[{"article_number":"65","acknowledged_ssus":[{"_id":"ScienComp"}],"_id":"8535","date_updated":"2023-08-22T09:28:27Z","abstract":[{"lang":"eng","text":"We propose a method to enhance the visual detail of a water surface simulation. Our method works as a post-processing step which takes a simulation as input and increases its apparent resolution by simulating many detailed Lagrangian water waves on top of it. We extend linear water wave theory to work in non-planar domains which deform over time, and we discretize the theory using Lagrangian wave packets attached to spline curves. The method is numerically stable and trivially parallelizable, and it produces high frequency ripples with dispersive wave-like behaviors customized to the underlying fluid simulation."}],"issue":"4","year":"2020","month":"07","ec_funded":1,"status":"public","publication_identifier":{"issn":["07300301"],"eissn":["15577368"]},"oa":1,"oa_version":"Published Version","date_published":"2020-07-08T00:00:00Z","publication_status":"published","doi":"10.1145/3386569.3392466","citation":{"short":"T. Skrivan, A. Soderstrom, J. Johansson, C. Sprenger, K. Museth, C. Wojtan, ACM Transactions on Graphics 39 (2020).","ama":"Skrivan T, Soderstrom A, Johansson J, Sprenger C, Museth K, Wojtan C. Wave curves: Simulating Lagrangian water waves on dynamically deforming surfaces. <i>ACM Transactions on Graphics</i>. 2020;39(4). doi:<a href=\"https://doi.org/10.1145/3386569.3392466\">10.1145/3386569.3392466</a>","ieee":"T. Skrivan, A. Soderstrom, J. Johansson, C. Sprenger, K. Museth, and C. Wojtan, “Wave curves: Simulating Lagrangian water waves on dynamically deforming surfaces,” <i>ACM Transactions on Graphics</i>, vol. 39, no. 4. Association for Computing Machinery, 2020.","chicago":"Skrivan, Tomas, Andreas Soderstrom, John Johansson, Christoph Sprenger, Ken Museth, and Chris Wojtan. “Wave Curves: Simulating Lagrangian Water Waves on Dynamically Deforming Surfaces.” <i>ACM Transactions on Graphics</i>. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3386569.3392466\">https://doi.org/10.1145/3386569.3392466</a>.","mla":"Skrivan, Tomas, et al. “Wave Curves: Simulating Lagrangian Water Waves on Dynamically Deforming Surfaces.” <i>ACM Transactions on Graphics</i>, vol. 39, no. 4, 65, Association for Computing Machinery, 2020, doi:<a href=\"https://doi.org/10.1145/3386569.3392466\">10.1145/3386569.3392466</a>.","apa":"Skrivan, T., Soderstrom, A., Johansson, J., Sprenger, C., Museth, K., &#38; Wojtan, C. (2020). Wave curves: Simulating Lagrangian water waves on dynamically deforming surfaces. <i>ACM Transactions on Graphics</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3386569.3392466\">https://doi.org/10.1145/3386569.3392466</a>","ista":"Skrivan T, Soderstrom A, Johansson J, Sprenger C, Museth K, Wojtan C. 2020. Wave curves: Simulating Lagrangian water waves on dynamically deforming surfaces. ACM Transactions on Graphics. 39(4), 65."},"intvolume":"        39","scopus_import":"1","file_date_updated":"2020-09-21T07:51:44Z","ddc":["000"],"project":[{"name":"Efficient Simulation of Natural Phenomena at Extremely Large Scales","call_identifier":"H2020","_id":"2533E772-B435-11E9-9278-68D0E5697425","grant_number":"638176"},{"call_identifier":"H2020","name":"International IST Doctoral Program","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"author":[{"first_name":"Tomas","last_name":"Skrivan","id":"486A5A46-F248-11E8-B48F-1D18A9856A87","full_name":"Skrivan, Tomas"},{"first_name":"Andreas","last_name":"Soderstrom","full_name":"Soderstrom, Andreas"},{"last_name":"Johansson","first_name":"John","full_name":"Johansson, John"},{"full_name":"Sprenger, Christoph","first_name":"Christoph","last_name":"Sprenger"},{"full_name":"Museth, Ken","first_name":"Ken","last_name":"Museth"},{"first_name":"Christopher J","orcid":"0000-0001-6646-5546","last_name":"Wojtan","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","full_name":"Wojtan, Christopher J"}],"isi":1,"file":[{"file_name":"2020_ACM_Skrivan.pdf","date_updated":"2020-09-21T07:51:44Z","date_created":"2020-09-21T07:51:44Z","checksum":"c3a680893f01cc4a9e961ff0a4cfa12f","creator":"dernst","file_id":"8541","access_level":"open_access","relation":"main_file","content_type":"application/pdf","success":1,"file_size":20223953}],"acknowledgement":"We wish to thank the anonymous reviewers and the members of the Visual Computing Group at IST Austria for their valuable feedback. This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing. This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme under grant agreement No. 638176 and Marie SkłodowskaCurie Grant Agreement No. 665385.","day":"08","publisher":"Association for Computing Machinery","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Wave curves: Simulating Lagrangian water waves on dynamically deforming surfaces","type":"journal_article","language":[{"iso":"eng"}],"department":[{"_id":"ChWo"}],"has_accepted_license":"1","date_created":"2020-09-20T22:01:37Z","publication":"ACM Transactions on Graphics","external_id":{"isi":["000583700300038"]},"volume":39,"quality_controlled":"1","article_processing_charge":"No","article_type":"original"},{"_id":"8536","article_number":"401-406","year":"2020","date_updated":"2023-08-07T13:36:24Z","abstract":[{"lang":"eng","text":"This work analyzes the latency of the simplified successive cancellation (SSC) decoding scheme for polar codes proposed by Alamdar-Yazdi and Kschischang. It is shown that, unlike conventional successive cancellation decoding, where latency is linear in the block length, the latency of SSC decoding is sublinear. More specifically, the latency of SSC decoding is O(N 1−1/µ ), where N is the block length and µ is the scaling exponent of the channel, which captures the speed of convergence of the rate to capacity. Numerical results demonstrate the tightness of the bound and show that most of the latency reduction arises from the parallel decoding of subcodes of rate 0 and 1."}],"arxiv":1,"month":"06","publication_identifier":{"issn":["21578095"],"isbn":["9781728164328"]},"oa":1,"status":"public","date_published":"2020-06-01T00:00:00Z","oa_version":"Preprint","publication_status":"published","conference":{"name":"ISIT: Internation Symposium on Information Theory","start_date":"2020-06-21","location":"Los Angeles, CA, United States","end_date":"2020-06-26"},"doi":"10.1109/ISIT44484.2020.9174141","citation":{"ama":"Mondelli M, Hashemi SA, Cioffi J, Goldsmith A. Simplified successive cancellation decoding of polar codes has sublinear latency. In: <i>IEEE International Symposium on Information Theory - Proceedings</i>. Vol 2020-June. IEEE; 2020. doi:<a href=\"https://doi.org/10.1109/ISIT44484.2020.9174141\">10.1109/ISIT44484.2020.9174141</a>","ieee":"M. Mondelli, S. A. Hashemi, J. Cioffi, and A. Goldsmith, “Simplified successive cancellation decoding of polar codes has sublinear latency,” in <i>IEEE International Symposium on Information Theory - Proceedings</i>, Los Angeles, CA, United States, 2020, vol. 2020–June.","short":"M. Mondelli, S.A. Hashemi, J. Cioffi, A. Goldsmith, in:, IEEE International Symposium on Information Theory - Proceedings, IEEE, 2020.","chicago":"Mondelli, Marco, Seyyed Ali Hashemi, John Cioffi, and Andrea Goldsmith. “Simplified Successive Cancellation Decoding of Polar Codes Has Sublinear Latency.” In <i>IEEE International Symposium on Information Theory - Proceedings</i>, Vol. 2020–June. IEEE, 2020. <a href=\"https://doi.org/10.1109/ISIT44484.2020.9174141\">https://doi.org/10.1109/ISIT44484.2020.9174141</a>.","mla":"Mondelli, Marco, et al. “Simplified Successive Cancellation Decoding of Polar Codes Has Sublinear Latency.” <i>IEEE International Symposium on Information Theory - Proceedings</i>, vol. 2020–June, 401–406, IEEE, 2020, doi:<a href=\"https://doi.org/10.1109/ISIT44484.2020.9174141\">10.1109/ISIT44484.2020.9174141</a>.","ista":"Mondelli M, Hashemi SA, Cioffi J, Goldsmith A. 2020. Simplified successive cancellation decoding of polar codes has sublinear latency. IEEE International Symposium on Information Theory - Proceedings. ISIT: Internation Symposium on Information Theory vol. 2020–June, 401–406.","apa":"Mondelli, M., Hashemi, S. A., Cioffi, J., &#38; Goldsmith, A. (2020). Simplified successive cancellation decoding of polar codes has sublinear latency. In <i>IEEE International Symposium on Information Theory - Proceedings</i> (Vol. 2020–June). Los Angeles, CA, United States: IEEE. <a href=\"https://doi.org/10.1109/ISIT44484.2020.9174141\">https://doi.org/10.1109/ISIT44484.2020.9174141</a>"},"scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1909.04892"}],"author":[{"orcid":"0000-0002-3242-7020","first_name":"Marco","id":"27EB676C-8706-11E9-9510-7717E6697425","last_name":"Mondelli","full_name":"Mondelli, Marco"},{"full_name":"Hashemi, Seyyed Ali","last_name":"Hashemi","first_name":"Seyyed Ali"},{"full_name":"Cioffi, John","first_name":"John","last_name":"Cioffi"},{"full_name":"Goldsmith, Andrea","first_name":"Andrea","last_name":"Goldsmith"}],"day":"01","acknowledgement":"M. Mondelli was partially supported by grants NSF DMS-1613091, CCF-1714305, IIS-1741162 and ONR N00014-18-1-2729. S. A. Hashemi is supported by a Postdoctoral Fellowship from the Natural Sciences and Engineering Research Council of Canada (NSERC) and by Huawei.","title":"Simplified successive cancellation decoding of polar codes has sublinear latency","publisher":"IEEE","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"department":[{"_id":"MaMo"}],"type":"conference","date_created":"2020-09-20T22:01:37Z","publication":"IEEE International Symposium on Information Theory - Proceedings","related_material":{"record":[{"id":"9047","relation":"later_version","status":"public"}]},"external_id":{"arxiv":["1909.04892"]},"volume":"2020-June","quality_controlled":"1","article_processing_charge":"No"},{"scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2001.02934"}],"citation":{"ista":"Akopyan A, Schwartz R, Tabachnikov S. 2020. Billiards in ellipses revisited. European Journal of Mathematics.","apa":"Akopyan, A., Schwartz, R., &#38; Tabachnikov, S. (2020). Billiards in ellipses revisited. <i>European Journal of Mathematics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s40879-020-00426-9\">https://doi.org/10.1007/s40879-020-00426-9</a>","mla":"Akopyan, Arseniy, et al. “Billiards in Ellipses Revisited.” <i>European Journal of Mathematics</i>, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1007/s40879-020-00426-9\">10.1007/s40879-020-00426-9</a>.","chicago":"Akopyan, Arseniy, Richard Schwartz, and Serge Tabachnikov. “Billiards in Ellipses Revisited.” <i>European Journal of Mathematics</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1007/s40879-020-00426-9\">https://doi.org/10.1007/s40879-020-00426-9</a>.","ama":"Akopyan A, Schwartz R, Tabachnikov S. Billiards in ellipses revisited. <i>European Journal of Mathematics</i>. 2020. doi:<a href=\"https://doi.org/10.1007/s40879-020-00426-9\">10.1007/s40879-020-00426-9</a>","ieee":"A. Akopyan, R. Schwartz, and S. Tabachnikov, “Billiards in ellipses revisited,” <i>European Journal of Mathematics</i>. Springer Nature, 2020.","short":"A. Akopyan, R. Schwartz, S. Tabachnikov, European Journal of Mathematics (2020)."},"doi":"10.1007/s40879-020-00426-9","publication_status":"published","date_published":"2020-09-09T00:00:00Z","oa_version":"Preprint","oa":1,"publication_identifier":{"issn":["2199-675X"],"eissn":["2199-6768"]},"status":"public","ec_funded":1,"month":"09","year":"2020","abstract":[{"lang":"eng","text":"We prove some recent experimental observations of Dan Reznik concerning periodic billiard orbits in ellipses. For example, the sum of cosines of the angles of a periodic billiard polygon remains constant in the 1-parameter family of such polygons (that exist due to the Poncelet porism). In our proofs, we use geometric and complex analytic methods."