1) taking shortcuts around the obstacles, and (2) reducing the curve to its shortest homotopic equivalent. We find experimentally that, if the initial curve is held fixed and P is chosen to be either a very fine regular grid or a uniformly random point set, then HCS behaves at the limit like the affine curve-shortening flow (ACSF). This connection between HCS and ACSF generalizes the link between \"grid peeling\" and the ACSF observed by Eppstein et al. (2017), which applied only to convex curves, and which was studied only for regular grids. We prove that HCS satisfies some properties analogous to those of ACSF: HCS is invariant under affine transformations, preserves convexity, and does not increase the total absolute curvature. Furthermore, the number of self-intersections of a curve, or intersections between two curves (appropriately defined), does not increase. Finally, if the initial curve is simple, then the number of inflection points (appropriately defined) does not increase.","lang":"eng"}],"arxiv":1,"scopus_import":"1","file_date_updated":"2020-07-14T12:48:06Z","type":"conference","citation":{"chicago":"Avvakumov, Sergey, and Gabriel Nivasch. “Homotopic Curve Shortening and the Affine Curve-Shortening Flow.” In <i>36th International Symposium on Computational Geometry</i>, Vol. 164. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.12\">https://doi.org/10.4230/LIPIcs.SoCG.2020.12</a>.","ama":"Avvakumov S, Nivasch G. Homotopic curve shortening and the affine curve-shortening flow. In: <i>36th International Symposium on Computational Geometry</i>. Vol 164. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2020. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.12\">10.4230/LIPIcs.SoCG.2020.12</a>","short":"S. Avvakumov, G. Nivasch, in:, 36th International Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020.","ieee":"S. Avvakumov and G. Nivasch, “Homotopic curve shortening and the affine curve-shortening flow,” in <i>36th International Symposium on Computational Geometry</i>, Zürich, Switzerland, 2020, vol. 164.","ista":"Avvakumov S, Nivasch G. 2020. Homotopic curve shortening and the affine curve-shortening flow. 36th International Symposium on Computational Geometry. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 164, 12:1-12:15.","mla":"Avvakumov, Sergey, and Gabriel Nivasch. “Homotopic Curve Shortening and the Affine Curve-Shortening Flow.” <i>36th International Symposium on Computational Geometry</i>, vol. 164, 12:1-12:15, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.12\">10.4230/LIPIcs.SoCG.2020.12</a>.","apa":"Avvakumov, S., &#38; Nivasch, G. (2020). Homotopic curve shortening and the affine curve-shortening flow. In <i>36th International Symposium on Computational Geometry</i> (Vol. 164). Zürich, Switzerland: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.12\">https://doi.org/10.4230/LIPIcs.SoCG.2020.12</a>"},"publication_identifier":{"isbn":["9783959771436"],"issn":["18688969"]},"language":[{"iso":"eng"}],"department":[{"_id":"UlWa"}],"article_processing_charge":"No","title":"Homotopic curve shortening and the affine curve-shortening flow","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"full_name":"Avvakumov, Sergey","id":"3827DAC8-F248-11E8-B48F-1D18A9856A87","first_name":"Sergey","last_name":"Avvakumov"},{"full_name":"Nivasch, Gabriel","last_name":"Nivasch","first_name":"Gabriel"}],"file":[{"date_created":"2020-06-23T11:13:49Z","date_updated":"2020-07-14T12:48:06Z","file_name":"2020_LIPIcsSoCG_Avvakumov.pdf","relation":"main_file","checksum":"6872df6549142f709fb6354a1b2f2c06","access_level":"open_access","file_id":"8007","content_type":"application/pdf","file_size":575896,"creator":"dernst"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","has_accepted_license":"1"},{"volume":164,"day":"01","status":"public","ddc":["510"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2020-06-22T09:14:20Z","doi":"10.4230/LIPIcs.SoCG.2020.62","publication":"36th International Symposium on Computational Geometry","oa_version":"Published Version","article_number":"62:1 - 62:16","intvolume":"       164","month":"06","date_published":"2020-06-01T00:00:00Z","alternative_title":["LIPIcs"],"oa":1,"date_updated":"2021-01-12T08:16:23Z","conference":{"location":"Zürich, Switzerland","end_date":"2020-06-26","start_date":"2020-06-22","name":"SoCG: Symposium on Computational Geometry"},"external_id":{"arxiv":["2003.13536"]},"year":"2020","type":"conference","file_date_updated":"2020-07-14T12:48:06Z","scopus_import":1,"abstract":[{"text":"Let K be a convex body in ℝⁿ (i.e., a compact convex set with nonempty interior). Given a point p in the interior of K, a hyperplane h passing through p is called barycentric if p is the barycenter of K ∩ h. In 1961, Grünbaum raised the question whether, for every K, there exists an interior point p through which there are at least n+1 distinct barycentric hyperplanes. Two years later, this was seemingly resolved affirmatively by showing that this is the case if p=p₀ is the point of maximal depth in K. However, while working on a related question, we noticed that one of the auxiliary claims in the proof is incorrect. Here, we provide a counterexample; this re-opens Grünbaum’s question. It follows from known results that for n ≥ 2, there are always at least three distinct barycentric cuts through the point p₀ ∈ K of maximal depth. Using tools related to Morse theory we are able to improve this bound: four distinct barycentric cuts through p₀ are guaranteed if n ≥ 3.","lang":"eng"}],"arxiv":1,"publication_identifier":{"isbn":["9783959771436"],"issn":["18688969"]},"citation":{"mla":"Patakova, Zuzana, et al. “Barycentric Cuts through a Convex Body.” <i>36th International Symposium on Computational Geometry</i>, vol. 164, 62:1-62:16, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.62\">10.4230/LIPIcs.SoCG.2020.62</a>.","apa":"Patakova, Z., Tancer, M., &#38; Wagner, U. (2020). Barycentric cuts through a convex body. In <i>36th International Symposium on Computational Geometry</i> (Vol. 164). Zürich, Switzerland: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.62\">https://doi.org/10.4230/LIPIcs.SoCG.2020.62</a>","chicago":"Patakova, Zuzana, Martin Tancer, and Uli Wagner. “Barycentric Cuts through a Convex Body.” In <i>36th International Symposium on Computational Geometry</i>, Vol. 164. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.62\">https://doi.org/10.4230/LIPIcs.SoCG.2020.62</a>.","ama":"Patakova Z, Tancer M, Wagner U. Barycentric cuts through a convex body. In: <i>36th International Symposium on Computational Geometry</i>. Vol 164. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2020. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.62\">10.4230/LIPIcs.SoCG.2020.62</a>","ieee":"Z. Patakova, M. Tancer, and U. Wagner, “Barycentric cuts through a convex body,” in <i>36th International Symposium on Computational Geometry</i>, Zürich, Switzerland, 2020, vol. 164.","ista":"Patakova Z, Tancer M, Wagner U. 2020. Barycentric cuts through a convex body. 36th International Symposium on Computational Geometry. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 164, 62:1-62:16.","short":"Z. Patakova, M. Tancer, U. Wagner, in:, 36th International Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020."},"quality_controlled":"1","_id":"7992","publication_status":"published","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","has_accepted_license":"1","file":[{"content_type":"application/pdf","file_id":"8004","file_size":750318,"creator":"dernst","checksum":"ce1c9194139a664fb59d1efdfc88eaae","relation":"main_file","access_level":"open_access","file_name":"2020_LIPIcsSoCG_Patakova.pdf","date_updated":"2020-07-14T12:48:06Z","date_created":"2020-06-23T06:45:52Z"}],"author":[{"last_name":"Patakova","orcid":"0000-0002-3975-1683","first_name":"Zuzana","id":"48B57058-F248-11E8-B48F-1D18A9856A87","full_name":"Patakova, Zuzana"},{"orcid":"0000-0002-1191-6714","last_name":"Tancer","id":"38AC689C-F248-11E8-B48F-1D18A9856A87","first_name":"Martin","full_name":"Tancer, Martin"},{"id":"36690CA2-F248-11E8-B48F-1D18A9856A87","first_name":"Uli","orcid":"0000-0002-1494-0568","last_name":"Wagner","full_name":"Wagner, Uli"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Barycentric cuts through a convex body","department":[{"_id":"UlWa"}],"article_processing_charge":"No","language":[{"iso":"eng"}]},{"doi":"10.4230/LIPIcs.SoCG.2020.9","publication":"36th International Symposium on Computational Geometry","ec_funded":1,"oa_version":"Published Version","volume":164,"status":"public","day":"01","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"ddc":["510"],"date_created":"2020-06-22T09:14:21Z","conference":{"location":"Zürich, Switzerland","end_date":"2020-06-26","start_date":"2020-06-22","name":"SoCG: Symposium on Computational Geometry"},"external_id":{"arxiv":["1804.09317"]},"year":"2020","article_number":"9:1 - 9:14","intvolume":"       164","month":"06","alternative_title":["LIPIcs"],"date_published":"2020-06-01T00:00:00Z","oa":1,"date_updated":"2023-02-23T13:22:12Z","publication_status":"published","project":[{"grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"type":"conference","file_date_updated":"2020-07-14T12:48:06Z","scopus_import":"1","abstract":[{"lang":"eng","text":"In the recent study of crossing numbers, drawings of graphs that can be extended to an arrangement of pseudolines (pseudolinear drawings) have played an important role as they are a natural combinatorial extension of rectilinear (or straight-line) drawings. A characterization of the pseudolinear drawings of K_n was found recently. We extend this characterization to all graphs, by describing the set of minimal forbidden subdrawings for pseudolinear drawings. Our characterization also leads to a polynomial-time algorithm to recognize pseudolinear drawings and construct the pseudolines when it is possible."}],"arxiv":1,"citation":{"apa":"Arroyo Guevara, A. M., Bensmail, J., &#38; Bruce Richter, R. (2020). Extending drawings of graphs to arrangements of pseudolines. In <i>36th International Symposium on Computational Geometry</i> (Vol. 164). Zürich, Switzerland: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.9\">https://doi.org/10.4230/LIPIcs.SoCG.2020.9</a>","mla":"Arroyo Guevara, Alan M., et al. “Extending Drawings of Graphs to Arrangements of Pseudolines.” <i>36th International Symposium on Computational Geometry</i>, vol. 164, 9:1-9:14, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.9\">10.4230/LIPIcs.SoCG.2020.9</a>.","short":"A.M. Arroyo Guevara, J. Bensmail, R. Bruce Richter, in:, 36th International Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020.","ista":"Arroyo Guevara AM, Bensmail J, Bruce Richter R. 2020. Extending drawings of graphs to arrangements of pseudolines. 36th International Symposium on Computational Geometry. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 164, 9:1-9:14.","ieee":"A. M. Arroyo Guevara, J. Bensmail, and R. Bruce Richter, “Extending drawings of graphs to arrangements of pseudolines,” in <i>36th International Symposium on Computational Geometry</i>, Zürich, Switzerland, 2020, vol. 164.","ama":"Arroyo Guevara AM, Bensmail J, Bruce Richter R. Extending drawings of graphs to arrangements of pseudolines. In: <i>36th International Symposium on Computational Geometry</i>. Vol 164. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2020. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.9\">10.4230/LIPIcs.SoCG.2020.9</a>","chicago":"Arroyo Guevara, Alan M, Julien Bensmail, and R. Bruce Richter. “Extending Drawings of Graphs to Arrangements of Pseudolines.” In <i>36th International Symposium on Computational Geometry</i>, Vol. 164. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2020. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2020.9\">https://doi.org/10.4230/LIPIcs.SoCG.2020.9</a>."},"publication_identifier":{"isbn":["9783959771436"],"issn":["18688969"]},"quality_controlled":"1","_id":"7994","department":[{"_id":"UlWa"}],"article_processing_charge":"No","language":[{"iso":"eng"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","has_accepted_license":"1","file":[{"date_updated":"2020-07-14T12:48:06Z","date_created":"2020-06-23T11:06:23Z","file_name":"2020_LIPIcsSoCG_Arroyo.pdf","checksum":"93571b76cf97d5b7c8aabaeaa694dd7e","relation":"main_file","access_level":"open_access","file_size":592661,"creator":"dernst","content_type":"application/pdf","file_id":"8006"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"full_name":"Arroyo Guevara, Alan M","orcid":"0000-0003-2401-8670","last_name":"Arroyo Guevara","first_name":"Alan M","id":"3207FDC6-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Julien","last_name":"Bensmail","full_name":"Bensmail, Julien"},{"last_name":"Bruce Richter","first_name":"R.","full_name":"Bruce Richter, R."}],"title":"Extending drawings of graphs to arrangements of pseudolines"},{"publisher":"Wiley","has_accepted_license":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","author":[{"last_name":"Perini","first_name":"Samuel","full_name":"Perini, Samuel"},{"last_name":"Rafajlović","first_name":"Marina","full_name":"Rafajlović, Marina"},{"first_name":"Anja M","id":"3C147470-F248-11E8-B48F-1D18A9856A87","last_name":"Westram","orcid":"0000-0003-1050-4969","full_name":"Westram, Anja M"},{"full_name":"Johannesson, Kerstin","last_name":"Johannesson","first_name":"Kerstin"},{"first_name":"Roger K.","last_name":"Butlin","full_name":"Butlin, Roger K."}],"title":"Assortative mating, sexual selection, and their consequences for gene flow in Littorina","file":[{"file_name":"2020_Evolution_Perini.pdf","success":1,"date_updated":"2020-11-25T10:49:48Z","date_created":"2020-11-25T10:49:48Z","creator":"dernst","file_size":1080810,"file_id":"8808","content_type":"application/pdf","checksum":"56235bf1e2a9e25f96196bb13b6b754d","relation":"main_file","access_level":"open_access"}],"department":[{"_id":"NiBa"}],"article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}],"scopus_import":"1","abstract":[{"lang":"eng","text":"When divergent populations are connected by gene flow, the establishment of complete reproductive isolation usually requires the joint action of multiple barrier effects. One example where multiple barrier effects are coupled consists of a single trait that is under divergent natural selection and also mediates assortative mating. Such multiple‐effect traits can strongly reduce gene flow. However, there are few cases where patterns of assortative mating have been described quantitatively and their impact on gene flow has been determined. Two ecotypes of the coastal marine snail, Littorina saxatilis , occur in North Atlantic rocky‐shore habitats dominated by either crab predation or wave action. There is evidence for divergent natural selection acting on size, and size‐assortative mating has previously been documented. Here, we analyze the mating pattern in L. saxatilis with respect to size in intensively sampled transects across boundaries between the habitats. We show that the mating pattern is mostly conserved between ecotypes and that it generates both assortment and directional sexual selection for small male size. Using simulations, we show that the mating pattern can contribute to reproductive isolation between ecotypes but the barrier to gene flow is likely strengthened more by sexual selection than by assortment."}],"file_date_updated":"2020-11-25T10:49:48Z","type":"journal_article","publication_identifier":{"issn":["00143820"],"eissn":["15585646"]},"citation":{"ieee":"S. Perini, M. Rafajlović, A. M. Westram, K. Johannesson, and R. K. Butlin, “Assortative mating, sexual selection, and their consequences for gene flow in Littorina,” <i>Evolution</i>, vol. 74, no. 7. Wiley, pp. 1482–1497, 2020.","short":"S. Perini, M. Rafajlović, A.M. Westram, K. Johannesson, R.K. Butlin, Evolution 74 (2020) 1482–1497.","ista":"Perini S, Rafajlović M, Westram AM, Johannesson K, Butlin RK. 2020. Assortative mating, sexual selection, and their consequences for gene flow in Littorina. Evolution. 74(7), 1482–1497.","ama":"Perini S, Rafajlović M, Westram AM, Johannesson K, Butlin RK. Assortative mating, sexual selection, and their consequences for gene flow in Littorina. <i>Evolution</i>. 2020;74(7):1482-1497. doi:<a href=\"https://doi.org/10.1111/evo.14027\">10.1111/evo.14027</a>","chicago":"Perini, Samuel, Marina Rafajlović, Anja M Westram, Kerstin Johannesson, and Roger K. Butlin. “Assortative Mating, Sexual Selection, and Their Consequences for Gene Flow in Littorina.” <i>Evolution</i>. Wiley, 2020. <a href=\"https://doi.org/10.1111/evo.14027\">https://doi.org/10.1111/evo.14027</a>.","apa":"Perini, S., Rafajlović, M., Westram, A. M., Johannesson, K., &#38; Butlin, R. K. (2020). Assortative mating, sexual selection, and their consequences for gene flow in Littorina. <i>Evolution</i>. Wiley. <a href=\"https://doi.org/10.1111/evo.14027\">https://doi.org/10.1111/evo.14027</a>","mla":"Perini, Samuel, et al. “Assortative Mating, Sexual Selection, and Their Consequences for Gene Flow in Littorina.” <i>Evolution</i>, vol. 74, no. 7, Wiley, 2020, pp. 1482–97, doi:<a href=\"https://doi.org/10.1111/evo.14027\">10.1111/evo.14027</a>."},"quality_controlled":"1","_id":"7995","publication_status":"published","project":[{"call_identifier":"H2020","grant_number":"797747","_id":"265B41B8-B435-11E9-9278-68D0E5697425","name":"Theoretical and empirical approaches to understanding Parallel Adaptation"}],"acknowledgement":"We are very grateful to I. Sencic, L. Brettell, A.‐L. Liabot, J. Galindo, M. Ravinet, and A. Butlin for their help with field sampling and mating experiments. This work was funded by the Natural Environment Research Council, European Research Council and Swedish Research Council VR and we are also very grateful for the support of the Linnaeus Centre for Marine Evolutionary Biology at the University of Gothenburg. The simulations were performed on resources at Chalmers Centre for Computational Science and Engineering (C3SE) provided by the Swedish National Infrastructure for Computing (SNIC). AMW was funded by the European Union's Horizon 2020 research and innovation program under Marie Skłodowska‐Curie grant agreement no. 797747.","date_published":"2020-07-01T00:00:00Z","intvolume":"        74","month":"07","oa":1,"issue":"7","date_updated":"2023-08-22T07:13:38Z","page":"1482-1497","external_id":{"isi":["000539780800001"]},"year":"2020","volume":74,"status":"public","day":"01","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"ddc":["570"],"date_created":"2020-06-22T09:14:21Z","publication":"Evolution","doi":"10.1111/evo.14027","ec_funded":1,"oa_version":"Published Version","isi":1,"related_material":{"record":[{"relation":"research_data","status":"public","id":"8809"}]}},{"publication_identifier":{"issn":["2663-337X"]},"citation":{"ama":"Kukucka J. Implementation of a hole spin qubit in Ge hut wires and dispersive spin sensing. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7996\">10.15479/AT:ISTA:7996</a>","ieee":"J. Kukucka, “Implementation of a hole spin qubit in Ge hut wires and dispersive spin sensing,” Institute of Science and Technology Austria, 2020.","short":"J. Kukucka, Implementation of a Hole Spin Qubit in Ge Hut Wires and Dispersive Spin Sensing, Institute of Science and Technology Austria, 2020.","ista":"Kukucka J. 2020. Implementation of a hole spin qubit in Ge hut wires and dispersive spin sensing. Institute of Science and Technology Austria.","chicago":"Kukucka, Josip. “Implementation of a Hole Spin Qubit in Ge Hut Wires and Dispersive Spin Sensing.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:7996\">https://doi.org/10.15479/AT:ISTA:7996</a>.","apa":"Kukucka, J. (2020). <i>Implementation of a hole spin qubit in Ge hut wires and dispersive spin sensing</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:7996\">https://doi.org/10.15479/AT:ISTA:7996</a>","mla":"Kukucka, Josip. <i>Implementation of a Hole Spin Qubit in Ge Hut Wires and Dispersive Spin Sensing</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7996\">10.15479/AT:ISTA:7996</a>."},"abstract":[{"lang":"eng","text":"Quantum computation enables the execution of algorithms that have exponential complexity. This might open the path towards the synthesis of new materials or medical drugs, optimization of transport or financial strategies etc., intractable on even the fastest classical computers. A quantum computer consists of interconnected two level quantum systems, called qubits, that satisfy DiVincezo’s criteria. Worldwide, there are ongoing efforts to find the qubit architecture which will unite quantum error correction compatible single and two qubit fidelities, long distance qubit to qubit coupling and \r\n calability. Superconducting qubits have gone the furthest in this race, demonstrating an algorithm running on 53 coupled qubits, but still the fidelities are not even close to those required for realizing a single logical qubit.  emiconductor qubits offer extremely good characteristics, but they are currently investigated across different platforms. Uniting those good characteristics into a single platform might be a big step towards the quantum computer realization.\r\nHere we describe the implementation of a hole spin qubit hosted in a Ge hut wire double quantum dot. The high and tunable spin-orbit coupling together with a heavy hole state character is expected to allow fast spin manipulation and long coherence times. Furthermore large lever arms, for hut wire devices, should allow good coupling to superconducting resonators enabling efficient long distance spin to spin coupling and a sensitive gate reflectometry spin readout. The developed cryogenic setup (printed circuit board sample holders, filtering, high-frequency wiring) enabled us to perform low temperature spin dynamics experiments. Indeed, we measured the fastest single spin qubit Rabi frequencies reported so far, reaching 140 MHz, while the dephasing times of 130 ns oppose the long decoherence predictions. In order to further investigate this, a double quantum dot gate was connected directly to a lumped element\r\nresonator which enabled gate reflectometry readout. The vanishing inter-dot transition signal, for increasing external magnetic field, revealed the spin nature of the measured quantity."