}],"arxiv":1,"date_updated":"2021-12-02T15:10:17Z","_id":"8538","article_processing_charge":"No","article_type":"original","quality_controlled":"1","external_id":{"arxiv":["2001.02934"]},"publication":"European Journal of Mathematics","date_created":"2020-09-20T22:01:38Z","department":[{"_id":"HeEd"}],"language":[{"iso":"eng"}],"type":"journal_article","title":"Billiards in ellipses revisited","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publisher":"Springer Nature","day":"09","acknowledgement":" This paper would not be written if not for Dan Reznik’s curiosity and persistence; we are very grateful to him. We also thank R. Garcia and J. Koiller for interesting discussions. It is a pleasure to thank the Mathematical Institute of the University of Heidelberg for its stimulating atmosphere. ST thanks M. Bialy for interesting discussions and the Tel Aviv\r\nUniversity for its invariable hospitality. AA was supported by European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 78818 Alpha). RS is supported by NSF Grant DMS-1807320. ST was supported by NSF grant DMS-1510055 and SFB/TRR 191.","author":[{"full_name":"Akopyan, Arseniy","last_name":"Akopyan","id":"430D2C90-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2548-617X","first_name":"Arseniy"},{"first_name":"Richard","last_name":"Schwartz","full_name":"Schwartz, Richard"},{"last_name":"Tabachnikov","first_name":"Serge","full_name":"Tabachnikov, Serge"}],"project":[{"_id":"266A2E9E-B435-11E9-9278-68D0E5697425","grant_number":"788183","call_identifier":"H2020","name":"Alpha Shape Theory Extended"}]},{"type":"journal_article","language":[{"iso":"eng"}],"department":[{"_id":"TaHa"}],"date_created":"2020-09-20T22:01:38Z","page":"663-671","publication":"Annales Scientifiques de l'Ecole Normale Superieure","external_id":{"isi":["000592182600004"],"arxiv":["1708.08013"]},"quality_controlled":"1","volume":53,"article_type":"original","article_processing_charge":"No","isi":1,"author":[{"full_name":"Su, C.","last_name":"Su","first_name":"C."},{"id":"2BC2AC5E-F248-11E8-B48F-1D18A9856A87","last_name":"Zhao","first_name":"Gufang","full_name":"Zhao, Gufang"},{"full_name":"Zhong, C.","last_name":"Zhong","first_name":"C."}],"day":"01","publisher":"Société Mathématique de France","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"On the K-theory stable bases of the springer resolution","oa_version":"Preprint","date_published":"2020-06-01T00:00:00Z","publication_status":"published","doi":"10.24033/asens.2431","citation":{"apa":"Su, C., Zhao, G., &#38; Zhong, C. (2020). On the K-theory stable bases of the springer resolution. <i>Annales Scientifiques de l’Ecole Normale Superieure</i>. Société Mathématique de France. <a href=\"https://doi.org/10.24033/asens.2431\">https://doi.org/10.24033/asens.2431</a>","ista":"Su C, Zhao G, Zhong C. 2020. On the K-theory stable bases of the springer resolution. Annales Scientifiques de l’Ecole Normale Superieure. 53(3), 663–671.","mla":"Su, C., et al. “On the K-Theory Stable Bases of the Springer Resolution.” <i>Annales Scientifiques de l’Ecole Normale Superieure</i>, vol. 53, no. 3, Société Mathématique de France, 2020, pp. 663–71, doi:<a href=\"https://doi.org/10.24033/asens.2431\">10.24033/asens.2431</a>.","chicago":"Su, C., Gufang Zhao, and C. Zhong. “On the K-Theory Stable Bases of the Springer Resolution.” <i>Annales Scientifiques de l’Ecole Normale Superieure</i>. Société Mathématique de France, 2020. <a href=\"https://doi.org/10.24033/asens.2431\">https://doi.org/10.24033/asens.2431</a>.","ieee":"C. Su, G. Zhao, and C. Zhong, “On the K-theory stable bases of the springer resolution,” <i>Annales Scientifiques de l’Ecole Normale Superieure</i>, vol. 53, no. 3. Société Mathématique de France, pp. 663–671, 2020.","ama":"Su C, Zhao G, Zhong C. On the K-theory stable bases of the springer resolution. <i>Annales Scientifiques de l’Ecole Normale Superieure</i>. 2020;53(3):663-671. doi:<a href=\"https://doi.org/10.24033/asens.2431\">10.24033/asens.2431</a>","short":"C. Su, G. Zhao, C. Zhong, Annales Scientifiques de l’Ecole Normale Superieure 53 (2020) 663–671."},"intvolume":"        53","scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1708.08013"}],"_id":"8539","date_updated":"2023-08-22T09:27:57Z","abstract":[{"text":"Cohomological and K-theoretic stable bases originated from the study of quantum cohomology and quantum K-theory. Restriction formula for cohomological stable bases played an important role in computing the quantum connection of cotangent bundle of partial flag varieties. In this paper we study the K-theoretic stable bases of cotangent bundles of flag varieties. We describe these bases in terms of the action of the affine Hecke algebra and the twisted group algebra of KostantKumar. Using this algebraic description and the method of root polynomials, we give a restriction formula of the stable bases. We apply it to obtain the restriction formula for partial flag varieties. We also build a relation between the stable basis and the Casselman basis in the principal series representations of the Langlands dual group. As an application, we give a closed formula for the transition matrix between Casselman basis and the characteristic functions.","lang":"eng"},{"lang":"fre","text":"Les bases stables cohomologiques et K-théoriques proviennent de l’étude de la cohomologie quantique et de la K-théorie quantique. La formule de restriction pour les bases stables cohomologiques a joué un rôle important dans le calcul de la connexion quantique du fibré cotangent de variétés de drapeaux partielles. Dans cet article, nous étudions les bases stables K-théoriques de fibré cotangents des variétés de drapeaux. Nous décrivons ces bases en fonction de l’action de l’algèbre de Hecke affine et de l’algèbre de Kostant-Kumar. En utilisant cette description algébrique et la méthode des polynômes de racine, nous donnons une formule de restriction des bases stables. Nous l’appliquons\r\npour obtenir la formule de restriction pour les variétés de drapeaux partielles. Nous construisons également une relation entre la base stable et la base de Casselman dans les représentations de la série principale du groupe dual de Langlands p-adique. Comme une application, nous donnons une formule close pour la matrice de transition entre la base de Casselman et les fonctions caractéristiques. "}],"issue":"3","arxiv":1,"year":"2020","month":"06","status":"public","publication_identifier":{"issn":["0012-9593"]},"oa":1},{"day":"18","year":"2020","date_updated":"2024-03-25T23:30:12Z","abstract":[{"lang":"eng","text":"The infiltration of immune cells into tissues underlies the establishment of tissue resident macrophages, and responses to infections and tumors. Yet the mechanisms immune cells utilize to negotiate tissue barriers in living organisms are not well understood, and a role for cortical actin has not been examined. Here we find that the tissue invasion of Drosophila macrophages, also known as plasmatocytes or hemocytes, utilizes enhanced cortical F-actin levels stimulated by the Drosophila member of the fos proto oncogene transcription factor family (Dfos, Kayak). RNA sequencing analysis and live imaging show that Dfos enhances F-actin levels around the entire macrophage surface by increasing mRNA levels of the membrane spanning molecular scaffold tetraspanin TM4SF, and the actin cross-linking filamin Cheerio which are themselves required for invasion. Cortical F-actin levels are critical as expressing a dominant active form of Diaphanous, a actin polymerizing Formin, can rescue the Dfos Dominant Negative macrophage invasion defect. In vivo imaging shows that Dfos is required to enhance the efficiency of the initial phases of macrophage tissue entry. Genetic evidence argues that this Dfos-induced program in macrophages counteracts the constraint produced by the tension of surrounding tissues and buffers the mechanical properties of the macrophage nucleus from affecting tissue entry. We thus identify tuning the cortical actin cytoskeleton through Dfos as a key process allowing efficient forward movement of an immune cell into surrounding tissues."}],"acknowledgement":"We thank the following for their contributions: The Drosophila Genomics Resource Center supported by NIH grant 2P40OD010949-10A1 for plasmids, K. Brueckner. B. Stramer, M. Uhlirova, O. Schuldiner, the Bloomington Drosophila Stock Center supported by NIH grant P40OD018537 and the Vienna Drosophila Resource Center for fly stocks, FlyBase (Thurmond et al., 2019) for essential genomic information, and the BDGP in situ database for data (Tomancak et al., 2002, 2007). For antibodies, we thank the Developmental Studies Hybridoma Bank, which was created by the Eunice Kennedy Shriver National Institute of Child Health and Human Development of the NIH, and is maintained at the University of Iowa, as well as J. Zeitlinger for her generous gift of Dfos antibody. We thank the Vienna BioCenter Core Facilities for RNA sequencing and analysis and the Life Scientific Service Units at IST Austria for technical support and assistance with microscopy and FACS analysis. We thank C.P. Heisenberg, P. Martin, M. Sixt and Siekhaus group members for discussions and T.Hurd, A. Ratheesh and P. Rangan for comments on the manuscript. A.G. was supported by the Austrian Science Fund (FWF) grant DASI_FWF01_P29638S, D.E.S. by Marie Curie CIG 334077/IRTIM. M.S. is supported by the FWF, PhD program W1212 915 and the European Research Council (ERC) Advanced grant (ERC-2015-AdG TNT-Tumors 694883). S.W. is supported by an OEAW, DOC fellowship.","_id":"8557","project":[{"grant_number":"P29638","_id":"253B6E48-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Drosophila TNFa´s Funktion in Immunzellen"},{"name":"Investigating the role of transporters in invasive migration through junctions","call_identifier":"FP7","grant_number":"334077","_id":"2536F660-B435-11E9-9278-68D0E5697425"},{"_id":"26199CA4-B435-11E9-9278-68D0E5697425","grant_number":"24800","name":"Tissue barrier penetration is crucial for immunity and metastasis"}],"acknowledged_ssus":[{"_id":"LifeSc"}],"author":[{"full_name":"Belyaeva, Vera","first_name":"Vera","last_name":"Belyaeva","id":"47F080FE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Wachner, Stephanie","last_name":"Wachner","id":"2A95E7B0-F248-11E8-B48F-1D18A9856A87","first_name":"Stephanie"},{"full_name":"Gridchyn, Igor","orcid":"0000-0002-1807-1929","first_name":"Igor","last_name":"Gridchyn","id":"4B60654C-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Linder, Markus","first_name":"Markus","last_name":"Linder"},{"full_name":"Emtenani, Shamsi","first_name":"Shamsi","orcid":"0000-0001-6981-6938","id":"49D32318-F248-11E8-B48F-1D18A9856A87","last_name":"Emtenani"},{"orcid":"0000-0002-1819-198X","first_name":"Attila","last_name":"György","id":"3BCEDBE0-F248-11E8-B48F-1D18A9856A87","full_name":"György, Attila"},{"first_name":"Maria","last_name":"Sibilia","full_name":"Sibilia, Maria"},{"orcid":"0000-0001-8323-8353","first_name":"Daria E","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","last_name":"Siekhaus","full_name":"Siekhaus, Daria E"}],"title":"Cortical actin properties controlled by Drosophila Fos aid macrophage infiltration against surrounding tissue resistance","oa":1,"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ec_funded":1,"month":"09","date_created":"2020-09-23T09:36:47Z","publication":"bioRxiv","publication_status":"submitted","doi":"10.1101/2020.09.18.301481","language":[{"iso":"eng"}],"department":[{"_id":"DaSi"},{"_id":"JoCs"}],"date_published":"2020-09-18T00:00:00Z","type":"preprint","oa_version":"Preprint","main_file_link":[{"url":"https://doi.org/10.1101/2020.09.18.301481","open_access":"1"}],"article_processing_charge":"No","related_material":{"record":[{"id":"10614","status":"public","relation":"later_version"},{"id":"8983","status":"public","relation":"dissertation_contains"}]},"citation":{"short":"V. Belyaeva, S. Wachner, I. Gridchyn, M. Linder, S. Emtenani, A. György, M. Sibilia, D.E. Siekhaus, BioRxiv (n.d.).","ama":"Belyaeva V, Wachner S, Gridchyn I, et al. Cortical actin properties controlled by Drosophila Fos aid macrophage infiltration against surrounding tissue resistance. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2020.09.18.301481\">10.1101/2020.09.18.301481</a>","ieee":"V. Belyaeva <i>et al.</i>, “Cortical actin properties controlled by Drosophila Fos aid macrophage infiltration against surrounding tissue resistance,” <i>bioRxiv</i>. .","chicago":"Belyaeva, Vera, Stephanie Wachner, Igor Gridchyn, Markus Linder, Shamsi Emtenani, Attila György, Maria Sibilia, and Daria E Siekhaus. “Cortical Actin Properties Controlled by Drosophila Fos Aid Macrophage Infiltration against Surrounding Tissue Resistance.” <i>BioRxiv</i>, n.d. <a href=\"https://doi.org/10.1101/2020.09.18.301481\">https://doi.org/10.1101/2020.09.18.301481</a>.","apa":"Belyaeva, V., Wachner, S., Gridchyn, I., Linder, M., Emtenani, S., György, A., … Siekhaus, D. E. (n.d.). Cortical actin properties controlled by Drosophila Fos aid macrophage infiltration against surrounding tissue resistance. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2020.09.18.301481\">https://doi.org/10.1101/2020.09.18.301481</a>","mla":"Belyaeva, Vera, et al. “Cortical Actin Properties Controlled by Drosophila Fos Aid Macrophage Infiltration against Surrounding Tissue Resistance.” <i>BioRxiv</i>, doi:<a href=\"https://doi.org/10.1101/2020.09.18.301481\">10.1101/2020.09.18.301481</a>.","ista":"Belyaeva V, Wachner S, Gridchyn I, Linder M, Emtenani S, György A, Sibilia M, Siekhaus DE. Cortical actin properties controlled by Drosophila Fos aid macrophage infiltration against surrounding tissue resistance. bioRxiv, <a href=\"https://doi.org/10.1101/2020.09.18.301481\">10.1101/2020.09.18.301481</a>."}},{"date_published":"2020-11-26T00:00:00Z","oa_version":"Submitted Version","publication_status":"published","doi":"10.1145/3414685.3417843","citation":{"ieee":"K. Gavriil <i>et al.</i>, “Computational design of cold bent glass façades,” <i>ACM Transactions on Graphics</i>, vol. 39, no. 6. Association for Computing Machinery, 2020.","ama":"Gavriil K, Guseinov R, Perez Rodriguez J, et al. Computational design of cold bent glass façades. <i>ACM Transactions on Graphics</i>. 2020;39(6). doi:<a href=\"https://doi.org/10.1145/3414685.3417843\">10.1145/3414685.3417843</a>","short":"K. Gavriil, R. Guseinov, J. Perez Rodriguez, D. Pellis, P.M. Henderson, F. Rist, H. Pottmann, B. Bickel, ACM Transactions on Graphics 39 (2020).","chicago":"Gavriil, Konstantinos, Ruslan Guseinov, Jesus Perez Rodriguez, Davide Pellis, Paul M Henderson, Florian Rist, Helmut Pottmann, and Bernd Bickel. “Computational Design of Cold Bent Glass Façades.” <i>ACM Transactions on Graphics</i>. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3414685.3417843\">https://doi.org/10.1145/3414685.3417843</a>.","ista":"Gavriil K, Guseinov R, Perez Rodriguez J, Pellis D, Henderson PM, Rist F, Pottmann H, Bickel B. 2020. Computational design of cold bent glass façades. ACM Transactions on Graphics. 39(6), 208.","apa":"Gavriil, K., Guseinov, R., Perez Rodriguez, J., Pellis, D., Henderson, P. M., Rist, F., … Bickel, B. (2020). Computational design of cold bent glass façades. <i>ACM Transactions on Graphics</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3414685.3417843\">https://doi.org/10.1145/3414685.3417843</a>","mla":"Gavriil, Konstantinos, et al. “Computational Design of Cold Bent Glass Façades.” <i>ACM Transactions on Graphics</i>, vol. 39, no. 6, 208, Association for Computing Machinery, 2020, doi:<a href=\"https://doi.org/10.1145/3414685.3417843\">10.1145/3414685.3417843</a>."},"intvolume":"        39","ddc":["000"],"scopus_import":"1","file_date_updated":"2023-05-23T20:54:43Z","_id":"8562","article_number":"208","acknowledged_ssus":[{"_id":"ScienComp"}],"year":"2020","date_updated":"2024-02-21T12:43:21Z","abstract":[{"text":"Cold bent glass is a promising and cost-efficient method for realizing doubly curved glass facades. They are produced by attaching planar glass sheets to curved frames and require keeping the occurring stress within safe limits.\r\nHowever, it is very challenging to navigate the design space of cold bent glass panels due to the fragility of the material, which impedes the form-finding for practically feasible and aesthetically pleasing cold bent glass facades. We propose an interactive, data-driven approach for designing cold bent glass facades that can be seamlessly integrated into a typical architectural design pipeline. Our method allows non-expert users to interactively edit a parametric surface while providing real-time feedback on the deformed shape and maximum stress of cold bent glass panels. Designs are automatically refined to minimize several fairness criteria while maximal stresses are kept within glass limits. We achieve interactive frame rates by using a differentiable Mixture Density Network trained from more than a million simulations. Given a curved boundary, our regression model is capable of handling multistable\r\nconfigurations and accurately predicting the equilibrium shape of the panel and its corresponding maximal stress. We show predictions are highly accurate and validate our results with a physical realization of a cold bent glass surface.","lang":"eng"}],"issue":"6","arxiv":1,"ec_funded":1,"month":"11","oa":1,"publication_identifier":{"eissn":["1557-7368"],"issn":["0730-0301"]},"status":"public","language":[{"iso":"eng"}],"department":[{"_id":"BeBi"}],"type":"journal_article","date_created":"2020-09-23T11:30:02Z","publication":"ACM Transactions on Graphics","has_accepted_license":"1","related_material":{"link":[{"url":"https://ist.ac.at/en/news/bend-dont-break/","description":"News on IST Homepage","relation":"press_release"}],"record":[{"id":"8366","relation":"dissertation_contains","status":"public"},{"status":"public","relation":"research_data","id":"8761"}]},"external_id":{"arxiv":["2009.03667"],"isi":["000595589100048"]},"volume":39,"quality_controlled":"1","article_processing_charge":"No","article_type":"original","file":[{"relation":"main_file","content_type":"application/pdf","success":1,"file_size":28964641,"file_name":"coldglass.pdf","date_updated":"2023-05-23T20:54:43Z","date_created":"2023-05-23T20:54:43Z","checksum":"c7f67717ad74e670b7daeae732abe151","file_id":"13084","creator":"bbickel","access_level":"open_access"}],"project":[{"_id":"24F9549A-B435-11E9-9278-68D0E5697425","grant_number":"715767","call_identifier":"H2020","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling"}],"isi":1,"author":[{"first_name":"Konstantinos","last_name":"Gavriil","full_name":"Gavriil, Konstantinos"},{"first_name":"Ruslan","orcid":"0000-0001-9819-5077","last_name":"Guseinov","id":"3AB45EE2-F248-11E8-B48F-1D18A9856A87","full_name":"Guseinov, Ruslan"},{"full_name":"Perez Rodriguez, Jesus","first_name":"Jesus","last_name":"Perez Rodriguez","id":"2DC83906-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Pellis, Davide","first_name":"Davide","last_name":"Pellis"},{"id":"13C09E74-18D9-11E9-8878-32CFE5697425","last_name":"Henderson","first_name":"Paul M","orcid":"0000-0002-5198-7445","full_name":"Henderson, Paul M"},{"full_name":"Rist, Florian","first_name":"Florian","last_name":"Rist"},{"full_name":"Pottmann, Helmut","first_name":"Helmut","last_name":"Pottmann"},{"first_name":"Bernd","orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","last_name":"Bickel","full_name":"Bickel, Bernd"}],"day":"26","acknowledgement":"We thank IST Austria’s Scientific Computing team for their support, Corinna Datsiou and Sophie Pennetier for their expert input on the practical applications of cold bent glass, and Zaha Hadid Architects and Waagner Biro for providing the architectural datasets. Photo of Fondation Louis Vuitton by Francisco Anzola / CC BY 2.0 / cropped.\r\nPhoto of Opus by Danica O. Kus. This project has received funding from the European Union’s\r\nHorizon 2020 research and innovation program under grant agreement No 675789 - Algebraic Representations in Computer-Aided Design for complEx Shapes (ARCADES), from the European Research Council (ERC) under grant agreement No 715767 - MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling, and SFB-Transregio “Discretization in Geometry and Dynamics” through grant I 2978 of the Austrian Science Fund (FWF). F. Rist and K. Gavriil have been partially supported by KAUST baseline funding.","title":"Computational design of cold bent glass façades","publisher":"Association for Computing Machinery","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8"},{"ddc":["570"],"file_date_updated":"2020-10-19T10:12:29Z","article_processing_charge":"No","related_material":{"record":[{"id":"8740","relation":"used_in_publication","status":"public"}]},"citation":{"chicago":"Csicsvari, Jozsef L, Igor Gridchyn, and Philipp Schönenberger. “Optogenetic Alteration of Hippocampal Network Activity.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8563\">https://doi.org/10.15479/AT:ISTA:8563</a>.","apa":"Csicsvari, J. L., Gridchyn, I., &#38; Schönenberger, P. (2020). Optogenetic alteration of hippocampal network activity. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8563\">https://doi.org/10.15479/AT:ISTA:8563</a>","mla":"Csicsvari, Jozsef L., et al. <i>Optogenetic Alteration of Hippocampal Network Activity</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8563\">10.15479/AT:ISTA:8563</a>.","ista":"Csicsvari JL, Gridchyn I, Schönenberger P. 2020. Optogenetic alteration of hippocampal network activity, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:8563\">10.15479/AT:ISTA:8563</a>.","ieee":"J. L. Csicsvari, I. Gridchyn, and P. Schönenberger, “Optogenetic alteration of hippocampal network activity.” Institute of Science and Technology Austria, 2020.","ama":"Csicsvari JL, Gridchyn I, Schönenberger P. Optogenetic alteration of hippocampal network activity. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8563\">10.15479/AT:ISTA:8563</a>","short":"J.L. Csicsvari, I. Gridchyn, P. Schönenberger, (2020)."