}],"type":"dissertation","file_date_updated":"2020-07-14T12:48:07Z","_id":"7996","publication_status":"published","has_accepted_license":"1","publisher":"Institute of Science and Technology Austria","title":"Implementation of a hole spin qubit in Ge hut wires and dispersive spin sensing","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","author":[{"id":"3F5D8856-F248-11E8-B48F-1D18A9856A87","first_name":"Josip","last_name":"Kukucka","full_name":"Kukucka, Josip"}],"file":[{"checksum":"467e52feb3e361ce8cf5fe8d5c254ece","relation":"main_file","access_level":"closed","creator":"dernst","file_size":392794743,"file_id":"7997","content_type":"application/x-zip-compressed","date_updated":"2020-07-14T12:48:07Z","date_created":"2020-06-22T09:22:04Z","file_name":"JK_thesis_latex_source_files.zip"},{"date_updated":"2020-07-14T12:48:07Z","date_created":"2020-06-22T09:21:29Z","file_name":"PhD_thesis_JK_pdfa.pdf","access_level":"open_access","relation":"main_file","checksum":"1de716bf110dbd77d383e479232bf496","content_type":"application/pdf","file_id":"7998","creator":"dernst","file_size":28453247}],"article_processing_charge":"No","department":[{"_id":"GeKa"}],"language":[{"iso":"eng"}],"date_created":"2020-06-22T09:22:23Z","ddc":["530"],"day":"22","status":"public","supervisor":[{"full_name":"Katsaros, Georgios","last_name":"Katsaros","orcid":"0000-0001-8342-202X","first_name":"Georgios","id":"38DB5788-F248-11E8-B48F-1D18A9856A87"}],"degree_awarded":"PhD","doi":"10.15479/AT:ISTA:7996","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"1328"},{"status":"public","relation":"part_of_dissertation","id":"7541"},{"id":"77","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"23"},{"relation":"part_of_dissertation","status":"public","id":"840"}]},"oa_version":"Published Version","alternative_title":["ISTA Thesis"],"date_published":"2020-06-22T00:00:00Z","month":"06","date_updated":"2023-09-26T15:50:22Z","oa":1,"page":"178","year":"2020"},{"year":"2020","external_id":{"isi":["000541702400004"],"pmid":["32513961"]},"date_updated":"2023-08-22T07:13:09Z","oa":1,"month":"06","intvolume":"        11","date_published":"2020-06-08T00:00:00Z","article_number":"2865","related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1038/s41467-020-19099-9"}]},"isi":1,"oa_version":"Published Version","doi":"10.1038/s41467-020-16520-1","publication":"Nature Communications","ddc":["570"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2020-06-22T11:18:25Z","day":"08","status":"public","pmid":1,"volume":11,"language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","department":[{"_id":"MaRo"}],"file":[{"file_id":"8000","content_type":"application/pdf","creator":"dernst","file_size":1475657,"checksum":"4c96babd4cfb0d153334f6c598c0bacb","access_level":"open_access","relation":"main_file","file_name":"2020_NatureComm_Bayesian.pdf","date_updated":"2020-07-14T12:48:07Z","date_created":"2020-06-22T11:24:32Z"}],"title":"Bayesian reassessment of the epigenetic architecture of complex traits","author":[{"full_name":"Trejo Banos, D","last_name":"Trejo Banos","first_name":"D"},{"full_name":"McCartney, DL","last_name":"McCartney","first_name":"DL"},{"full_name":"Patxot, M","last_name":"Patxot","first_name":"M"},{"full_name":"Anchieri, L","first_name":"L","last_name":"Anchieri"},{"first_name":"T","last_name":"Battram","full_name":"Battram, T"},{"full_name":"Christiansen, C","first_name":"C","last_name":"Christiansen"},{"last_name":"Costeira","first_name":"R","full_name":"Costeira, R"},{"last_name":"Walker","first_name":"RM","full_name":"Walker, RM"},{"full_name":"Morris, SW","first_name":"SW","last_name":"Morris"},{"first_name":"A","last_name":"Campbell","full_name":"Campbell, A"},{"full_name":"Zhang, Q","last_name":"Zhang","first_name":"Q"},{"last_name":"Porteous","first_name":"DJ","full_name":"Porteous, DJ"},{"first_name":"AF","last_name":"McRae","full_name":"McRae, AF"},{"full_name":"Wray, NR","first_name":"NR","last_name":"Wray"},{"full_name":"Visscher, PM","first_name":"PM","last_name":"Visscher"},{"full_name":"Haley, CS","last_name":"Haley","first_name":"CS"},{"last_name":"Evans","first_name":"KL","full_name":"Evans, KL"},{"last_name":"Deary","first_name":"IJ","full_name":"Deary, IJ"},{"full_name":"McIntosh, AM","last_name":"McIntosh","first_name":"AM"},{"last_name":"Hemani","first_name":"G","full_name":"Hemani, G"},{"full_name":"Bell, JT","last_name":"Bell","first_name":"JT"},{"first_name":"RE","last_name":"Marioni","full_name":"Marioni, RE"},{"first_name":"Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","last_name":"Robinson","orcid":"0000-0001-8982-8813","full_name":"Robinson, Matthew Richard"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","has_accepted_license":"1","publisher":"Springer Nature","publication_status":"published","_id":"7999","quality_controlled":"1","citation":{"chicago":"Trejo Banos, D, DL McCartney, M Patxot, L Anchieri, T Battram, C Christiansen, R Costeira, et al. “Bayesian Reassessment of the Epigenetic Architecture of Complex Traits.” <i>Nature Communications</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41467-020-16520-1\">https://doi.org/10.1038/s41467-020-16520-1</a>.","ama":"Trejo Banos D, McCartney D, Patxot M, et al. Bayesian reassessment of the epigenetic architecture of complex traits. <i>Nature Communications</i>. 2020;11. doi:<a href=\"https://doi.org/10.1038/s41467-020-16520-1\">10.1038/s41467-020-16520-1</a>","ista":"Trejo Banos D, McCartney D, Patxot M, Anchieri L, Battram T, Christiansen C, Costeira R, Walker R, Morris S, Campbell A, Zhang Q, Porteous D, McRae A, Wray N, Visscher P, Haley C, Evans K, Deary I, McIntosh A, Hemani G, Bell J, Marioni R, Robinson MR. 2020. Bayesian reassessment of the epigenetic architecture of complex traits. Nature Communications. 11, 2865.","short":"D. Trejo Banos, D. McCartney, M. Patxot, L. Anchieri, T. Battram, C. Christiansen, R. Costeira, R. Walker, S. Morris, A. Campbell, Q. Zhang, D. Porteous, A. McRae, N. Wray, P. Visscher, C. Haley, K. Evans, I. Deary, A. McIntosh, G. Hemani, J. Bell, R. Marioni, M.R. Robinson, Nature Communications 11 (2020).","ieee":"D. Trejo Banos <i>et al.</i>, “Bayesian reassessment of the epigenetic architecture of complex traits,” <i>Nature Communications</i>, vol. 11. Springer Nature, 2020.","mla":"Trejo Banos, D., et al. “Bayesian Reassessment of the Epigenetic Architecture of Complex Traits.” <i>Nature Communications</i>, vol. 11, 2865, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41467-020-16520-1\">10.1038/s41467-020-16520-1</a>.","apa":"Trejo Banos, D., McCartney, D., Patxot, M., Anchieri, L., Battram, T., Christiansen, C., … Robinson, M. R. (2020). Bayesian reassessment of the epigenetic architecture of complex traits. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-020-16520-1\">https://doi.org/10.1038/s41467-020-16520-1</a>"},"publication_identifier":{"issn":["2041-1723"]},"type":"journal_article","file_date_updated":"2020-07-14T12:48:07Z","scopus_import":"1","abstract":[{"text":"Linking epigenetic marks to clinical outcomes improves insight into molecular processes, disease prediction, and therapeutic target identification. Here, a statistical approach is presented to infer the epigenetic architecture of complex disease, determine the variation captured by epigenetic effects, and estimate phenotype-epigenetic probe associations jointly. Implicitly adjusting for probe correlations, data structure (cell-count or relatedness), and single-nucleotide polymorphism (SNP) marker effects, improves association estimates and in 9,448 individuals, 75.7% (95% CI 71.70–79.3) of body mass index (BMI) variation and 45.6% (95% CI 37.3–51.9) of cigarette consumption variation was captured by whole blood methylation array data. Pathway-linked probes of blood cholesterol, lipid transport and sterol metabolism for BMI, and xenobiotic stimuli response for smoking, showed >1.5 times larger associations with >95% posterior inclusion probability. Prediction accuracy improved by 28.7% for BMI and 10.2% for smoking over a LASSO model, with age-, and tissue-specificity, implying associations are a phenotypic consequence rather than causal. ","lang":"eng"}]},{"related_material":{"link":[{"relation":"press_release","url":"https://ist.ac.at/en/news/possible-physical-trace-of-short-term-memory-found/","description":"News on IST Homepage"}]},"ec_funded":1,"oa_version":"Published Version","isi":1,"publication":"Neuron","doi":"10.1016/j.neuron.2020.05.013","tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"ddc":["570"],"date_created":"2020-06-22T13:29:05Z","day":"05","status":"public","volume":107,"pmid":1,"year":"2020","external_id":{"isi":["000556135600004"],"pmid":["32492366"]},"page":"509-521","date_updated":"2023-08-22T07:45:25Z","oa":1,"acknowledged_ssus":[{"_id":"SSU"}],"issue":"3","date_published":"2020-08-05T00:00:00Z","month":"08","intvolume":"       107","acknowledgement":"This project received funding from the European Research Council (ERC) under the European Union Horizon 2020 Research and Innovation Program (grant agreement 692692 to P.J.) and the Fond zur Förderung der Wissenschaftlichen Forschung ( Z 312-B27 , Wittgenstein award to P.J. and V 739-B27 to C.B.-M.). We thank Drs. Jozsef Csicsvari, Jose Guzman, Erwin Neher, and Ryuichi Shigemoto for commenting on earlier versions of the manuscript. We are grateful to Walter Kaufmann, Daniel Gütl, and Vanessa Zheden for EM training; Alois Schlögl for programming; Florian Marr for excellent technical assistance and cell reconstruction; Christina Altmutter for technical help; Eleftheria Kralli-Beller for manuscript editing; Taija Makinen for providing the Prox1-CreERT2 mouse line; and the Scientific Service Units of IST Austria for support.","project":[{"name":"Biophysics and circuit function of a giant cortical glumatergic synapse","_id":"25B7EB9E-B435-11E9-9278-68D0E5697425","grant_number":"692692","call_identifier":"H2020"},{"name":"The Wittgenstein Prize","_id":"25C5A090-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"Z00312"},{"call_identifier":"FWF","grant_number":"V00739","name":"Structural plasticity at mossy fiber-CA3 synapses","_id":"2696E7FE-B435-11E9-9278-68D0E5697425"}],"publication_status":"published","_id":"8001","quality_controlled":"1","publication_identifier":{"eissn":["10974199"],"issn":["0896-6273"]},"citation":{"ama":"Vandael DH, Borges Merjane C, Zhang X, Jonas PM. Short-term plasticity at hippocampal mossy fiber synapses is induced by natural activity patterns and associated with vesicle pool engram formation. <i>Neuron</i>. 2020;107(3):509-521. doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.05.013\">10.1016/j.neuron.2020.05.013</a>","short":"D.H. Vandael, C. Borges Merjane, X. Zhang, P.M. Jonas, Neuron 107 (2020) 509–521.","ista":"Vandael DH, Borges Merjane C, Zhang X, Jonas PM. 2020. Short-term plasticity at hippocampal mossy fiber synapses is induced by natural activity patterns and associated with vesicle pool engram formation. Neuron. 107(3), 509–521.","ieee":"D. H. Vandael, C. Borges Merjane, X. Zhang, and P. M. Jonas, “Short-term plasticity at hippocampal mossy fiber synapses is induced by natural activity patterns and associated with vesicle pool engram formation,” <i>Neuron</i>, vol. 107, no. 3. Elsevier, pp. 509–521, 2020.","chicago":"Vandael, David H, Carolina Borges Merjane, Xiaomin Zhang, and Peter M Jonas. “Short-Term Plasticity at Hippocampal Mossy Fiber Synapses Is Induced by Natural Activity Patterns and Associated with Vesicle Pool Engram Formation.” <i>Neuron</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.neuron.2020.05.013\">https://doi.org/10.1016/j.neuron.2020.05.013</a>.","apa":"Vandael, D. H., Borges Merjane, C., Zhang, X., &#38; Jonas, P. M. (2020). Short-term plasticity at hippocampal mossy fiber synapses is induced by natural activity patterns and associated with vesicle pool engram formation. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2020.05.013\">https://doi.org/10.1016/j.neuron.2020.05.013</a>","mla":"Vandael, David H., et al. “Short-Term Plasticity at Hippocampal Mossy Fiber Synapses Is Induced by Natural Activity Patterns and Associated with Vesicle Pool Engram Formation.” <i>Neuron</i>, vol. 107, no. 3, Elsevier, 2020, pp. 509–21, doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.05.013\">10.1016/j.neuron.2020.05.013</a>."},"scopus_import":"1","abstract":[{"text":"Post-tetanic potentiation (PTP) is an attractive candidate mechanism for hippocampus-dependent short-term memory. Although PTP has a uniquely large magnitude at hippocampal mossy fiber-CA3 pyramidal neuron synapses, it is unclear whether it can be induced by natural activity and whether its lifetime is sufficient to support short-term memory. We combined in vivo recordings from granule cells (GCs), in vitro paired recordings from mossy fiber terminals and postsynaptic CA3 neurons, and “flash and freeze” electron microscopy. PTP was induced at single synapses and showed a low induction threshold adapted to sparse GC activity in vivo. PTP was mainly generated by enlargement of the readily releasable pool of synaptic vesicles, allowing multiplicative interaction with other plasticity forms. PTP was associated with an increase in the docked vesicle pool, suggesting formation of structural “pool engrams.” Absence of presynaptic activity extended the lifetime of the potentiation, enabling prolonged information storage in the hippocampal network.","lang":"eng"}],"type":"journal_article","file_date_updated":"2020-11-25T11:23:02Z","language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","department":[{"_id":"PeJo"}],"author":[{"full_name":"Vandael, David H","orcid":"0000-0001-7577-1676","last_name":"Vandael","first_name":"David H","id":"3AE48E0A-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0003-0005-401X","last_name":"Borges Merjane","id":"4305C450-F248-11E8-B48F-1D18A9856A87","first_name":"Carolina","full_name":"Borges Merjane, Carolina"},{"last_name":"Zhang","id":"423EC9C2-F248-11E8-B48F-1D18A9856A87","first_name":"Xiaomin","full_name":"Zhang, Xiaomin"},{"full_name":"Jonas, Peter M","orcid":"0000-0001-5001-4804","last_name":"Jonas","first_name":"Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87"}],"title":"Short-term plasticity at hippocampal mossy fiber synapses is induced by natural activity patterns and associated with vesicle pool engram formation","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"relation":"main_file","checksum":"4030b2be0c9625d54694a1e9fb00305e","access_level":"open_access","content_type":"application/pdf","file_id":"8811","file_size":4390833,"creator":"dernst","date_created":"2020-11-25T11:23:02Z","date_updated":"2020-11-25T11:23:02Z","success":1,"file_name":"2020_Neuron_Vandael.pdf"}],"has_accepted_license":"1","publisher":"Elsevier"},{"pmid":1,"volume":117,"status":"public","day":"30","tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"date_created":"2020-06-22T13:33:52Z","ddc":["580"],"doi":"10.1073/pnas.2003346117","publication":"Proceedings of the National Academy of Sciences","isi":1,"oa_version":"None","ec_funded":1,"related_material":{"record":[{"id":"9992","status":"public","relation":"dissertation_contains"}],"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/how-wounded-plants-coordinate-their-healing/"}]},"article_number":"202003346","month":"06","intvolume":"       117","date_published":"2020-06-30T00:00:00Z","issue":"26","oa":1,"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"date_updated":"2024-03-25T23:30:06Z","external_id":{"pmid":["32541049"],"isi":["000565729700033"]},"year":"2020","file_date_updated":"2020-07-14T12:48:07Z","type":"journal_article","abstract":[{"lang":"eng","text":"Wound healing in plant tissues, consisting of rigid cell wall-encapsulated cells, represents a considerable challenge and occurs through largely unknown mechanisms distinct from those in animals. Owing to their inability to migrate, plant cells rely on targeted cell division and expansion to regenerate wounds. Strict coordination of these wound-induced responses is essential to ensure efficient, spatially restricted wound healing. Single-cell tracking by live imaging allowed us to gain mechanistic insight into the wound perception and coordination of wound responses after laser-based wounding in Arabidopsis root. We revealed a crucial contribution of the collapse of damaged cells in wound perception and detected an auxin increase specific to cells immediately adjacent to the wound. This localized auxin increase balances wound-induced cell expansion and restorative division rates in a dose-dependent manner, leading to tumorous overproliferation when the canonical TIR1 auxin signaling is disrupted. Auxin and wound-induced turgor pressure changes together also spatially define the activation of key components of regeneration, such as the transcription regulator ERF115. Our observations suggest that the wound signaling involves the sensing of collapse of damaged cells and a local auxin signaling activation to coordinate the downstream transcriptional responses in the immediate wound vicinity."}],"scopus_import":"1","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"citation":{"ama":"Hörmayer L, Montesinos López JC, Marhavá P, Benková E, Yoshida S, Friml J. Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots. <i>Proceedings of the National Academy of Sciences</i>. 2020;117(26). doi:<a href=\"https://doi.org/10.1073/pnas.2003346117\">10.1073/pnas.2003346117</a>","short":"L. Hörmayer, J.C. Montesinos López, P. Marhavá, E. Benková, S. Yoshida, J. Friml, Proceedings of the National Academy of Sciences 117 (2020).","ieee":"L. Hörmayer, J. C. Montesinos López, P. Marhavá, E. Benková, S. Yoshida, and J. Friml, “Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots,” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 26. Proceedings of the National Academy of Sciences, 2020.","ista":"Hörmayer L, Montesinos López JC, Marhavá P, Benková E, Yoshida S, Friml J. 2020. Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots. Proceedings of the National Academy of Sciences. 117(26), 202003346.","chicago":"Hörmayer, Lukas, Juan C Montesinos López, Petra Marhavá, Eva Benková, Saiko Yoshida, and Jiří Friml. “Wounding-Induced Changes in Cellular Pressure and Localized Auxin Signalling Spatially Coordinate Restorative Divisions in Roots.” <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences, 2020. <a href=\"https://doi.org/10.1073/pnas.2003346117\">https://doi.org/10.1073/pnas.2003346117</a>.","apa":"Hörmayer, L., Montesinos López, J. C., Marhavá, P., Benková, E., Yoshida, S., &#38; Friml, J. (2020). Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots. <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2003346117\">https://doi.org/10.1073/pnas.2003346117</a>","mla":"Hörmayer, Lukas, et al. “Wounding-Induced Changes in Cellular Pressure and Localized Auxin Signalling Spatially Coordinate Restorative Divisions in Roots.” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 26, 202003346, Proceedings of the National Academy of Sciences, 2020, doi:<a href=\"https://doi.org/10.1073/pnas.2003346117\">10.1073/pnas.2003346117</a>."},"quality_controlled":"1","_id":"8002","publication_status":"published","project":[{"call_identifier":"H2020","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"call_identifier":"FWF","grant_number":"P29988","name":"RNA-directed DNA methylation in plant development","_id":"262EF96E-B435-11E9-9278-68D0E5697425"}],"publisher":"Proceedings of the National Academy of Sciences","has_accepted_license":"1","file":[{"date_created":"2020-06-23T11:30:53Z","date_updated":"2020-07-14T12:48:07Z","file_name":"2020_PNAS_Hoermayer.pdf","checksum":"908b09437680181de9990915f2113aca","access_level":"open_access","relation":"main_file","file_size":2407102,"creator":"dernst","content_type":"application/pdf","file_id":"8009"}],"title":"Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots","author":[{"full_name":"Hörmayer, Lukas","last_name":"Hörmayer","orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","first_name":"Lukas"},{"last_name":"Montesinos López","orcid":"0000-0001-9179-6099","id":"310A8E3E-F248-11E8-B48F-1D18A9856A87","first_name":"Juan C","full_name":"Montesinos López, Juan C"},{"first_name":"Petra","id":"44E59624-F248-11E8-B48F-1D18A9856A87","last_name":"Marhavá","full_name":"Marhavá, Petra"},{"last_name":"Benková","orcid":"0000-0002-8510-9739","first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Benková, Eva"},{"full_name":"Yoshida, Saiko","first_name":"Saiko","id":"2E46069C-F248-11E8-B48F-1D18A9856A87","last_name":"Yoshida"},{"last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}]},{"status":"public","day":"22","date_created":"2020-06-23T12:00:19Z","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"ddc":["530"],"volume":2,"ec_funded":1,"oa_version":"Published Version","doi":"10.1103/physrevresearch.2.022065","publication":"Physical Review Research","issue":"2","oa":1,"date_updated":"2021-01-12T08:16:30Z","article_number":"022065","month":"06","intvolume":"         2","date_published":"2020-06-22T00:00:00Z","year":"2020","quality_controlled":"1","_id":"8011","file_date_updated":"2020-07-14T12:48:08Z","type":"journal_article","abstract":[{"text":"Relaxation to a thermal state is the inevitable fate of nonequilibrium interacting quantum systems without special conservation laws. While thermalization in one-dimensional systems can often be suppressed by integrability mechanisms, in two spatial dimensions thermalization is expected to be far more effective due to the increased phase space. In this work we propose a general framework for escaping or delaying the emergence of the thermal state in two-dimensional arrays of Rydberg atoms via the mechanism of quantum scars, i.e., initial states that fail to thermalize. The suppression of thermalization is achieved in two complementary ways: by adding local perturbations or by adjusting the driving Rabi frequency according to the local connectivity of the lattice. We demonstrate that these mechanisms allow us to realize robust quantum scars in various two-dimensional lattices, including decorated lattices with nonconstant connectivity. In particular, we show that a small decrease of the Rabi frequency at the corners of the lattice is crucial for mitigating the strong boundary effects in two-dimensional systems. Our results identify synchronization as an important tool for future experiments on two-dimensional quantum scars.","lang":"eng"}],"publication_identifier":{"issn":["2643-1564"]},"citation":{"chicago":"Michailidis, Alexios, C. J. Turner, Z. Papić, D. A. Abanin, and Maksym Serbyn. “Stabilizing Two-Dimensional Quantum Scars by Deformation and Synchronization.” <i>Physical Review Research</i>. American Physical Society, 2020. <a href=\"https://doi.org/10.1103/physrevresearch.2.022065\">https://doi.org/10.1103/physrevresearch.2.022065</a>.","ieee":"A. Michailidis, C. J. Turner, Z. Papić, D. A. Abanin, and M. Serbyn, “Stabilizing two-dimensional quantum scars by deformation and synchronization,” <i>Physical Review Research</i>, vol. 2, no. 2. American Physical Society, 2020.","short":"A. Michailidis, C.J. Turner, Z. Papić, D.A. Abanin, M. Serbyn, Physical Review Research 2 (2020).","ista":"Michailidis A, Turner CJ, Papić Z, Abanin DA, Serbyn M. 2020. Stabilizing two-dimensional quantum scars by deformation and synchronization. Physical Review Research. 