},"date_created":"2020-09-23T14:39:54Z","has_accepted_license":"1","doi":"10.15479/AT:ISTA:8563","department":[{"_id":"JoCs"}],"date_published":"2020-10-19T00:00:00Z","oa_version":"Published Version","type":"research_data","title":"Optogenetic alteration of hippocampal network activity","oa":1,"publisher":"Institute of Science and Technology Austria","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","contributor":[{"contributor_type":"project_leader","first_name":"Jozsef L","orcid":"0000-0002-5193-4036","last_name":"Csicsvari","id":"3FA14672-F248-11E8-B48F-1D18A9856A87"}],"month":"10","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"day":"19","year":"2020","date_updated":"2024-02-21T12:43:41Z","abstract":[{"text":"Supplementary data  provided for the provided for the publication:\r\nIgor Gridchyn , Philipp Schoenenberger , Joseph O'Neill , Jozsef Csicsvari (2020) Optogenetic inhibition-mediated activity-dependent modification of CA1 pyramidal-interneuron connections during behavior. Elife.","lang":"eng"}],"file":[{"relation":"main_file","content_type":"application/x-compressed","file_size":145243906,"success":1,"creator":"jozsef","checksum":"a16098a6d172f9c42ab5af5f6991668c","file_id":"8564","access_level":"open_access","date_updated":"2020-09-23T14:36:17Z","file_name":"upload.tgz","date_created":"2020-09-23T14:36:17Z"},{"relation":"main_file","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","success":1,"file_size":11648,"file_id":"8675","creator":"jozsef","checksum":"0bfc54b7e14c0694cd081617318ba606","access_level":"open_access","file_name":"redme.docx","date_updated":"2020-10-19T10:12:29Z","date_created":"2020-10-19T10:12:29Z"}],"_id":"8563","author":[{"orcid":"0000-0002-5193-4036","first_name":"Jozsef L","last_name":"Csicsvari","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","full_name":"Csicsvari, Jozsef L"},{"first_name":"Igor","orcid":"0000-0002-1807-1929","last_name":"Gridchyn","id":"4B60654C-F248-11E8-B48F-1D18A9856A87","full_name":"Gridchyn, Igor"},{"id":"3B9D816C-F248-11E8-B48F-1D18A9856A87","last_name":"Schönenberger","first_name":"Philipp","full_name":"Schönenberger, Philipp"}]},{"article_type":"original","article_processing_charge":"No","keyword":["General Biochemistry","Genetics and Molecular Biology","General Physics and Astronomy","General Chemistry"],"quality_controlled":"1","volume":11,"external_id":{"isi":["000573756600004"]},"related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1038/s41467-020-19720-x"}]},"has_accepted_license":"1","publication":"Nature Communications","date_created":"2020-09-25T07:23:13Z","type":"journal_article","department":[{"_id":"StFr"}],"language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"Springer Nature","title":"Persistent and reversible solid iodine electrodeposition in nanoporous carbons","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"day":"24","author":[{"full_name":"Prehal, Christian","last_name":"Prehal","first_name":"Christian"},{"last_name":"Fitzek","first_name":"Harald","full_name":"Fitzek, Harald"},{"full_name":"Kothleitner, Gerald","last_name":"Kothleitner","first_name":"Gerald"},{"last_name":"Presser","first_name":"Volker","full_name":"Presser, Volker"},{"full_name":"Gollas, Bernhard","last_name":"Gollas","first_name":"Bernhard"},{"full_name":"Freunberger, Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","last_name":"Freunberger","first_name":"Stefan Alexander","orcid":"0000-0003-2902-5319"},{"full_name":"Abbas, Qamar","first_name":"Qamar","last_name":"Abbas"}],"isi":1,"file":[{"date_updated":"2020-09-28T13:16:15Z","file_name":"2020_NatureComm_Prehal.pdf","date_created":"2020-09-28T13:16:15Z","creator":"dernst","file_id":"8585","checksum":"eada7bc8dd16a49390137cff882ef328","access_level":"open_access","relation":"main_file","content_type":"application/pdf","success":1,"file_size":1822469}],"file_date_updated":"2020-09-28T13:16:15Z","ddc":["530"],"citation":{"apa":"Prehal, C., Fitzek, H., Kothleitner, G., Presser, V., Gollas, B., Freunberger, S. A., &#38; Abbas, Q. (2020). Persistent and reversible solid iodine electrodeposition in nanoporous carbons. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-020-18610-6\">https://doi.org/10.1038/s41467-020-18610-6</a>","mla":"Prehal, Christian, et al. “Persistent and Reversible Solid Iodine Electrodeposition in Nanoporous Carbons.” <i>Nature Communications</i>, vol. 11, 4838, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41467-020-18610-6\">10.1038/s41467-020-18610-6</a>.","ista":"Prehal C, Fitzek H, Kothleitner G, Presser V, Gollas B, Freunberger SA, Abbas Q. 2020. Persistent and reversible solid iodine electrodeposition in nanoporous carbons. Nature Communications. 11, 4838.","chicago":"Prehal, Christian, Harald Fitzek, Gerald Kothleitner, Volker Presser, Bernhard Gollas, Stefan Alexander Freunberger, and Qamar Abbas. “Persistent and Reversible Solid Iodine Electrodeposition in Nanoporous Carbons.” <i>Nature Communications</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41467-020-18610-6\">https://doi.org/10.1038/s41467-020-18610-6</a>.","ama":"Prehal C, Fitzek H, Kothleitner G, et al. Persistent and reversible solid iodine electrodeposition in nanoporous carbons. <i>Nature Communications</i>. 2020;11. doi:<a href=\"https://doi.org/10.1038/s41467-020-18610-6\">10.1038/s41467-020-18610-6</a>","ieee":"C. Prehal <i>et al.</i>, “Persistent and reversible solid iodine electrodeposition in nanoporous carbons,” <i>Nature Communications</i>, vol. 11. Springer Nature, 2020.","short":"C. Prehal, H. Fitzek, G. Kothleitner, V. Presser, B. Gollas, S.A. Freunberger, Q. Abbas, Nature Communications 11 (2020)."},"intvolume":"        11","doi":"10.1038/s41467-020-18610-6","publication_status":"published","oa_version":"Published Version","date_published":"2020-09-24T00:00:00Z","status":"public","oa":1,"publication_identifier":{"issn":["2041-1723"]},"month":"09","abstract":[{"text":"Aqueous iodine based electrochemical energy storage is considered a potential candidate to improve sustainability and performance of current battery and supercapacitor technology. It harnesses the redox activity of iodide, iodine, and polyiodide species in the confined geometry of nanoporous carbon electrodes. However, current descriptions of the electrochemical reaction mechanism to interconvert these species are elusive. Here we show that electrochemical oxidation of iodide in nanoporous carbons forms persistent solid iodine deposits. Confinement slows down dissolution into triiodide and pentaiodide, responsible for otherwise significant self-discharge via shuttling. The main tools for these insights are in situ Raman spectroscopy and in situ small and wide-angle X-ray scattering (in situ SAXS/WAXS). In situ Raman confirms the reversible formation of triiodide and pentaiodide. In situ SAXS/WAXS indicates remarkable amounts of solid iodine deposited in the carbon nanopores. Combined with stochastic modeling, in situ SAXS allows quantifying the solid iodine volume fraction and visualizing the iodine structure on 3D lattice models at the sub-nanometer scale. Based on the derived mechanism, we demonstrate strategies for improved iodine pore filling capacity and prevention of self-discharge, applicable to hybrid supercapacitors and batteries.","lang":"eng"}],"date_updated":"2023-08-22T09:37:24Z","year":"2020","article_number":"4838","_id":"8568"},{"ddc":["570"],"file_date_updated":"2020-09-28T13:11:17Z","scopus_import":"1","citation":{"ama":"Hansen AH, Hippenmeyer S. Non-cell-autonomous mechanisms in radial projection neuron migration in the developing cerebral cortex. <i>Frontiers in Cell and Developmental Biology</i>. 2020;8(9). doi:<a href=\"https://doi.org/10.3389/fcell.2020.574382\">10.3389/fcell.2020.574382</a>","ieee":"A. H. Hansen and S. Hippenmeyer, “Non-cell-autonomous mechanisms in radial projection neuron migration in the developing cerebral cortex,” <i>Frontiers in Cell and Developmental Biology</i>, vol. 8, no. 9. Frontiers, 2020.","short":"A.H. Hansen, S. Hippenmeyer, Frontiers in Cell and Developmental Biology 8 (2020).","chicago":"Hansen, Andi H, and Simon Hippenmeyer. “Non-Cell-Autonomous Mechanisms in Radial Projection Neuron Migration in the Developing Cerebral Cortex.” <i>Frontiers in Cell and Developmental Biology</i>. Frontiers, 2020. <a href=\"https://doi.org/10.3389/fcell.2020.574382\">https://doi.org/10.3389/fcell.2020.574382</a>.","apa":"Hansen, A. H., &#38; Hippenmeyer, S. (2020). Non-cell-autonomous mechanisms in radial projection neuron migration in the developing cerebral cortex. <i>Frontiers in Cell and Developmental Biology</i>. Frontiers. <a href=\"https://doi.org/10.3389/fcell.2020.574382\">https://doi.org/10.3389/fcell.2020.574382</a>","ista":"Hansen AH, Hippenmeyer S. 2020. Non-cell-autonomous mechanisms in radial projection neuron migration in the developing cerebral cortex. Frontiers in Cell and Developmental Biology. 8(9), 574382.","mla":"Hansen, Andi H., and Simon Hippenmeyer. “Non-Cell-Autonomous Mechanisms in Radial Projection Neuron Migration in the Developing Cerebral Cortex.” <i>Frontiers in Cell and Developmental Biology</i>, vol. 8, no. 9, 574382, Frontiers, 2020, doi:<a href=\"https://doi.org/10.3389/fcell.2020.574382\">10.3389/fcell.2020.574382</a>."},"intvolume":"         8","doi":"10.3389/fcell.2020.574382","publication_status":"published","date_published":"2020-09-25T00:00:00Z","oa_version":"Published Version","publication_identifier":{"issn":["2296-634X"]},"oa":1,"status":"public","ec_funded":1,"month":"09","year":"2020","issue":"9","abstract":[{"lang":"eng","text":"Concerted radial migration of newly born cortical projection neurons, from their birthplace to their final target lamina, is a key step in the assembly of the cerebral cortex. The cellular and molecular mechanisms regulating the specific sequential steps of radial neuronal migration in vivo are however still unclear, let alone the effects and interactions with the extracellular environment. In any in vivo context, cells will always be exposed to a complex extracellular environment consisting of (1) secreted factors acting as potential signaling cues, (2) the extracellular matrix, and (3) other cells providing cell–cell interaction through receptors and/or direct physical stimuli. Most studies so far have described and focused mainly on intrinsic cell-autonomous gene functions in neuronal migration but there is accumulating evidence that non-cell-autonomous-, local-, systemic-, and/or whole tissue-wide effects substantially contribute to the regulation of radial neuronal migration. These non-cell-autonomous effects may differentially affect cortical neuron migration in distinct cellular environments. However, the cellular and molecular natures of such non-cell-autonomous mechanisms are mostly unknown. Furthermore, physical forces due to collective migration and/or community effects (i.e., interactions with surrounding cells) may play important roles in neocortical projection neuron migration. In this concise review, we first outline distinct models of non-cell-autonomous interactions of cortical projection neurons along their radial migration trajectory during development. We then summarize experimental assays and platforms that can be utilized to visualize and potentially probe non-cell-autonomous mechanisms. Lastly, we define key questions to address in the future."}],"date_updated":"2024-03-25T23:30:23Z","_id":"8569","article_number":"574382","article_type":"original","article_processing_charge":"Yes (via OA deal)","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"9962"}]},"quality_controlled":"1","volume":8,"external_id":{"isi":["000577915900001"],"pmid":["33102480"]},"publication":"Frontiers in Cell and Developmental Biology","date_created":"2020-09-26T06:11:07Z","has_accepted_license":"1","department":[{"_id":"SiHi"}],"language":[{"iso":"eng"}],"type":"journal_article","title":"Non-cell-autonomous mechanisms in radial projection neuron migration in the developing cerebral cortex","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"Frontiers","day":"25","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"pmid":1,"acknowledgement":"AH was a recipient of a DOC Fellowship (24812) of the Austrian Academy of Sciences. This work also received support from IST Austria institutional funds; the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007–2013) under REA Grant Agreement No. 618444 to SH.","file":[{"checksum":"01f731824194c94c81a5da360d997073","file_id":"8584","creator":"dernst","access_level":"open_access","date_updated":"2020-09-28T13:11:17Z","file_name":"2020_Frontiers_Hansen.pdf","date_created":"2020-09-28T13:11:17Z","content_type":"application/pdf","relation":"main_file","file_size":5527139,"success":1}],"author":[{"full_name":"Hansen, Andi H","first_name":"Andi H","last_name":"Hansen","id":"38853E16-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hippenmeyer, Simon","first_name":"Simon","orcid":"0000-0003-2279-1061","last_name":"Hippenmeyer","id":"37B36620-F248-11E8-B48F-1D18A9856A87"}],"isi":1,"project":[{"grant_number":"24812","_id":"2625A13E-B435-11E9-9278-68D0E5697425","name":"Molecular Mechanisms of Radial Neuronal Migration"},{"call_identifier":"FP7","name":"Molecular Mechanisms of Cerebral Cortex Development","_id":"25D61E48-B435-11E9-9278-68D0E5697425","grant_number":"618444"}]},{"conference":{"start_date":"2020-07-12","name":"ARCH: International Workshop on Applied Verification on Continuous and Hybrid Systems","end_date":"2020-07-12"},"publication_status":"published","doi":"10.29007/zkf6","oa_version":"Published Version","date_published":"2020-09-25T00:00:00Z","main_file_link":[{"open_access":"1","url":"https://easychair.org/publications/download/nrdD"}],"intvolume":"        74","citation":{"short":"L. Geretti, J. Alexandre Dit Sandretto, M. Althoff, L. Benet, A. Chapoutot, X. Chen, P. Collins, M. Forets, D. Freire, F. Immler, N. Kochdumper, D. Sanders, C. Schilling, in:, EPiC Series in Computing, EasyChair, 2020, pp. 49–75.","ieee":"L. Geretti <i>et al.