2(2), 022065.","ama":"Michailidis A, Turner CJ, Papić Z, Abanin DA, Serbyn M. Stabilizing two-dimensional quantum scars by deformation and synchronization. <i>Physical Review Research</i>. 2020;2(2). doi:<a href=\"https://doi.org/10.1103/physrevresearch.2.022065\">10.1103/physrevresearch.2.022065</a>","mla":"Michailidis, Alexios, et al. “Stabilizing Two-Dimensional Quantum Scars by Deformation and Synchronization.” <i>Physical Review Research</i>, vol. 2, no. 2, 022065, American Physical Society, 2020, doi:<a href=\"https://doi.org/10.1103/physrevresearch.2.022065\">10.1103/physrevresearch.2.022065</a>.","apa":"Michailidis, A., Turner, C. J., Papić, Z., Abanin, D. A., &#38; Serbyn, M. (2020). Stabilizing two-dimensional quantum scars by deformation and synchronization. <i>Physical Review Research</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevresearch.2.022065\">https://doi.org/10.1103/physrevresearch.2.022065</a>"},"publication_status":"published","project":[{"grant_number":"850899","call_identifier":"H2020","name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E"}],"file":[{"date_created":"2020-06-29T14:41:27Z","date_updated":"2020-07-14T12:48:08Z","file_name":"2020_PhysicalReviewResearch_Michailidis.pdf","relation":"main_file","checksum":"e6959dc8220f14a008d1933858795e6d","access_level":"open_access","file_id":"8050","content_type":"application/pdf","creator":"dernst","file_size":2066011}],"title":"Stabilizing two-dimensional quantum scars by deformation and synchronization","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"full_name":"Michailidis, Alexios","last_name":"Michailidis","id":"36EBAD38-F248-11E8-B48F-1D18A9856A87","first_name":"Alexios"},{"first_name":"C. J.","last_name":"Turner","full_name":"Turner, C. J."},{"last_name":"Papić","first_name":"Z.","full_name":"Papić, Z."},{"full_name":"Abanin, D. A.","first_name":"D. A.","last_name":"Abanin"},{"orcid":"0000-0002-2399-5827","last_name":"Serbyn","first_name":"Maksym","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","full_name":"Serbyn, Maksym"}],"publisher":"American Physical Society","has_accepted_license":"1","article_type":"original","language":[{"iso":"eng"}],"department":[{"_id":"MaSe"}],"article_processing_charge":"No"},{"year":"2020","conference":{"name":"PLDI: Programming Language Design and Implementation","start_date":"2020-06-15","end_date":"2020-06-20","location":"London, United Kingdom"},"page":"227-242","external_id":{"isi":["000614622300016"]},"oa":1,"date_updated":"2023-09-07T13:18:00Z","date_published":"2020-06-01T00:00:00Z","month":"06","oa_version":"Published Version","isi":1,"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"8332"}]},"publication":"Proceedings of the 41st ACM SIGPLAN Conference on Programming Language Design and Implementation","doi":"10.1145/3385412.3385980","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1145/3385412.3385980"}],"status":"public","day":"01","date_created":"2020-06-25T11:40:16Z","language":[{"iso":"eng"}],"department":[{"_id":"ToHe"}],"article_processing_charge":"No","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Inductive sequentialization of asynchronous programs","author":[{"first_name":"Bernhard","id":"320FC952-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7745-9117","last_name":"Kragl","full_name":"Kragl, Bernhard"},{"last_name":"Enea","first_name":"Constantin","full_name":"Enea, Constantin"},{"full_name":"Henzinger, Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","last_name":"Henzinger","orcid":"0000-0002-2985-7724"},{"first_name":"Suha Orhun","last_name":"Mutluergil","full_name":"Mutluergil, Suha Orhun"},{"first_name":"Shaz","last_name":"Qadeer","full_name":"Qadeer, Shaz"}],"publisher":"Association for Computing Machinery","publication_status":"published","project":[{"call_identifier":"FWF","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425","name":"The Wittgenstein Prize"}],"quality_controlled":"1","_id":"8012","abstract":[{"lang":"eng","text":"Asynchronous programs are notoriously difficult to reason about because they spawn computation tasks which take effect asynchronously in a nondeterministic way. Devising inductive invariants for such programs requires understanding and stating complex relationships between an unbounded number of computation tasks in arbitrarily long executions. In this paper, we introduce inductive sequentialization, a new proof rule that sidesteps this complexity via a sequential reduction, a sequential program that captures every behavior of the original program up to reordering of coarse-grained commutative actions. A sequential reduction of a concurrent program is easy to reason about since it corresponds to a simple execution of the program in an idealized synchronous environment, where processes act in a fixed order and at the same speed. We have implemented and integrated our proof rule in the CIVL verifier, allowing us to provably derive fine-grained implementations of asynchronous programs. We have successfully applied our proof rule to a diverse set of message-passing protocols, including leader election protocols, two-phase commit, and Paxos."}],"scopus_import":"1","type":"conference","citation":{"ama":"Kragl B, Enea C, Henzinger TA, Mutluergil SO, Qadeer S. Inductive sequentialization of asynchronous programs. In: <i>Proceedings of the 41st ACM SIGPLAN Conference on Programming Language Design and Implementation</i>. Association for Computing Machinery; 2020:227-242. doi:<a href=\"https://doi.org/10.1145/3385412.3385980\">10.1145/3385412.3385980</a>","ista":"Kragl B, Enea C, Henzinger TA, Mutluergil SO, Qadeer S. 2020. Inductive sequentialization of asynchronous programs. Proceedings of the 41st ACM SIGPLAN Conference on Programming Language Design and Implementation. PLDI: Programming Language Design and Implementation, 227–242.","short":"B. Kragl, C. Enea, T.A. Henzinger, S.O. Mutluergil, S. Qadeer, in:, Proceedings of the 41st ACM SIGPLAN Conference on Programming Language Design and Implementation, Association for Computing Machinery, 2020, pp. 227–242.","ieee":"B. Kragl, C. Enea, T. A. Henzinger, S. O. Mutluergil, and S. Qadeer, “Inductive sequentialization of asynchronous programs,” in <i>Proceedings of the 41st ACM SIGPLAN Conference on Programming Language Design and Implementation</i>, London, United Kingdom, 2020, pp. 227–242.","chicago":"Kragl, Bernhard, Constantin Enea, Thomas A Henzinger, Suha Orhun Mutluergil, and Shaz Qadeer. “Inductive Sequentialization of Asynchronous Programs.” In <i>Proceedings of the 41st ACM SIGPLAN Conference on Programming Language Design and Implementation</i>, 227–42. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3385412.3385980\">https://doi.org/10.1145/3385412.3385980</a>.","apa":"Kragl, B., Enea, C., Henzinger, T. A., Mutluergil, S. O., &#38; Qadeer, S. (2020). Inductive sequentialization of asynchronous programs. In <i>Proceedings of the 41st ACM SIGPLAN Conference on Programming Language Design and Implementation</i> (pp. 227–242). London, United Kingdom: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3385412.3385980\">https://doi.org/10.1145/3385412.3385980</a>","mla":"Kragl, Bernhard, et al. “Inductive Sequentialization of Asynchronous Programs.” <i>Proceedings of the 41st ACM SIGPLAN Conference on Programming Language Design and Implementation</i>, Association for Computing Machinery, 2020, pp. 227–42, doi:<a href=\"https://doi.org/10.1145/3385412.3385980\">10.1145/3385412.3385980</a>."},"publication_identifier":{"isbn":["9781450376136"]}},{"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2020-06-26T10:00:36Z","ddc":["514"],"supervisor":[{"id":"36690CA2-F248-11E8-B48F-1D18A9856A87","first_name":"Uli","orcid":"0000-0002-1494-0568","last_name":"Wagner","full_name":"Wagner, Uli"},{"last_name":"Spreer","first_name":"Jonathan","full_name":"Spreer, Jonathan"}],"day":"26","status":"public","degree_awarded":"PhD","doi":"10.15479/AT:ISTA:8032","related_material":{"record":[{"id":"6556","status":"public","relation":"dissertation_contains"},{"id":"7093","relation":"dissertation_contains","status":"public"}]},"oa_version":"Published Version","month":"06","alternative_title":["ISTA Thesis"],"date_published":"2020-06-26T00:00:00Z","date_updated":"2023-09-07T13:18:27Z","acknowledged_ssus":[{"_id":"E-Lib"},{"_id":"CampIT"}],"oa":1,"page":"xviii+120","year":"2020","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-006-0"]},"citation":{"ama":"Huszár K. Combinatorial width parameters for 3-dimensional manifolds. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8032\">10.15479/AT:ISTA:8032</a>","short":"K. Huszár, Combinatorial Width Parameters for 3-Dimensional Manifolds, Institute of Science and Technology Austria, 2020.","ista":"Huszár K. 2020. Combinatorial width parameters for 3-dimensional manifolds. Institute of Science and Technology Austria.","ieee":"K. Huszár, “Combinatorial width parameters for 3-dimensional manifolds,” Institute of Science and Technology Austria, 2020.","chicago":"Huszár, Kristóf. “Combinatorial Width Parameters for 3-Dimensional Manifolds.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8032\">https://doi.org/10.15479/AT:ISTA:8032</a>.","apa":"Huszár, K. (2020). <i>Combinatorial width parameters for 3-dimensional manifolds</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8032\">https://doi.org/10.15479/AT:ISTA:8032</a>","mla":"Huszár, Kristóf. <i>Combinatorial Width Parameters for 3-Dimensional Manifolds</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8032\">10.15479/AT:ISTA:8032</a>."},"file_date_updated":"2020-07-14T12:48:08Z","type":"dissertation","abstract":[{"lang":"eng","text":"Algorithms in computational 3-manifold topology typically take a triangulation as an input and return topological information about the underlying 3-manifold. However, extracting the desired information from a triangulation (e.g., evaluating an invariant) is often computationally very expensive. In recent years this complexity barrier has been successfully tackled in some cases by importing ideas from the theory of parameterized algorithms into the realm of 3-manifolds. Various computationally hard problems were shown to be efficiently solvable for input triangulations that are sufficiently “tree-like.”\r\nIn this thesis we focus on the key combinatorial parameter in the above context: we consider the treewidth of a compact, orientable 3-manifold, i.e., the smallest treewidth of the dual graph of any triangulation thereof. By building on the work of Scharlemann–Thompson and Scharlemann–Schultens–Saito on generalized Heegaard splittings, and on the work of Jaco–Rubinstein on layered triangulations, we establish quantitative relations between the treewidth and classical topological invariants of a 3-manifold. In particular, among other results, we show that the treewidth of a closed, orientable, irreducible, non-Haken 3-manifold is always within a constant factor of its Heegaard genus."}],"_id":"8032","publication_status":"published","has_accepted_license":"1","publisher":"Institute of Science and Technology Austria","file":[{"file_name":"Kristof_Huszar-Thesis.pdf","date_created":"2020-06-26T10:03:58Z","date_updated":"2020-07-14T12:48:08Z","file_size":2637562,"creator":"khuszar","content_type":"application/pdf","file_id":"8034","checksum":"bd8be6e4f1addc863dfcc0fad29ee9c3","relation":"main_file","access_level":"open_access"},{"file_name":"Kristof_Huszar-Thesis-source.zip","date_created":"2020-06-26T10:10:06Z","date_updated":"2020-07-14T12:48:08Z","file_size":7163491,"creator":"khuszar","content_type":"application/x-zip-compressed","file_id":"8035","relation":"source_file","access_level":"closed","checksum":"d5f8456202b32f4a77552ef47a2837d1"}],"title":"Combinatorial width parameters for 3-dimensional manifolds","author":[{"id":"33C26278-F248-11E8-B48F-1D18A9856A87","first_name":"Kristóf","last_name":"Huszár","orcid":"0000-0002-5445-5057","full_name":"Huszár, Kristóf"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","article_processing_charge":"No","department":[{"_id":"UlWa"}],"language":[{"iso":"eng"}]},{"year":"2020","external_id":{"isi":["000543328000002"]},"date_updated":"2023-08-22T07:47:30Z","oa":1,"month":"06","intvolume":"         3","date_published":"2020-06-19T00:00:00Z","article_number":"112","isi":1,"oa_version":"Published Version","ec_funded":1,"doi":"10.1038/s42005-020-0380-9","publication":"Communications Physics","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"ddc":["530"],"date_created":"2020-06-29T07:59:35Z","day":"19","status":"public","volume":3,"language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","department":[{"_id":"ScWa"}],"file":[{"access_level":"open_access","relation":"main_file","checksum":"ed984f7a393f19140b5279a54a3336ad","file_id":"8045","content_type":"application/pdf","creator":"cziletti","file_size":1907821,"date_updated":"2020-07-14T12:48:08Z","date_created":"2020-06-29T13:21:24Z","file_name":"2020_CommunicationsPhysics_Collard.pdf"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","author":[{"full_name":"Collard, Ylona","first_name":"Ylona","last_name":"Collard"},{"first_name":"Galien M","id":"0C5FDA4A-9CF6-11E9-8939-FF05E6697425","last_name":"Grosjean","orcid":"0000-0001-5154-417X","full_name":"Grosjean, Galien M"},{"full_name":"Vandewalle, Nicolas","last_name":"Vandewalle","first_name":"Nicolas"}],"title":"Magnetically powered metachronal waves induce locomotion in self-assemblies","has_accepted_license":"1","publisher":"Springer Nature","project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","call_identifier":"H2020"}],"publication_status":"published","_id":"8036","quality_controlled":"1","citation":{"mla":"Collard, Ylona, et al. “Magnetically Powered Metachronal Waves Induce Locomotion in Self-Assemblies.” <i>Communications Physics</i>, vol. 3, 112, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s42005-020-0380-9\">10.1038/s42005-020-0380-9</a>.","apa":"Collard, Y., Grosjean, G. M., &#38; Vandewalle, N. (2020). Magnetically powered metachronal waves induce locomotion in self-assemblies. <i>Communications Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s42005-020-0380-9\">https://doi.org/10.1038/s42005-020-0380-9</a>","chicago":"Collard, Ylona, Galien M Grosjean, and Nicolas Vandewalle. “Magnetically Powered Metachronal Waves Induce Locomotion in Self-Assemblies.” <i>Communications Physics</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s42005-020-0380-9\">https://doi.org/10.1038/s42005-020-0380-9</a>.","ama":"Collard Y, Grosjean GM, Vandewalle N. Magnetically powered metachronal waves induce locomotion in self-assemblies. <i>Communications Physics</i>. 2020;3. doi:<a href=\"https://doi.org/10.1038/s42005-020-0380-9\">10.1038/s42005-020-0380-9</a>","ieee":"Y. Collard, G. M. Grosjean, and N. Vandewalle, “Magnetically powered metachronal waves induce locomotion in self-assemblies,” <i>Communications Physics</i>, vol. 3. Springer Nature, 2020.","short":"Y. Collard, G.M. Grosjean, N. Vandewalle, Communications Physics 3 (2020).","ista":"Collard Y, Grosjean GM, Vandewalle N. 2020. Magnetically powered metachronal waves induce locomotion in self-assemblies. Communications Physics. 3, 112."},"publication_identifier":{"eissn":["23993650"]},"file_date_updated":"2020-07-14T12:48:08Z","type":"journal_article","abstract":[{"text":"When tiny soft ferromagnetic particles are placed along a liquid interface and exposed to a vertical magnetic field, the balance between capillary attraction and magnetic repulsion leads to self-organization into well-defined patterns. Here, we demonstrate experimentally that precessing magnetic fields induce metachronal waves on the periphery of these assemblies, similar to the ones observed in ciliates and some arthropods. The outermost layer of particles behaves like an array of cilia or legs whose sequential movement causes a net and controllable locomotion. This bioinspired many-particle swimming strategy is effective even at low Reynolds number, using only spatially uniform fields to generate the waves.","lang":"eng"}],"scopus_import":"1"},{"has_accepted_license":"1","publisher":"IOP Publishing","title":"Efficient microwave frequency conversion mediated by a photonics compatible silicon nitride nanobeam oscillator","author":[{"orcid":"0000-0001-8112-028X","last_name":"Fink","first_name":"Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","full_name":"Fink, Johannes M"},{"first_name":"M.","last_name":"Kalaee","full_name":"Kalaee, M."},{"full_name":"Norte, R.","last_name":"Norte","first_name":"R."},{"last_name":"Pitanti","first_name":"A.","full_name":"Pitanti, A."},{"first_name":"O.","last_name":"Painter","full_name":"Painter, O."}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"access_level":"open_access","checksum":"8f25f05053f511f892ae8fa93f341e61","relation":"main_file","file_id":"8072","content_type":"application/pdf","creator":"cziletti","file_size":2600967,"date_created":"2020-06-30T10:29:10Z","date_updated":"2020-07-14T12:48:08Z","file_name":"2020_QuantumSciTechnol_Fink.pdf"}],"article_processing_charge":"Yes (via OA deal)","department":[{"_id":"JoFi"}],"language":[{"iso":"eng"}],"article_type":"original","publication_identifier":{"eissn":["20589565"]},"citation":{"apa":"Fink, J. M., Kalaee, M., Norte, R., Pitanti, A., &#38; Painter, O. (2020). Efficient microwave frequency conversion mediated by a photonics compatible silicon nitride nanobeam oscillator. <i>Quantum Science and Technology</i>. IOP Publishing. <a href=\"https://doi.org/10.1088/2058-9565/ab8dce\">https://doi.org/10.1088/2058-9565/ab8dce</a>","mla":"Fink, Johannes M., et al. “Efficient Microwave Frequency Conversion Mediated by a Photonics Compatible Silicon Nitride Nanobeam Oscillator.” <i>Quantum Science and Technology</i>, vol. 5, no. 3, 034011, IOP Publishing, 2020, doi:<a href=\"https://doi.org/10.1088/2058-9565/ab8dce\">10.1088/2058-9565/ab8dce</a>.","short":"J.M. Fink, M. Kalaee, R. Norte, A. Pitanti, O. Painter, Quantum Science and Technology 5 (2020).","ieee":"J. M. Fink, M. Kalaee, R. Norte, A. Pitanti, and O. Painter, “Efficient microwave frequency conversion mediated by a photonics compatible silicon nitride nanobeam oscillator,” <i>Quantum Science and Technology</i>, vol. 5, no. 3. IOP Publishing, 2020.","ista":"Fink JM, Kalaee M, Norte R, Pitanti A, Painter O. 2020. Efficient microwave frequency conversion mediated by a photonics compatible silicon nitride nanobeam oscillator. Quantum Science and Technology. 5(3), 034011.","ama":"Fink JM, Kalaee M, Norte R, Pitanti A, Painter O. Efficient microwave frequency conversion mediated by a photonics compatible silicon nitride nanobeam oscillator. <i>Quantum Science and Technology</i>. 2020;5(3). doi:<a href=\"https://doi.org/10.1088/2058-9565/ab8dce\">10.1088/2058-9565/ab8dce</a>","chicago":"Fink, Johannes M, M. Kalaee, R. Norte, A. Pitanti, and O. Painter. “Efficient Microwave Frequency Conversion Mediated by a Photonics Compatible Silicon Nitride Nanobeam Oscillator.” <i>Quantum Science and Technology</i>. IOP Publishing, 2020. <a href=\"https://doi.org/10.1088/2058-9565/ab8dce\">https://doi.org/10.1088/2058-9565/ab8dce</a>."},"scopus_import":"1","abstract":[{"text":"Microelectromechanical systems and integrated photonics provide the basis for many reliable and compact circuit elements in modern communication systems. Electro-opto-mechanical devices are currently one of the leading approaches to realize ultra-sensitive, low-loss transducers for an emerging quantum information technology. Here we present an on-chip microwave frequency converter based on a planar aluminum on silicon nitride platform that is compatible with slot-mode coupled photonic crystal cavities. We show efficient frequency conversion between two propagating microwave modes mediated by the radiation pressure interaction with a metalized dielectric nanobeam oscillator. We achieve bidirectional coherent conversion with a total device efficiency of up to ~60%, a dynamic range of 2 × 10^9 photons/s and an instantaneous bandwidth of up to 1.7 kHz. A high fidelity quantum state transfer would be possible if the drive dependent output noise of currently ~14 photons s^−1 Hz^−1 is further reduced. Such a silicon nitride based transducer is in situ reconfigurable and could be used for on-chip classical and quantum signal routing and filtering, both for microwave and hybrid microwave-optical applications.","lang":"eng"}],"file_date_updated":"2020-07-14T12:48:08Z","type":"journal_article","_id":"8038","quality_controlled":"1","project":[{"call_identifier":"H2020","grant_number":"758053","_id":"26336814-B435-11E9-9278-68D0E5697425","name":"A Fiber Optic Transceiver for Superconducting Qubits"},{"grant_number":"F07105","call_identifier":"FWF","name":"Integrating superconducting quantum circuits","_id":"26927A52-B435-11E9-9278-68D0E5697425"},{"grant_number":"732894","call_identifier":"H2020","_id":"257EB838-B435-11E9-9278-68D0E5697425","name":"Hybrid Optomechanical Technologies"},{"name":"Hybrid Semiconductor - Superconductor Quantum Devices","_id":"2622978C-B435-11E9-9278-68D0E5697425"}],"publication_status":"published","date_published":"2020-05-25T00:00:00Z","month":"05","intvolume":"         5","article_number":"034011","date_updated":"2024-08-07T07:11:51Z","oa":1,"issue":"3","external_id":{"isi":["000539300800001"]},"year":"2020","volume":5,"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"ddc":["530"],"date_created":"2020-06-29T07:59:35Z","day":"25","status":"public","publication":"Quantum Science and Technology","doi":"10.1088/2058-9565/ab8dce","ec_funded":1,"oa_version":"Published Version","isi":1},{"date_updated":"2023-08-22T07:50:08Z","issue":"24","intvolume":"        12","month":"06","date_published":"2020-06-17T00:00:00Z","year":"2020","page":"27104-27111","external_id":{"pmid":["32437128"],"isi":["000542925300032"]},"date_created":"2020-06-29T07:59:35Z","status":"public","day":"17","pmid":1,"volume":12,"isi":1,"oa_version":"None","ec_funded":1,"doi":"10.1021/acsami.0c04331","publication":"ACS Applied Materials and Interfaces","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Tin selenide molecular precursor for the solution processing of thermoelectric materials and devices","author":[{"first_name":"Yu","last_name":"Zhang","full_name":"Zhang, Yu"},{"full_name":"Liu, Yu","orcid":"0000-0001-7313-6740","last_name":"Liu","first_name":"Yu","id":"2A70014E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Congcong","last_name":"Xing","full_name":"Xing, Congcong"},{"full_name":"Zhang, Ting","last_name":"Zhang","first_name":"Ting"},{"first_name":"Mengyao","last_name":"Li","full_name":"Li, Mengyao"},{"last_name":"Pacios","first_name":"Mercè","full_name":"Pacios, Mercè"},{"full_name":"Yu, Xiaoting","first_name":"Xiaoting","last_name":"Yu"},{"first_name":"Jordi","last_name":"Arbiol","full_name":"Arbiol, Jordi"},{"full_name":"Llorca, Jordi","first_name":"Jordi","last_name":"Llorca"},{"full_name":"Cadavid, Doris","first_name":"Doris","last_name":"Cadavid"},{"id":"43C61214-F248-11E8-B48F-1D18A9856A87","first_name":"Maria","orcid":"0000-0001-5013-2843","last_name":"Ibáñez","full_name":"Ibáñez, Maria"},{"first_name":"Andreu","last_name":"Cabot","full_name":"Cabot, Andreu"}],"publisher":"American