</i>, “ARCH-COMP20 Category Report: Continuous and hybrid systems with nonlinear dynamics,” in <i>EPiC Series in Computing</i>, 2020, vol. 74, pp. 49–75.","ama":"Geretti L, Alexandre Dit Sandretto J, Althoff M, et al. ARCH-COMP20 Category Report: Continuous and hybrid systems with nonlinear dynamics. In: <i>EPiC Series in Computing</i>. Vol 74. EasyChair; 2020:49-75. doi:<a href=\"https://doi.org/10.29007/zkf6\">10.29007/zkf6</a>","mla":"Geretti, Luca, et al. “ARCH-COMP20 Category Report: Continuous and Hybrid Systems with Nonlinear Dynamics.” <i>EPiC Series in Computing</i>, vol. 74, EasyChair, 2020, pp. 49–75, doi:<a href=\"https://doi.org/10.29007/zkf6\">10.29007/zkf6</a>.","ista":"Geretti L, Alexandre Dit Sandretto J, Althoff M, Benet L, Chapoutot A, Chen X, Collins P, Forets M, Freire D, Immler F, Kochdumper N, Sanders D, Schilling C. 2020. ARCH-COMP20 Category Report: Continuous and hybrid systems with nonlinear dynamics. EPiC Series in Computing. ARCH: International Workshop on Applied Verification on Continuous and Hybrid Systems vol. 74, 49–75.","apa":"Geretti, L., Alexandre Dit Sandretto, J., Althoff, M., Benet, L., Chapoutot, A., Chen, X., … Schilling, C. (2020). ARCH-COMP20 Category Report: Continuous and hybrid systems with nonlinear dynamics. In <i>EPiC Series in Computing</i> (Vol. 74, pp. 49–75). EasyChair. <a href=\"https://doi.org/10.29007/zkf6\">https://doi.org/10.29007/zkf6</a>","chicago":"Geretti, Luca, Julien Alexandre Dit Sandretto, Matthias Althoff, Luis Benet, Alexandre Chapoutot, Xin Chen, Pieter Collins, et al. “ARCH-COMP20 Category Report: Continuous and Hybrid Systems with Nonlinear Dynamics.” In <i>EPiC Series in Computing</i>, 74:49–75. EasyChair, 2020. <a href=\"https://doi.org/10.29007/zkf6\">https://doi.org/10.29007/zkf6</a>."},"date_updated":"2021-01-12T08:20:06Z","abstract":[{"text":"We present the results of a friendly competition for formal verification of continuous and hybrid systems with nonlinear continuous dynamics. The friendly competition took place as part of the workshop Applied Verification for Continuous and Hybrid Systems (ARCH) in 2020. This year, 6 tools Ariadne, CORA, DynIbex, Flow*, Isabelle/HOL, and JuliaReach (in alphabetic order) participated. These tools are applied to solve reachability analysis problems on six benchmark problems, two of them featuring hybrid dynamics. We do not rank the tools based on the results, but show the current status and discover the potential advantages of different tools.","lang":"eng"}],"year":"2020","_id":"8571","status":"public","oa":1,"month":"09","ec_funded":1,"date_created":"2020-09-26T14:41:29Z","page":"49-75","publication":"EPiC Series in Computing","type":"conference","language":[{"iso":"eng"}],"department":[{"_id":"ToHe"}],"article_processing_charge":"No","quality_controlled":"1","volume":74,"acknowledgement":"Christian Schilling acknowledges support in part by the Austrian Science Fund (FWF) under grant Z211-N23 (Wittgenstein Award) and the European Union’s Horizon 2020 research and innovation programme under the Marie Sk lodowska-Curie grant agreement No. 754411.","day":"25","project":[{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"},{"name":"The Wittgenstein Prize","call_identifier":"FWF","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425"}],"author":[{"full_name":"Geretti, Luca","first_name":"Luca","last_name":"Geretti"},{"last_name":"Alexandre Dit Sandretto","first_name":"Julien","full_name":"Alexandre Dit Sandretto, Julien"},{"full_name":"Althoff, Matthias","first_name":"Matthias","last_name":"Althoff"},{"first_name":"Luis","last_name":"Benet","full_name":"Benet, Luis"},{"full_name":"Chapoutot, Alexandre","last_name":"Chapoutot","first_name":"Alexandre"},{"full_name":"Chen, Xin","first_name":"Xin","last_name":"Chen"},{"full_name":"Collins, Pieter","first_name":"Pieter","last_name":"Collins"},{"full_name":"Forets, Marcelo","first_name":"Marcelo","last_name":"Forets"},{"full_name":"Freire, Daniel","last_name":"Freire","first_name":"Daniel"},{"last_name":"Immler","first_name":"Fabian","full_name":"Immler, Fabian"},{"first_name":"Niklas","last_name":"Kochdumper","full_name":"Kochdumper, Niklas"},{"full_name":"Sanders, David","last_name":"Sanders","first_name":"David"},{"first_name":"Christian","orcid":"0000-0003-3658-1065","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87","last_name":"Schilling","full_name":"Schilling, Christian"}],"publisher":"EasyChair","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"ARCH-COMP20 Category Report: Continuous and hybrid systems with nonlinear dynamics"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"EasyChair","title":"ARCH-COMP20 Category Report: Continuous and hybrid systems with linear dynamics","author":[{"first_name":"Matthias","last_name":"Althoff","full_name":"Althoff, Matthias"},{"full_name":"Bak, Stanley","first_name":"Stanley","last_name":"Bak"},{"last_name":"Bao","first_name":"Zongnan","full_name":"Bao, Zongnan"},{"full_name":"Forets, Marcelo","first_name":"Marcelo","last_name":"Forets"},{"full_name":"Frehse, Goran","first_name":"Goran","last_name":"Frehse"},{"first_name":"Daniel","last_name":"Freire","full_name":"Freire, Daniel"},{"last_name":"Kochdumper","first_name":"Niklas","full_name":"Kochdumper, Niklas"},{"first_name":"Yangge","last_name":"Li","full_name":"Li, Yangge"},{"full_name":"Mitra, Sayan","first_name":"Sayan","last_name":"Mitra"},{"full_name":"Ray, Rajarshi","first_name":"Rajarshi","last_name":"Ray"},{"full_name":"Schilling, Christian","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87","last_name":"Schilling","first_name":"Christian","orcid":"0000-0003-3658-1065"},{"last_name":"Schupp","first_name":"Stefan","full_name":"Schupp, Stefan"},{"last_name":"Wetzlinger","first_name":"Mark","full_name":"Wetzlinger, Mark"}],"project":[{"call_identifier":"FWF","name":"The Wittgenstein Prize","_id":"25C5A090-B435-11E9-9278-68D0E5697425","grant_number":"Z00312"},{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"}],"acknowledgement":"The authors gratefully acknowledge financial support by the European Commission project\r\njustITSELF under grant number 817629, by the Austrian Science Fund (FWF) under grant\r\nZ211-N23 (Wittgenstein Award), by the European Union’s Horizon 2020 research and innovation programme under the Marie Sk lodowska-Curie grant agreement No. 754411, and by the\r\nScience and Engineering Research Board (SERB) project with file number IMP/2018/000523.\r\nThis material is based upon work supported by the Air Force Office of Scientific Research under\r\naward number FA9550-19-1-0288. Any opinions, finding, and conclusions or recommendations\r\nexpressed in this material are those of the author(s) and do not necessarily reflect the views of\r\nthe United States Air Force.","day":"25","quality_controlled":"1","volume":74,"article_processing_charge":"No","type":"conference","department":[{"_id":"ToHe"}],"language":[{"iso":"eng"}],"publication":"EPiC Series in Computing","date_created":"2020-09-26T14:49:43Z","page":"16-48","month":"09","ec_funded":1,"status":"public","oa":1,"_id":"8572","abstract":[{"lang":"eng","text":"We present the results of the ARCH 2020 friendly competition for formal verification of continuous and hybrid systems with linear continuous dynamics. In its fourth edition, eight tools have been applied to solve eight different benchmark problems in the category for linear continuous dynamics (in alphabetical order): CORA, C2E2, HyDRA, Hylaa, Hylaa-Continuous, JuliaReach, SpaceEx, and XSpeed. This report is a snapshot of the current landscape of tools and the types of benchmarks they are particularly suited for. Due to the diversity of problems, we are not ranking tools, yet the presented results provide one of the most complete assessments of tools for the safety verification of continuous and hybrid systems with linear continuous dynamics up to this date."}],"date_updated":"2021-01-12T08:20:06Z","year":"2020","citation":{"chicago":"Althoff, Matthias, Stanley Bak, Zongnan Bao, Marcelo Forets, Goran Frehse, Daniel Freire, Niklas Kochdumper, et al. “ARCH-COMP20 Category Report: Continuous and Hybrid Systems with Linear Dynamics.” In <i>EPiC Series in Computing</i>, 74:16–48. EasyChair, 2020. <a href=\"https://doi.org/10.29007/7dt2\">https://doi.org/10.29007/7dt2</a>.","apa":"Althoff, M., Bak, S., Bao, Z., Forets, M., Frehse, G., Freire, D., … Wetzlinger, M. (2020). ARCH-COMP20 Category Report: Continuous and hybrid systems with linear dynamics. In <i>EPiC Series in Computing</i> (Vol. 74, pp. 16–48). EasyChair. <a href=\"https://doi.org/10.29007/7dt2\">https://doi.org/10.29007/7dt2</a>","mla":"Althoff, Matthias, et al. “ARCH-COMP20 Category Report: Continuous and Hybrid Systems with Linear Dynamics.” <i>EPiC Series in Computing</i>, vol. 74, EasyChair, 2020, pp. 16–48, doi:<a href=\"https://doi.org/10.29007/7dt2\">10.29007/7dt2</a>.","ista":"Althoff M, Bak S, Bao Z, Forets M, Frehse G, Freire D, Kochdumper N, Li Y, Mitra S, Ray R, Schilling C, Schupp S, Wetzlinger M. 2020. ARCH-COMP20 Category Report: Continuous and hybrid systems with linear dynamics. EPiC Series in Computing. ARCH: International Workshop on Applied Verification on Continuous and Hybrid Systems vol. 74, 16–48.","ieee":"M. Althoff <i>et al.</i>, “ARCH-COMP20 Category Report: Continuous and hybrid systems with linear dynamics,” in <i>EPiC Series in Computing</i>, 2020, vol. 74, pp. 16–48.","ama":"Althoff M, Bak S, Bao Z, et al. ARCH-COMP20 Category Report: Continuous and hybrid systems with linear dynamics. In: <i>EPiC Series in Computing</i>. Vol 74. EasyChair; 2020:16-48. doi:<a href=\"https://doi.org/10.29007/7dt2\">10.29007/7dt2</a>","short":"M. Althoff, S. Bak, Z. Bao, M. Forets, G. Frehse, D. Freire, N. Kochdumper, Y. Li, S. Mitra, R. Ray, C. Schilling, S. Schupp, M. Wetzlinger, in:, EPiC Series in Computing, EasyChair, 2020, pp. 16–48."},"intvolume":"        74","main_file_link":[{"url":"https://easychair.org/publications/download/DRpS","open_access":"1"}],"oa_version":"Published Version","date_published":"2020-09-25T00:00:00Z","doi":"10.29007/7dt2","conference":{"end_date":"2020-07-12","name":"ARCH: International Workshop on Applied Verification on Continuous and Hybrid Systems","start_date":"2020-07-12"},"publication_status":"published"},{"author":[{"id":"485BB5A4-F248-11E8-B48F-1D18A9856A87","last_name":"Szep","first_name":"Eniko","full_name":"Szep, Eniko"}],"file":[{"checksum":"20e71f015fbbd78fea708893ad634ed0","creator":"dernst","file_id":"8575","access_level":"open_access","date_updated":"2020-09-28T07:25:35Z","file_name":"thesis_EnikoSzep_final.pdf","date_created":"2020-09-28T07:25:35Z","relation":"main_file","content_type":"application/pdf","file_size":6354833,"success":1},{"file_size":23020401,"relation":"source_file","content_type":"application/x-zip-compressed","date_created":"2020-09-28T07:25:37Z","date_updated":"2020-09-28T07:25:37Z","file_name":"thesisFiles_EnikoSzep.zip","access_level":"closed","creator":"dernst","file_id":"8576","checksum":"a8de2c14a1bb4e53c857787efbb289e1"}],"day":"20","degree_awarded":"PhD","alternative_title":["ISTA Thesis"],"supervisor":[{"first_name":"Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","full_name":"Barton, Nicholas H"}],"publisher":"Institute of Science and Technology Austria","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Local adaptation in metapopulations","type":"dissertation","language":[{"iso":"eng"}],"department":[{"_id":"NiBa"}],"has_accepted_license":"1","page":"158","date_created":"2020-09-28T07:33:38Z","article_processing_charge":"No","_id":"8574","date_updated":"2023-09-07T13:11:39Z","abstract":[{"lang":"eng","text":"This thesis concerns itself with the interactions of evolutionary and ecological forces and the consequences on genetic diversity and the ultimate survival of populations. It is important to understand what signals processes \r\nleave on the genome and what we can infer from such data, which is usually abundant but noisy. Furthermore, understanding how and when populations adapt or go extinct is important for practical purposes,  such as the genetic management of populations, as well as for theoretical questions, since local adaptation can be the first step toward speciation. \r\nIn Chapter 2, we introduce the method of maximum entropy to approximate the demographic changes of a population in a simple setting, namely the logistic growth model with immigration. We show that this method is not only a powerful \r\ntool in physics but can be gainfully applied in an ecological framework. We investigate how well it approximates the real \r\nbehavior of the system, and find that is does so, even in unexpected situations. Finally, we illustrate how it can model changing environments.