Chemical Society","language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","department":[{"_id":"MaIb"}],"_id":"8039","quality_controlled":"1","citation":{"mla":"Zhang, Yu, et al. “Tin Selenide Molecular Precursor for the Solution Processing of Thermoelectric Materials and Devices.” <i>ACS Applied Materials and Interfaces</i>, vol. 12, no. 24, American Chemical Society, 2020, pp. 27104–11, doi:<a href=\"https://doi.org/10.1021/acsami.0c04331\">10.1021/acsami.0c04331</a>.","apa":"Zhang, Y., Liu, Y., Xing, C., Zhang, T., Li, M., Pacios, M., … Cabot, A. (2020). Tin selenide molecular precursor for the solution processing of thermoelectric materials and devices. <i>ACS Applied Materials and Interfaces</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsami.0c04331\">https://doi.org/10.1021/acsami.0c04331</a>","chicago":"Zhang, Yu, Yu Liu, Congcong Xing, Ting Zhang, Mengyao Li, Mercè Pacios, Xiaoting Yu, et al. “Tin Selenide Molecular Precursor for the Solution Processing of Thermoelectric Materials and Devices.” <i>ACS Applied Materials and Interfaces</i>. American Chemical Society, 2020. <a href=\"https://doi.org/10.1021/acsami.0c04331\">https://doi.org/10.1021/acsami.0c04331</a>.","ama":"Zhang Y, Liu Y, Xing C, et al. Tin selenide molecular precursor for the solution processing of thermoelectric materials and devices. <i>ACS Applied Materials and Interfaces</i>. 2020;12(24):27104-27111. doi:<a href=\"https://doi.org/10.1021/acsami.0c04331\">10.1021/acsami.0c04331</a>","ieee":"Y. Zhang <i>et al.</i>, “Tin selenide molecular precursor for the solution processing of thermoelectric materials and devices,” <i>ACS Applied Materials and Interfaces</i>, vol. 12, no. 24. American Chemical Society, pp. 27104–27111, 2020.","ista":"Zhang Y, Liu Y, Xing C, Zhang T, Li M, Pacios M, Yu X, Arbiol J, Llorca J, Cadavid D, Ibáñez M, Cabot A. 2020. Tin selenide molecular precursor for the solution processing of thermoelectric materials and devices. ACS Applied Materials and Interfaces. 12(24), 27104–27111.","short":"Y. Zhang, Y. Liu, C. Xing, T. Zhang, M. Li, M. Pacios, X. Yu, J. Arbiol, J. Llorca, D. Cadavid, M. Ibáñez, A. Cabot, ACS Applied Materials and Interfaces 12 (2020) 27104–27111."},"publication_identifier":{"eissn":["19448252"]},"type":"journal_article","abstract":[{"text":"In the present work, we report a solution-based strategy to produce crystallographically textured SnSe bulk nanomaterials and printed layers with optimized thermoelectric performance in the direction normal to the substrate. Our strategy is based on the formulation of a molecular precursor that can be continuously decomposed to produce a SnSe powder or printed into predefined patterns. The precursor formulation and decomposition conditions are optimized to produce pure phase 2D SnSe nanoplates. The printed layer and the bulk material obtained after hot press displays a clear preferential orientation of the crystallographic domains, resulting in an ultralow thermal conductivity of 0.55 W m–1 K–1 in the direction normal to the substrate. Such textured nanomaterials present highly anisotropic properties with the best thermoelectric performance in plane, i.e., in the directions parallel to the substrate, which coincide with the crystallographic bc plane of SnSe. This is an unfortunate characteristic because thermoelectric devices are designed to create/harvest temperature gradients in the direction normal to the substrate. We further demonstrate that this limitation can be overcome with the introduction of small amounts of tellurium in the precursor. The presence of tellurium allows one to reduce the band gap and increase both the charge carrier concentration and the mobility, especially the cross plane, with a minimal decrease of the Seebeck coefficient. These effects translate into record out of plane ZT values at 800 K.","lang":"eng"}],"scopus_import":"1","project":[{"grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"publication_status":"published"},{"language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","department":[{"_id":"LeSa"}],"title":"Charge transfer and chemo-mechanical coupling in respiratory complex I","author":[{"last_name":"Gupta","first_name":"Chitrak","full_name":"Gupta, Chitrak"},{"full_name":"Khaniya, Umesh","first_name":"Umesh","last_name":"Khaniya"},{"full_name":"Chan, Chun Kit","first_name":"Chun Kit","last_name":"Chan"},{"last_name":"Dehez","first_name":"Francois","full_name":"Dehez, Francois"},{"full_name":"Shekhar, Mrinal","last_name":"Shekhar","first_name":"Mrinal"},{"first_name":"M. R.","last_name":"Gunner","full_name":"Gunner, M. R."},{"id":"338D39FE-F248-11E8-B48F-1D18A9856A87","first_name":"Leonid A","orcid":"0000-0002-0977-7989","last_name":"Sazanov","full_name":"Sazanov, Leonid A"},{"full_name":"Chipot, Christophe","last_name":"Chipot","first_name":"Christophe"},{"last_name":"Singharoy","first_name":"Abhishek","full_name":"Singharoy, Abhishek"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"American Chemical Society","publication_status":"published","_id":"8040","quality_controlled":"1","publication_identifier":{"eissn":["15205126"],"issn":["00027863"]},"citation":{"ama":"Gupta C, Khaniya U, Chan CK, et al. Charge transfer and chemo-mechanical coupling in respiratory complex I. <i>Journal of the American Chemical Society</i>. 2020;142(20):9220-9230. doi:<a href=\"https://doi.org/10.1021/jacs.9b13450\">10.1021/jacs.9b13450</a>","ista":"Gupta C, Khaniya U, Chan CK, Dehez F, Shekhar M, Gunner MR, Sazanov LA, Chipot C, Singharoy A. 2020. Charge transfer and chemo-mechanical coupling in respiratory complex I. Journal of the American Chemical Society. 142(20), 9220–9230.","ieee":"C. Gupta <i>et al.</i>, “Charge transfer and chemo-mechanical coupling in respiratory complex I,” <i>Journal of the American Chemical Society</i>, vol. 142, no. 20. American Chemical Society, pp. 9220–9230, 2020.","short":"C. Gupta, U. Khaniya, C.K. Chan, F. Dehez, M. Shekhar, M.R. Gunner, L.A. Sazanov, C. Chipot, A. Singharoy, Journal of the American Chemical Society 142 (2020) 9220–9230.","chicago":"Gupta, Chitrak, Umesh Khaniya, Chun Kit Chan, Francois Dehez, Mrinal Shekhar, M. R. Gunner, Leonid A Sazanov, Christophe Chipot, and Abhishek Singharoy. “Charge Transfer and Chemo-Mechanical Coupling in Respiratory Complex I.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2020. <a href=\"https://doi.org/10.1021/jacs.9b13450\">https://doi.org/10.1021/jacs.9b13450</a>.","apa":"Gupta, C., Khaniya, U., Chan, C. K., Dehez, F., Shekhar, M., Gunner, M. R., … Singharoy, A. (2020). Charge transfer and chemo-mechanical coupling in respiratory complex I. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/jacs.9b13450\">https://doi.org/10.1021/jacs.9b13450</a>","mla":"Gupta, Chitrak, et al. “Charge Transfer and Chemo-Mechanical Coupling in Respiratory Complex I.” <i>Journal of the American Chemical Society</i>, vol. 142, no. 20, American Chemical Society, 2020, pp. 9220–30, doi:<a href=\"https://doi.org/10.1021/jacs.9b13450\">10.1021/jacs.9b13450</a>."},"abstract":[{"lang":"eng","text":"The mitochondrial respiratory chain, formed by five protein complexes, utilizes energy from catabolic processes to synthesize ATP. Complex I, the first and the largest protein complex of the chain, harvests electrons from NADH to reduce quinone, while pumping protons across the mitochondrial membrane. Detailed knowledge of the working principle of such coupled charge-transfer processes remains, however, fragmentary due to bottlenecks in understanding redox-driven conformational transitions and their interplay with the hydrated proton pathways. Complex I from Thermus thermophilus encases 16 subunits with nine iron–sulfur clusters, reduced by electrons from NADH. Here, employing the latest crystal structure of T. thermophilus complex I, we have used microsecond-scale molecular dynamics simulations to study the chemo-mechanical coupling between redox changes of the iron–sulfur clusters and conformational transitions across complex I. First, we identify the redox switches within complex I, which allosterically couple the dynamics of the quinone binding pocket to the site of NADH reduction. Second, our free-energy calculations reveal that the affinity of the quinone, specifically menaquinone, for the binding-site is higher than that of its reduced, menaquinol form—a design essential for menaquinol release. Remarkably, the barriers to diffusive menaquinone dynamics are lesser than that of the more ubiquitous ubiquinone, and the naphthoquinone headgroup of the former furnishes stronger binding interactions with the pocket, favoring menaquinone for charge transport in T. thermophilus. Our computations are consistent with experimentally validated mutations and hierarchize the key residues into three functional classes, identifying new mutation targets. Third, long-range hydrogen-bond networks connecting the quinone-binding site to the transmembrane subunits are found to be responsible for proton pumping. Put together, the simulations reveal the molecular design principles linking redox reactions to quinone turnover to proton translocation in complex I."}],"scopus_import":"1","type":"journal_article","year":"2020","external_id":{"isi":["000537415600020"],"pmid":["32347721"]},"page":"9220-9230","date_updated":"2023-08-22T07:49:38Z","issue":"20","date_published":"2020-05-20T00:00:00Z","month":"05","intvolume":"       142","related_material":{"record":[{"relation":"research_data","status":"public","id":"9326"},{"id":"9713","status":"public","relation":"research_data"},{"status":"public","relation":"research_data","id":"9878"}]},"oa_version":"None","isi":1,"publication":"Journal of the American Chemical Society","doi":"10.1021/jacs.9b13450","date_created":"2020-06-29T07:59:35Z","status":"public","day":"20","volume":142,"pmid":1},{"citation":{"chicago":"Boccato, Chiara, Christian Brennecke, Serena Cenatiempo, and Benjamin Schlein. “The Excitation Spectrum of Bose Gases Interacting through Singular Potentials.” <i>Journal of the European Mathematical Society</i>. European Mathematical Society, 2020. <a href=\"https://doi.org/10.4171/JEMS/966\">https://doi.org/10.4171/JEMS/966</a>.","short":"C. Boccato, C. Brennecke, S. Cenatiempo, B. Schlein, Journal of the European Mathematical Society 22 (2020) 2331–2403.","ista":"Boccato C, Brennecke C, Cenatiempo S, Schlein B. 2020. The excitation spectrum of Bose gases interacting through singular potentials. Journal of the European Mathematical Society. 22(7), 2331–2403.","ieee":"C. Boccato, C. Brennecke, S. Cenatiempo, and B. Schlein, “The excitation spectrum of Bose gases interacting through singular potentials,” <i>Journal of the European Mathematical Society</i>, vol. 22, no. 7. European Mathematical Society, pp. 2331–2403, 2020.","ama":"Boccato C, Brennecke C, Cenatiempo S, Schlein B. The excitation spectrum of Bose gases interacting through singular potentials. <i>Journal of the European Mathematical Society</i>. 2020;22(7):2331-2403. doi:<a href=\"https://doi.org/10.4171/JEMS/966\">10.4171/JEMS/966</a>","mla":"Boccato, Chiara, et al. “The Excitation Spectrum of Bose Gases Interacting through Singular Potentials.” <i>Journal of the European Mathematical Society</i>, vol. 22, no. 7, European Mathematical Society, 2020, pp. 2331–403, doi:<a href=\"https://doi.org/10.4171/JEMS/966\">10.4171/JEMS/966</a>.","apa":"Boccato, C., Brennecke, C., Cenatiempo, S., &#38; Schlein, B. (2020). The excitation spectrum of Bose gases interacting through singular potentials. <i>Journal of the European Mathematical Society</i>. European Mathematical Society. <a href=\"https://doi.org/10.4171/JEMS/966\">https://doi.org/10.4171/JEMS/966</a>"},"publication_identifier":{"issn":["14359855"]},"abstract":[{"lang":"eng","text":"We consider systems of N bosons in a box of volume one, interacting through a repulsive two-body potential of the form κN3β−1V(Nβx). For all 0<β<1, and for sufficiently small coupling constant κ>0, we establish the validity of Bogolyubov theory, identifying the ground state energy and the low-lying excitation spectrum up to errors that vanish in the limit of large N."}],"scopus_import":"1","arxiv":1,"type":"journal_article","_id":"8042","quality_controlled":"1","publication_status":"published","publisher":"European Mathematical Society","author":[{"id":"342E7E22-F248-11E8-B48F-1D18A9856A87","first_name":"Chiara","last_name":"Boccato","full_name":"Boccato, Chiara"},{"full_name":"Brennecke, Christian","first_name":"Christian","last_name":"Brennecke"},{"full_name":"Cenatiempo, Serena","last_name":"Cenatiempo","first_name":"Serena"},{"first_name":"Benjamin","last_name":"Schlein","full_name":"Schlein, Benjamin"}],"title":"The excitation spectrum of Bose gases interacting through singular potentials","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","article_processing_charge":"No","department":[{"_id":"RoSe"}],"language":[{"iso":"eng"}],"article_type":"original","volume":22,"date_created":"2020-06-29T07:59:35Z","day":"01","status":"public","publication":"Journal of the European Mathematical Society","doi":"10.4171/JEMS/966","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1704.04819"}],"oa_version":"Preprint","isi":1,"date_published":"2020-07-01T00:00:00Z","month":"07","intvolume":"        22","date_updated":"2023-08-22T07:47:04Z","oa":1,"issue":"7","external_id":{"isi":["000548174700006"],"arxiv":["1704.04819"]},"page":"2331-2403","year":"2020"},{"publication":"Journal of Fluid Mechanics","doi":"10.1017/jfm.2020.322","oa_version":"Published Version","isi":1,"volume":897,"status":"public","day":"25","tmp":{"short":"CC BY-NC-SA (4.0)","image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"date_created":"2020-06-29T07:59:35Z","ddc":["530"],"license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","external_id":{"isi":["000539132300001"]},"year":"2020","article_number":"A7","acknowledgement":"The authors thank S. Zammert and B. Budanur for useful discussions. J. F. Gibson is gratefully acknowledged for the development and the maintenance of the code Channelflow. Y.D. would like to thank P. Schlatter and D. S. Henningson for an early collaboration on a similar topic in the case of plane Couette flow during the years 2008–2013.","date_published":"2020-08-25T00:00:00Z","intvolume":"       897","month":"08","oa":1,"date_updated":"2023-08-22T07:48:02Z","publication_status":"published","scopus_import":"1","abstract":[{"lang":"eng","text":"With decreasing Reynolds number, Re, turbulence in channel flow becomes spatio-temporally intermittent and self-organises into solitary stripes oblique to the mean flow direction. We report here the existence of localised nonlinear travelling wave solutions of the Navier–Stokes equations possessing this obliqueness property. Such solutions are identified numerically using edge tracking coupled with arclength continuation. All solutions emerge in saddle-node bifurcations at values of Re lower than the non-localised solutions. Relative periodic orbit solutions bifurcating from branches of travelling waves have also been computed. A complete parametric study is performed, including their stability, the investigation of their large-scale flow, and the robustness to changes of the numerical domain."}],"type":"journal_article","file_date_updated":"2020-07-14T12:48:08Z","publication_identifier":{"issn":["00221120"],"eissn":["14697645"]},"citation":{"mla":"Paranjape, Chaitanya S., et al. “Oblique Stripe Solutions of Channel Flow.” <i>Journal of Fluid Mechanics</i>, vol. 897, A7, Cambridge University Press, 2020, doi:<a href=\"https://doi.org/10.1017/jfm.2020.322\">10.1017/jfm.2020.322</a>.","apa":"Paranjape, C. S., Duguet, Y., &#38; Hof, B. (2020). Oblique stripe solutions of channel flow. <i>Journal of Fluid Mechanics</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/jfm.2020.322\">https://doi.org/10.1017/jfm.2020.322</a>","chicago":"Paranjape, Chaitanya S, Yohann Duguet, and Björn Hof. “Oblique Stripe Solutions of Channel Flow.” <i>Journal of Fluid Mechanics</i>. Cambridge University Press, 2020. <a href=\"https://doi.org/10.1017/jfm.2020.322\">https://doi.org/10.1017/jfm.2020.322</a>.","short":"C.S. Paranjape, Y. Duguet, B. Hof, Journal of Fluid Mechanics 897 (2020).","ista":"Paranjape CS, Duguet Y, Hof B. 2020. Oblique stripe solutions of channel flow. Journal of Fluid Mechanics. 897, A7.","ieee":"C. S. Paranjape, Y. Duguet, and B. Hof, “Oblique stripe solutions of channel flow,” <i>Journal of Fluid Mechanics</i>, vol. 897. Cambridge University Press, 2020.","ama":"Paranjape CS, Duguet Y, Hof B. Oblique stripe solutions of channel flow. <i>Journal of Fluid Mechanics</i>. 2020;897. doi:<a href=\"https://doi.org/10.1017/jfm.2020.322\">10.1017/jfm.2020.322</a>"},"quality_controlled":"1","_id":"8043","department":[{"_id":"BjHo"}],"article_processing_charge":"Yes (via OA deal)","article_type":"original","language":[{"iso":"eng"}],"publisher":"Cambridge University Press","has_accepted_license":"1","title":"Oblique stripe solutions of channel flow","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","author":[{"first_name":"Chaitanya S","id":"3D85B7C4-F248-11E8-B48F-1D18A9856A87","last_name":"Paranjape","full_name":"Paranjape, Chaitanya S"},{"first_name":"Yohann","last_name":"Duguet","full_name":"Duguet, Yohann"},{"full_name":"Hof, Björn","last_name":"Hof","orcid":"0000-0003-2057-2754","id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn"}],"file":[{"file_id":"8070","content_type":"application/pdf","file_size":767873,"creator":"cziletti","access_level":"open_access","checksum":"3f487bf6d9286787096306eaa18702e8","relation":"main_file","file_name":"2020_JournalOfFluidMech_Paranjape.pdf","date_updated":"2020-07-14T12:48:08Z","date_created":"2020-06-30T08:37:37Z"}]},{"language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","department":[{"_id":"StFr"}],"file":[{"creator":"dernst","file_size":1904552,"file_id":"8401","content_type":"application/pdf","access_level":"open_access","relation":"main_file","checksum":"7dd0a56f6bd5de08ea75b1ec388c91bc","file_name":"2020_AngChemieDE_Bouchal.pdf","success":1,"date_created":"2020-09-17T08:59:43Z","date_updated":"2020-09-17T08:59:43Z"}],"author":[{"last_name":"Bouchal","first_name":"Roza","full_name":"Bouchal, Roza"},{"full_name":"Li, Zhujie","last_name":"Li","first_name":"Zhujie"},{"full_name":"Bongu, Chandra","last_name":"Bongu","first_name":"Chandra"},{"last_name":"Le Vot","first_name":"Steven","full_name":"Le Vot, Steven"},{"full_name":"Berthelot, Romain","first_name":"Romain","last_name":"Berthelot"},{"full_name":"Rotenberg, Benjamin","last_name":"Rotenberg","first_name":"Benjamin"},{"full_name":"Favier, Frederic","first_name":"Frederic","last_name":"Favier"},{"full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","last_name":"Freunberger","first_name":"Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425"},{"full_name":"Salanne, Mathieu","last_name":"Salanne","first_name":"Mathieu"},{"first_name":"Olivier","last_name":"Fontaine","full_name":"Fontaine, Olivier"}],"title":"Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","has_accepted_license":"1","publisher":"Wiley","publication_status":"published","_id":"8057","quality_controlled":"1","citation":{"apa":"Bouchal, R., Li, Z., Bongu, C., Le Vot, S., Berthelot, R., Rotenberg, B., … Fontaine, O. (2020). Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. <i>Angewandte Chemie</i>. Wiley. <a href=\"https://doi.org/10.1002/ange.202005378\">https://doi.org/10.1002/ange.202005378</a>","mla":"Bouchal, Roza, et al. “Competitive Salt Precipitation/Dissolution during Free‐water Reduction in Water‐in‐salt Electrolyte.” <i>Angewandte Chemie</i>, vol. 132, no. 37, Wiley, 2020, pp. 16047–51, doi:<a href=\"https://doi.org/10.1002/ange.202005378\">10.1002/ange.202005378</a>.","short":"R. Bouchal, Z. Li, C. Bongu, S. Le Vot, R. Berthelot, B. Rotenberg, F. Favier, S.A. Freunberger, M. Salanne, O. Fontaine, Angewandte Chemie 132 (2020) 16047–16051.","ieee":"R. Bouchal <i>et al.</i>, “Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte,” <i>Angewandte Chemie</i>, vol. 132, no. 37. Wiley, pp. 16047–16051, 2020.","ista":"Bouchal R, Li Z, Bongu C, Le Vot S, Berthelot R, Rotenberg B, Favier F, Freunberger SA, Salanne M, Fontaine O. 2020. Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. Angewandte Chemie. 132(37), 16047–16051.","ama":"Bouchal R, Li Z, Bongu C, et al. Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. <i>Angewandte Chemie</i>. 2020;132(37):16047-16051. doi:<a href=\"https://doi.org/10.1002/ange.202005378\">10.1002/ange.202005378</a>","chicago":"Bouchal, Roza, Zhujie Li, Chandra Bongu, Steven Le Vot, Romain Berthelot, Benjamin Rotenberg, Frederic Favier, Stefan Alexander Freunberger, Mathieu Salanne, and Olivier Fontaine. “Competitive Salt Precipitation/Dissolution during Free‐water Reduction in Water‐in‐salt Electrolyte.” <i>Angewandte Chemie</i>. Wiley, 2020. <a href=\"https://doi.org/10.1002/ange.202005378\">https://doi.org/10.1002/ange.202005378</a>."},"publication_identifier":{"issn":["0044-8249"],"eissn":["1521-3757"]},"type":"journal_article","file_date_updated":"2020-09-17T08:59:43Z","abstract":[{"text":"Water-in-salt electrolytes based on highly concentrated bis(trifluoromethyl)sulfonimide (TFSI) promise aqueous electrolytes with stabilities approaching 3 V. However, especially with an electrode approaching the cathodic (reductive) stability, cycling stability is insufficient. While stability critically relies on a solid electrolyte interphase (SEI), the mechanism behind the cathodic stability limit remains unclear. Here, we reveal two distinct reduction potentials for the chemical environments of ‘free’ and ‘bound’ water and that both contribute to SEI formation. Free-water is reduced ~1V above bound water in a hydrogen evolution reaction (HER) and responsible for SEI formation via reactive intermediates of the HER; concurrent LiTFSI precipitation/dissolution establishes a dynamic interface. The free-water population emerges, therefore, as the handle to extend the cathodic limit of aqueous electrolytes and the battery cycling stability.","lang":"eng"}],"scopus_import":"1","year":"2020","page":"16047-16051","date_updated":"2023-09-05T15:47:50Z","issue":"37","oa":1,"month":"09","intvolume":"       132","date_published":"2020-09-07T00:00:00Z","oa_version":"Published Version","doi":"10.1002/ange.202005378","publication":"Angewandte Chemie","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2020-06-29T16:15:49Z","ddc":["540","541"],"day":"07","status":"public","volume":132}]