\r\nIn Chapter 3, we analyze the co-evolution of allele frequencies and population sizes in an infinite island model.\r\nWe give conditions under which polygenic adaptation to a rare habitat is possible. The model we use is based on the diffusion approximation, considers eco-evolutionary feedback mechanisms (hard selection), and treats both \r\ndrift and environmental fluctuations explicitly. We also look at limiting scenarios, for which we derive analytical expressions. \r\nIn Chapter 4, we present a coalescent based simulation tool to obtain patterns of diversity in a spatially explicit subdivided population, in which the demographic history of each subpopulation can be specified. We compare \r\nthe results to existing predictions, and explore the relative importance of time and space under a variety of spatial arrangements and demographic histories, such as expansion and extinction. \r\nIn the last chapter, we give a brief outlook to further research. "}],"year":"2020","month":"09","status":"public","oa":1,"publication_identifier":{"eissn":["2663-337X"]},"oa_version":"Published Version","date_published":"2020-09-20T00:00:00Z","publication_status":"published","doi":"10.15479/AT:ISTA:8574","citation":{"ieee":"E. Szep, “Local adaptation in metapopulations,” Institute of Science and Technology Austria, 2020.","ama":"Szep E. Local adaptation in metapopulations. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8574\">10.15479/AT:ISTA:8574</a>","short":"E. Szep, Local Adaptation in Metapopulations, Institute of Science and Technology Austria, 2020.","apa":"Szep, E. (2020). <i>Local adaptation in metapopulations</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8574\">https://doi.org/10.15479/AT:ISTA:8574</a>","mla":"Szep, Eniko. <i>Local Adaptation in Metapopulations</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8574\">10.15479/AT:ISTA:8574</a>.","ista":"Szep E. 2020. Local adaptation in metapopulations. Institute of Science and Technology Austria.","chicago":"Szep, Eniko. “Local Adaptation in Metapopulations.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8574\">https://doi.org/10.15479/AT:ISTA:8574</a>."},"file_date_updated":"2020-09-28T07:25:37Z","ddc":["570"]},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"MDPI","title":"Cu homeostasis in bacteria: The ins and outs","author":[{"full_name":"Andrei, Andreea","first_name":"Andreea","last_name":"Andrei"},{"first_name":"Yavuz","last_name":"Öztürk","full_name":"Öztürk, Yavuz"},{"full_name":"Khalfaoui-Hassani, Bahia","last_name":"Khalfaoui-Hassani","first_name":"Bahia"},{"first_name":"Juna","last_name":"Rauch","full_name":"Rauch, Juna"},{"first_name":"Dorian","last_name":"Marckmann","full_name":"Marckmann, Dorian"},{"full_name":"Trasnea, Petru Iulian","last_name":"Trasnea","id":"D560034C-10C4-11EA-ABF4-A4B43DDC885E","first_name":"Petru Iulian"},{"last_name":"Daldal","first_name":"Fevzi","full_name":"Daldal, Fevzi"},{"full_name":"Koch, Hans-Georg","last_name":"Koch","first_name":"Hans-Georg"}],"isi":1,"file":[{"content_type":"application/pdf","relation":"main_file","file_size":4612258,"success":1,"date_updated":"2020-09-28T11:36:50Z","file_name":"2020_Membranes_Andrei.pdf","date_created":"2020-09-28T11:36:50Z","creator":"dernst","file_id":"8583","checksum":"ceb43d7554e712dea6f36f9287271737","access_level":"open_access"}],"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"day":"01","quality_controlled":"1","volume":10,"external_id":{"isi":["000581446000001"]},"article_type":"original","article_processing_charge":"No","type":"journal_article","department":[{"_id":"LeSa"}],"language":[{"iso":"eng"}],"has_accepted_license":"1","publication":"Membranes","date_created":"2020-09-28T08:59:26Z","month":"09","status":"public","oa":1,"publication_identifier":{"eissn":["20770375"]},"article_number":"242","_id":"8579","abstract":[{"text":"Copper (Cu) is an essential trace element for all living organisms and used as cofactor in key enzymes of important biological processes, such as aerobic respiration or superoxide dismutation. However, due to its toxicity, cells have developed elaborate mechanisms for Cu homeostasis, which balance Cu supply for cuproprotein biogenesis with the need to remove excess Cu. This review summarizes our current knowledge on bacterial Cu homeostasis with a focus on Gram-negative bacteria and describes the multiple strategies that bacteria use for uptake, storage and export of Cu. We furthermore describe general mechanistic principles that aid the bacterial response to toxic Cu concentrations and illustrate dedicated Cu relay systems that facilitate Cu delivery for cuproenzyme biogenesis. Progress in understanding how bacteria avoid Cu poisoning while maintaining a certain Cu quota for cell proliferation is of particular importance for microbial pathogens because Cu is utilized by the host immune system for attenuating pathogen survival in host cells.","lang":"eng"}],"issue":"9","date_updated":"2023-08-22T09:34:06Z","year":"2020","citation":{"ama":"Andrei A, Öztürk Y, Khalfaoui-Hassani B, et al. Cu homeostasis in bacteria: The ins and outs. <i>Membranes</i>. 2020;10(9). doi:<a href=\"https://doi.org/10.3390/membranes10090242\">10.3390/membranes10090242</a>","ieee":"A. Andrei <i>et al.</i>, “Cu homeostasis in bacteria: The ins and outs,” <i>Membranes</i>, vol. 10, no. 9. MDPI, 2020.","short":"A. Andrei, Y. Öztürk, B. Khalfaoui-Hassani, J. Rauch, D. Marckmann, P.I. Trasnea, F. Daldal, H.-G. Koch, Membranes 10 (2020).","chicago":"Andrei, Andreea, Yavuz Öztürk, Bahia Khalfaoui-Hassani, Juna Rauch, Dorian Marckmann, Petru Iulian Trasnea, Fevzi Daldal, and Hans-Georg Koch. “Cu Homeostasis in Bacteria: The Ins and Outs.” <i>Membranes</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/membranes10090242\">https://doi.org/10.3390/membranes10090242</a>.","mla":"Andrei, Andreea, et al. “Cu Homeostasis in Bacteria: The Ins and Outs.” <i>Membranes</i>, vol. 10, no. 9, 242, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/membranes10090242\">10.3390/membranes10090242</a>.","apa":"Andrei, A., Öztürk, Y., Khalfaoui-Hassani, B., Rauch, J., Marckmann, D., Trasnea, P. I., … Koch, H.-G. (2020). Cu homeostasis in bacteria: The ins and outs. <i>Membranes</i>. MDPI. <a href=\"https://doi.org/10.3390/membranes10090242\">https://doi.org/10.3390/membranes10090242</a>","ista":"Andrei A, Öztürk Y, Khalfaoui-Hassani B, Rauch J, Marckmann D, Trasnea PI, Daldal F, Koch H-G. 2020. Cu homeostasis in bacteria: The ins and outs. Membranes. 10(9), 242."},"intvolume":"        10","scopus_import":"1","file_date_updated":"2020-09-28T11:36:50Z","ddc":["570"],"oa_version":"Published Version","date_published":"2020-09-01T00:00:00Z","doi":"10.3390/membranes10090242","publication_status":"published"},{"citation":{"short":"G. Graff, B. Graff, G. Jablonski, K. Narkiewicz, in:, 11th Conference of the European Study Group on Cardiovascular Oscillations: Computation and Modelling in Physiology: New Challenges and Opportunities, , IEEE, 2020.","ieee":"G. Graff, B. Graff, G. Jablonski, and K. Narkiewicz, “The application of persistent homology in the analysis of heart rate variability,” in <i>11th Conference of the European Study Group on Cardiovascular Oscillations: Computation and Modelling in Physiology: New Challenges and Opportunities, </i>, Pisa, Italy, 2020.","ama":"Graff G, Graff B, Jablonski G, Narkiewicz K. The application of persistent homology in the analysis of heart rate variability. In: <i>11th Conference of the European Study Group on Cardiovascular Oscillations: Computation and Modelling in Physiology: New Challenges and Opportunities, </i>. IEEE; 2020. doi:<a href=\"https://doi.org/10.1109/ESGCO49734.2020.9158054\">10.1109/ESGCO49734.2020.9158054</a>","chicago":"Graff, Grzegorz, Beata Graff, Grzegorz Jablonski, and Krzysztof Narkiewicz. “The Application of Persistent Homology in the Analysis of Heart Rate Variability.” In <i>11th Conference of the European Study Group on Cardiovascular Oscillations: Computation and Modelling in Physiology: New Challenges and Opportunities, </i>. IEEE, 2020. <a href=\"https://doi.org/10.1109/ESGCO49734.2020.9158054\">https://doi.org/10.1109/ESGCO49734.2020.9158054</a>.","ista":"Graff G, Graff B, Jablonski G, Narkiewicz K. 2020. The application of persistent homology in the analysis of heart rate variability. 11th Conference of the European Study Group on Cardiovascular Oscillations: Computation and Modelling in Physiology: New Challenges and Opportunities, . ESGCO: European Study Group on Cardiovascular Oscillations, 9158054.","apa":"Graff, G., Graff, B., Jablonski, G., &#38; Narkiewicz, K. (2020). The application of persistent homology in the analysis of heart rate variability. In <i>11th Conference of the European Study Group on Cardiovascular Oscillations: Computation and Modelling in Physiology: New Challenges and Opportunities, </i>. Pisa, Italy: IEEE. <a href=\"https://doi.org/10.1109/ESGCO49734.2020.9158054\">https://doi.org/10.1109/ESGCO49734.2020.9158054</a>","mla":"Graff, Grzegorz, et al. “The Application of Persistent Homology in the Analysis of Heart Rate Variability.” <i>11th Conference of the European Study Group on Cardiovascular Oscillations: Computation and Modelling in Physiology: New Challenges and Opportunities, </i>, 9158054, IEEE, 2020, doi:<a href=\"https://doi.org/10.1109/ESGCO49734.2020.9158054\">10.1109/ESGCO49734.2020.9158054</a>."},"quality_controlled":"1","external_id":{"isi":["000621172600045"]},"article_processing_charge":"No","scopus_import":"1","oa_version":"None","type":"conference","date_published":"2020-08-01T00:00:00Z","department":[{"_id":"HeEd"}],"language":[{"iso":"eng"}],"doi":"10.1109/ESGCO49734.2020.9158054","conference":{"start_date":"2020-07-15","name":"ESGCO: European Study Group on Cardiovascular Oscillations","end_date":"2020-07-15","location":"Pisa, Italy"},"publication_status":"published","publication":"11th Conference of the European Study Group on Cardiovascular Oscillations: Computation and Modelling in Physiology: New Challenges and Opportunities, ","date_created":"2020-09-28T08:59:27Z","month":"08","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"IEEE","status":"public","publication_identifier":{"isbn":["9781728157511"]},"title":"The application of persistent homology in the analysis of heart rate variability","isi":1,"author":[{"last_name":"Graff","first_name":"Grzegorz","full_name":"Graff, Grzegorz"},{"full_name":"Graff, Beata","first_name":"Beata","last_name":"Graff"},{"id":"4483EF78-F248-11E8-B48F-1D18A9856A87","last_name":"Jablonski","first_name":"Grzegorz","orcid":"0000-0002-3536-9866","full_name":"Jablonski, Grzegorz"},{"last_name":"Narkiewicz","first_name":"Krzysztof","full_name":"Narkiewicz, Krzysztof"}],"article_number":"9158054","_id":"8580","abstract":[{"lang":"eng","text":"We evaluate the usefulness of persistent homology in the analysis of heart rate variability. In our approach we extract several topological descriptors characterising datasets of RR-intervals, which are later used in classical machine learning algorithms. By this method we are able to differentiate the group of patients with the history of transient ischemic attack and the group of hypertensive patients."}],"date_updated":"2023-08-22T09:33:34Z","year":"2020","day":"01"},{"month":"11","publication_identifier":{"eissn":["15459985"],"issn":["15459993"]},"status":"public","_id":"8581","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"ScienComp"}],"year":"2020","date_updated":"2023-08-22T09:33:09Z","issue":"11","abstract":[{"text":"The majority of adenosine triphosphate (ATP) powering cellular processes in eukaryotes is produced by the mitochondrial F1Fo ATP synthase. Here, we present the atomic models of the membrane Fo domain and the entire mammalian (ovine) F1Fo, determined by cryo-electron microscopy. Subunits in the membrane domain are arranged in the ‘proton translocation cluster’ attached to the c-ring and a more distant ‘hook apparatus’ holding subunit e. Unexpectedly, this subunit is anchored to a lipid ‘plug’ capping the c-ring. We present a detailed proton translocation pathway in mammalian Fo and key inter-monomer contacts in F1Fo multimers. Cryo-EM maps of F1Fo exposed to calcium reveal a retracted subunit e and a disassembled c-ring, suggesting permeability transition pore opening. We propose a model for the permeability transition pore opening, whereby subunit e pulls the lipid plug out of the c-ring. Our structure will allow the design of drugs for many emerging applications in medicine.","lang":"eng"}],"citation":{"apa":"Pinke, G., Zhou, L., &#38; Sazanov, L. A. (2020). Cryo-EM structure of the entire mammalian F-type ATP synthase. <i>Nature Structural and Molecular Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41594-020-0503-8\">https://doi.org/10.1038/s41594-020-0503-8</a>","ista":"Pinke G, Zhou L, Sazanov LA. 2020. Cryo-EM structure of the entire mammalian F-type ATP synthase. Nature Structural and Molecular Biology. 27(11), 1077–1085.","mla":"Pinke, Gergely, et al. “Cryo-EM Structure of the Entire Mammalian F-Type ATP Synthase.” <i>Nature Structural and Molecular Biology</i>, vol. 27, no. 11, Springer Nature, 2020, pp. 1077–85, doi:<a href=\"https://doi.org/10.1038/s41594-020-0503-8\">10.1038/s41594-020-0503-8</a>.","chicago":"Pinke, Gergely, Long Zhou, and Leonid A Sazanov. “Cryo-EM Structure of the Entire Mammalian F-Type ATP Synthase.” <i>Nature Structural and Molecular Biology</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41594-020-0503-8\">https://doi.org/10.1038/s41594-020-0503-8</a>.","ama":"Pinke G, Zhou L, Sazanov LA. Cryo-EM structure of the entire mammalian F-type ATP synthase. <i>Nature Structural and Molecular Biology</i>. 2020;27(11):1077-1085. doi:<a href=\"https://doi.org/10.1038/s41594-020-0503-8\">10.1038/s41594-020-0503-8</a>","ieee":"G. Pinke, L. Zhou, and L. A. Sazanov, “Cryo-EM structure of the entire mammalian F-type ATP synthase,” <i>Nature Structural and Molecular Biology</i>, vol. 27, no. 11. Springer Nature, pp. 1077–1085, 2020.","short":"G. Pinke, L. Zhou, L.A. Sazanov, Nature Structural and Molecular Biology 27 (2020) 1077–1085."},"intvolume":"        27","scopus_import":"1","date_published":"2020-11-01T00:00:00Z","oa_version":"None","publication_status":"published","doi":"10.1038/s41594-020-0503-8","title":"Cryo-EM structure of the entire mammalian F-type ATP synthase","publisher":"Springer Nature","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"author":[{"full_name":"Pinke, Gergely","first_name":"Gergely","last_name":"Pinke","id":"4D5303E6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Zhou, Long","first_name":"Long","orcid":"0000-0002-1864-8951","last_name":"Zhou","id":"3E751364-F248-11E8-B48F-1D18A9856A87"},{"id":"338D39FE-F248-11E8-B48F-1D18A9856A87","last_name":"Sazanov","orcid":"0000-0002-0977-7989","first_name":"Leonid A","full_name":"Sazanov, Leonid A"}],"day":"01","pmid":1,"acknowledgement":"We thank J. Novacek from CEITEC (Brno, Czech Republic) for assistance with collecting the FEI Krios dataset and iNEXT for providing access to CEITEC. We thank the IST Austria EM facility for access and assistance with collecting the FEI Glacios dataset. Data processing was performed at the IST high-performance computing cluster. This work has been supported by iNEXT EM HEDC (proposal 4506), funded by the Horizon 2020 Programme of the European Commission.","related_material":{"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/structure-of-atpase-solved/"}]},"external_id":{"isi":["000569299400004"],"pmid":["32929284"]},"quality_controlled":"1","volume":27,"article_type":"original","article_processing_charge":"No","language":[{"iso":"eng"}],"department":[{"_id":"LeSa"}],"type":"journal_article","date_created":"2020-09-28T08:59:27Z","page":"1077-1085","publication":"Nature Structural and Molecular Biology"},{"oa_version":"Published Version","date_published":"2020-12-01T00:00:00Z","publication_status":"published","doi":"10.1016/j.jsb.2020.107633","intvolume":"       212","citation":{"ama":"Fäßler F, Zens B, Hauschild R, Schur FK. 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. <i>Journal of Structural Biology</i>. 2020;212(3). doi:<a href=\"https://doi.org/10.1016/j.jsb.2020.107633\">10.1016/j.jsb.2020.107633</a>","ieee":"F. Fäßler, B. Zens, R. Hauschild, and F. K. Schur, “3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy,” <i>Journal of Structural Biology</i>, vol. 212, no. 3. Elsevier, 2020.","short":"F. Fäßler, B. Zens, R. Hauschild, F.K. Schur, Journal of Structural Biology 212 (2020).","mla":"Fäßler, Florian, et al. “3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation in Cryo-Electron Microscopy.” <i>Journal of Structural Biology</i>, vol. 212, no. 3, 107633, Elsevier, 2020, doi:<a href=\"https://doi.org/10.1016/j.jsb.2020.107633\">10.1016/j.jsb.2020.107633</a>.","apa":"Fäßler, F., Zens, B., Hauschild, R., &#38; Schur, F. K. (2020). 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. <i>Journal of Structural Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jsb.2020.107633\">https://doi.org/10.1016/j.jsb.2020.107633</a>","ista":"Fäßler F, Zens B, Hauschild R, Schur FK. 2020. 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. Journal of Structural Biology. 212(3), 107633.","chicago":"Fäßler, Florian, Bettina Zens, Robert Hauschild, and Florian KM Schur. “3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation in Cryo-Electron Microscopy.” <i>Journal of Structural Biology</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.jsb.2020.107633\">https://doi.org/10.1016/j.jsb.2020.107633</a>."},"file_date_updated":"2020-12-10T14:01:10Z","scopus_import":"1","ddc":["570"],"article_number":"107633","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"EM-Fac"}],"_id":"8586","date_updated":"2024-03-25T23:30:04Z","issue":"3","abstract":[{"text":"Cryo-electron microscopy (cryo-EM) of cellular specimens provides insights into biological processes and structures within a native context. However, a major challenge still lies in the efficient and reproducible preparation of adherent cells for subsequent cryo-EM analysis. This is due to the sensitivity of many cellular specimens to the varying seeding and culturing conditions required for EM experiments, the often limited amount of cellular material and also the fragility of EM grids and their substrate. Here, we present low-cost and reusable 3D printed grid holders, designed to improve specimen preparation when culturing challenging cellular samples directly on grids. The described grid holders increase cell culture reproducibility and throughput, and reduce the resources required for cell culturing. We show that grid holders can be integrated into various cryo-EM workflows, including micro-patterning approaches to control cell seeding on grids, and for generating samples for cryo-focused ion beam milling and cryo-electron tomography experiments. Their adaptable design allows for the generation of specialized grid holders customized to a large variety of applications.","lang":"eng"}],"year":"2020","month":"12","status":"public","publication_identifier":{"issn":["1047-8477"]},"oa":1,"type":"journal_article","language":[{"iso":"eng"}],"department":[{"_id":"FlSc"}],"has_accepted_license":"1","date_created":"2020-09-29T13:24:06Z","publication":"Journal of Structural Biology","external_id":{"isi":["000600997800008"]},"volume":212,"quality_controlled":"1","keyword":["electron microscopy","cryo-EM","EM sample preparation","3D printing","cell culture"],"related_material":{"record":[{"id":"14592","status":"public","relation":"used_in_publication"},{"status":"public","relation":"dissertation_contains","id":"12491"}]},"article_type":"original","article_processing_charge":"Yes (via OA deal)","project":[{"name":"Structure and isoform diversity of the Arp2/3 complex","grant_number":"P33367","_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A"},{"name":"NÖ-Fonds Preis für die Jungforscherin des Jahres am IST Austria","_id":"059B463C-7A3F-11EA-A408-12923DDC885E"}],"author":[{"full_name":"Fäßler, Florian","id":"404F5528-F248-11E8-B48F-1D18A9856A87","last_name":"Fäßler","first_name":"Florian","orcid":"0000-0001-7149-769X"},{"id":"45FD126C-F248-11E8-B48F-1D18A9856A87","last_name":"Zens","first_name":"Bettina","full_name":"Zens, Bettina"},{"orcid":"0000-0001-9843-3522","first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","last_name":"Hauschild","full_name":"Hauschild, Robert"},{"full_name":"Schur, Florian KM","orcid":"0000-0003-4790-8078","first_name":"Florian KM","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","last_name":"Schur"}],"isi":1,"file":[{"date_created":"2020-12-10T14:01:10Z","file_name":"2020_JourStrucBiology_Faessler.pdf","date_updated":"2020-12-10T14:01:10Z","access_level":"open_access","checksum":"c48cbf594e84fc2f91966ffaafc0918c","creator":"dernst","file_id":"8937","success":1,"file_size":7076870,"content_type":"application/pdf","relation":"main_file"}],"acknowledgement":"This work was supported by the Austrian Science Fund (FWF, P33367) to FKMS. BZ acknowledges support by the Niederösterreich Fond. This research was also supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing (SciComp), the Life Science Facility (LSF), the BioImaging Facility (BIF) and the Electron Microscopy Facility (EMF). We thank Georgi Dimchev (IST Austria) and Sonja Jacob (Vienna Biocenter Core Facilities) for testing our grid holders in different experimental setups and Daniel Gütl and the Kondrashov group (IST Austria) for granting us repeated access to their 3D printers. We also thank Jonna Alanko and the Sixt lab (IST Austria) for providing us HeLa cells, primary BL6 mouse tail fibroblasts, NIH 3T3 fibroblasts and human telomerase immortalised foreskin fibroblasts for our experiments. We are thankful to Ori Avinoam and William Wan for helpful comments on the manuscript and also thank Dorotea Fracchiolla (Art&Science) for illustrating the graphical abstract.","day":"01","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publisher":"Elsevier","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy"},{"publication_status":"published","doi":"10.1063/1.5144759","date_published":"2020-04-27T00:00:00Z","oa_version":"Preprint","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1912.02658"}],"intvolume":"       152","citation":{"short":"X. Li, E. Yakaboylu, G. Bighin, R. Schmidt, M. Lemeshko, A. Deuchert, The Journal of Chemical Physics 152 (2020).","ama":"Li X, Yakaboylu E, Bighin G, Schmidt R, Lemeshko M, Deuchert A. Intermolecular forces and correlations mediated by a phonon bath. <i>The Journal of Chemical Physics</i>. 2020;152(16). doi:<a href=\"https://doi.org/10.1063/1.5144759\">10.1063/1.5144759</a>","ieee":"X. Li, E. Yakaboylu, G. Bighin, R. Schmidt, M. Lemeshko, and A. Deuchert, “Intermolecular forces and correlations mediated by a phonon bath,” <i>The Journal of Chemical Physics</i>, vol. 152, no. 16. AIP Publishing, 2020.","mla":"Li, Xiang, et al. “Intermolecular Forces and Correlations Mediated by a Phonon Bath.” <i>The Journal of Chemical Physics</i>, vol. 152, no. 16, 164302, AIP Publishing, 2020, doi:<a href=\"https://doi.org/10.1063/1.5144759\">10.1063/1.5144759</a>.","apa":"Li, X., Yakaboylu, E., Bighin, G., Schmidt, R., Lemeshko, M., &#38; Deuchert, A. (2020). Intermolecular forces and correlations mediated by a phonon bath. <i>The Journal of Chemical Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/1.5144759\">https://doi.org/10.1063/1.5144759</a>","ista":"Li X, Yakaboylu E, Bighin G, Schmidt R, Lemeshko M, Deuchert A. 2020. Intermolecular forces and correlations mediated by a phonon bath. The Journal of Chemical Physics. 152(16), 164302.","chicago":"Li, Xiang, Enderalp Yakaboylu, Giacomo Bighin, Richard Schmidt, Mikhail Lemeshko, and Andreas Deuchert. “Intermolecular Forces and Correlations Mediated by a Phonon Bath.” <i>The Journal of Chemical Physics</i>. AIP Publishing, 2020. <a href=\"https://doi.org/10.1063/1.5144759\">https://doi.org/10.1063/1.5144759</a>."},"year":"2020","date_updated":"2024-08-07T07:16:53Z","issue":"16","arxiv":1,"abstract":[{"lang":"eng","text":"Inspired by the possibility to experimentally manipulate and enhance chemical reactivity in helium nanodroplets, we investigate the effective interaction and the resulting correlations between two diatomic molecules immersed in a bath of bosons. By analogy with the bipolaron, we introduce the biangulon quasiparticle describing two rotating molecules that align with respect to each other due to the effective attractive interaction mediated by the excitations of the bath. We study this system in different parameter regimes and apply several theoretical approaches to describe its properties. Using a Born–Oppenheimer approximation, we investigate the dependence of the effective intermolecular interaction on the rotational state of the two molecules. In the strong-coupling regime, a product-state ansatz shows that the molecules tend to have a strong alignment in the ground state. To investigate the system in the weak-coupling regime, we apply a one-phonon excitation variational ansatz, which allows us to access the energy spectrum. In comparison to the angulon quasiparticle, the biangulon shows shifted angulon instabilities and an additional spectral instability, where resonant angular momentum transfer between the molecules and the bath takes place. These features are proposed as an experimentally observable signature for the formation of the biangulon quasiparticle. Finally, by using products of single angulon and bare impurity wave functions as basis states, we introduce a diagonalization scheme that allows us to describe the transition from two separated angulons to a biangulon as a function of the distance between the two molecules."}],"_id":"8587","article_number":"164302","oa":1,"publication_identifier":{"issn":["0021-9606"],"eissn":["1089-7690"]},"status":"public","ec_funded":1,"month":"04","date_created":"2020-09-30T10:33:17Z","publication":"The Journal of Chemical Physics","language":[{"iso":"eng"}],"department":[{"_id":"MiLe"},{"_id":"RoSe"}],"type":"journal_article","article_processing_charge":"No","article_type":"original","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"8958"}]},"external_id":{"arxiv":["1912.02658"],"isi":["000530448300001"]},"keyword":["Physical and Theoretical Chemistry","General Physics and Astronomy"],"volume":152,"quality_controlled":"1","day":"27","acknowledgement":"We are grateful to Areg Ghazaryan for valuable discussions. M.L. acknowledges support from the Austrian Science Fund (FWF) under Project No. P29902-N27 and from the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). G.B. acknowledges support from the Austrian Science Fund (FWF) under Project No. M2461-N27. A.D. acknowledges funding from the European Union’s Horizon 2020 research and innovation programme under the European Research Council (ERC) Grant Agreement No. 694227 and under the Marie Sklodowska-Curie Grant Agreement No. 836146. R.S. was supported by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy – EXC-2111 – 390814868.","project":[{"name":"Quantum rotations in the presence of a many-body environment","call_identifier":"FWF","grant_number":"P29902","_id":"26031614-B435-11E9-9278-68D0E5697425"},{"name":"Angulon: physics and applications of a new quasiparticle","call_identifier":"H2020","_id":"2688CF98-B435-11E9-9278-68D0E5697425","grant_number":"801770"},{"name":"A path-integral approach to composite impurities","call_identifier":"FWF","grant_number":"M02641","_id":"26986C82-B435-11E9-9278-68D0E5697425"},{"call_identifier":"H2020","name":"Analysis of quantum many-body systems","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","grant_number":"694227"}],"isi":1,"author":[{"full_name":"Li, Xiang","first_name":"Xiang","id":"4B7E523C-F248-11E8-B48F-1D18A9856A87","last_name":"Li"},{"id":"38CB71F6-F248-11E8-B48F-1D18A9856A87","last_name":"Yakaboylu","orcid":"0000-0001-5973-0874","first_name":"Enderalp","full_name":"Yakaboylu, Enderalp"},{"first_name":"Giacomo","orcid":"0000-0001-8823-9777","last_name":"Bighin","id":"4CA96FD4-F248-11E8-B48F-1D18A9856A87","full_name":"Bighin, Giacomo"},{"full_name":"Schmidt, Richard","first_name":"Richard","last_name":"Schmidt"},{"first_name":"Mikhail","orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko","full_name":"Lemeshko, Mikhail"},{"full_name":"Deuchert, Andreas","id":"4DA65CD0-F248-11E8-B48F-1D18A9856A87","last_name":"Deuchert","first_name":"Andreas","orcid":"0000-0003-3146-6746"}],"title":"Intermolecular forces and correlations mediated by a phonon bath","publisher":"AIP Publishing","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1"},{"project":[{"name":"Quantum rotations in the presence of a many-body environment","call_identifier":"FWF","grant_number":"P29902","_id":"26031614-B435-11E9-9278-68D0E5697425"},{"name":"Angulon: physics and applications of a new quasiparticle","call_identifier":"H2020","_id":"2688CF98-B435-11E9-9278-68D0E5697425","grant_number":"801770"},{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"}],"author":[{"last_name":"Hubert","first_name":"C.","full_name":"Hubert, C."},{"full_name":"Cohen, K.","first_name":"K.","last_name":"Cohen"},{"full_name":"Ghazaryan, Areg","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","last_name":"Ghazaryan","orcid":"0000-0001-9666-3543","first_name":"Areg"},{"last_name":"Lemeshko","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","first_name":"Mikhail","orcid":"0000-0002-6990-7802","full_name":"Lemeshko, Mikhail"},{"full_name":"Rapaport, R.","last_name":"Rapaport","first_name":"R."},{"full_name":"Santos, P. V.","last_name":"Santos","first_name":"P. V."}],"isi":1,"acknowledgement":"We thank W. Kaganer for discussions and for comment on the manuscript. We acknowledge the financial support from the German-Israeli Foundation (GIF), grant agreement I-1277-303.10/2014. M.L. acknowledges support by the Austrian Science Fund (FWF), under project No. P29902-N27, and by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). A.G. acknowledges support by the European Unions Horizon 2020 research and innovation\r\nprogram under the Marie Skodowska-Curie grant agreement No 754411. P.V.S acknowledges financial support\r\nfrom the Deutsche Forschungsgemeinschaft (DFG) under\r\nProject No. SA 598/12-1.","day":"21","publisher":"American Physical Society","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Attractive interactions, molecular complexes, and polarons in coupled dipolar exciton fluids","type":"journal_article","language":[{"iso":"eng"}],"department":[{"_id":"MiLe"}],"date_created":"2020-09-30T10:33:43Z","publication":"Physical Review B","external_id":{"isi":["000550579100004"],"arxiv":["1910.06015"]},"volume":102,"quality_controlled":"1","article_processing_charge":"No","article_type":"original","article_number":"045307","_id":"8588","date_updated":"2023-09-05T12:12:10Z","arxiv":1,"abstract":[{"text":"Dipolar (or spatially indirect) excitons (IXs) in semiconductor double quantum well (DQW) subjected to an electric field are neutral species with a dipole moment oriented perpendicular to the DQW plane. Here, we theoretically study interactions between IXs in stacked DQW bilayers, where the dipolar coupling can be either attractive or repulsive depending on the relative positions of the particles. By using microscopic band structure calculations to determine the electronic states forming the excitons, we show that the attractive dipolar interaction between stacked IXs deforms their electronic wave function, thereby increasing the inter-DQW interaction energy and making the IX even more electrically polarizable. Many-particle interaction effects are addressed by considering the coupling between a single IX in one of the DQWs to a cloud of IXs in the other DQW, which is modeled either as a closed-packed lattice or as a continuum IX fluid. We find that the lattice model yields IX interlayer binding energies decreasing with increasing lattice density. This behavior is due to the dominating role of the intra-DQW dipolar repulsion, which prevents more than one exciton from entering the attractive region of the inter-DQW coupling. Finally, both models shows that the single IX distorts the distribution of IXs in the adjacent DQW, thus inducing the formation of an IX dipolar polaron (dipolaron). While the interlayer binding energy reduces with IX density for lattice dipolarons, the continuous polaron model predicts a nonmonotonous dependence on density in semiquantitative agreement with a recent experimental study [cf. Hubert et al., Phys. Rev. X 9, 021026 (2019)].","lang":"eng"}],"issue":"4","year":"2020","month":"07","ec_funded":1,"status":"public","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"oa":1,"oa_version":"Preprint","date_published":"2020-07-21T00:00:00Z","publication_status":"published","doi":"10.1103/physrevb.102.045307","citation":{"chicago":"Hubert, C., K. Cohen, Areg Ghazaryan, Mikhail Lemeshko, R. Rapaport, and P. V. Santos. “Attractive Interactions, Molecular Complexes, and Polarons in Coupled Dipolar Exciton Fluids.” <i>Physical Review B</i>. American Physical Society, 2020. <a href=\"https://doi.org/10.1103/physrevb.102.045307\">https://doi.org/10.1103/physrevb.102.045307</a>.","mla":"Hubert, C., et al. “Attractive Interactions, Molecular Complexes, and Polarons in Coupled Dipolar Exciton Fluids.” <i>Physical Review B</i>, vol. 102, no. 4, 045307, American Physical Society, 2020, doi:<a href=\"https://doi.org/10.1103/physrevb.102.045307\">10.1103/physrevb.102.045307</a>.","ista":"Hubert C, Cohen K, Ghazaryan A, Lemeshko M, Rapaport R, Santos PV. 2020. Attractive interactions, molecular complexes, and polarons in coupled dipolar exciton fluids. Physical Review B. 102(4), 045307.","apa":"Hubert, C., Cohen, K., Ghazaryan, A., Lemeshko, M., Rapaport, R., &#38; Santos, P. V. (2020). Attractive interactions, molecular complexes, and polarons in coupled dipolar exciton fluids. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevb.102.045307\">https://doi.org/10.1103/physrevb.102.045307</a>","short":"C. Hubert, K. Cohen, A. Ghazaryan, M. Lemeshko, R. Rapaport, P.V. Santos, Physical Review B 102 (2020).","ama":"Hubert C, Cohen K, Ghazaryan A, Lemeshko M, Rapaport R, Santos PV. Attractive interactions, molecular complexes, and polarons in coupled dipolar exciton fluids. <i>Physical Review B</i>. 2020;102(4). doi:<a href=\"https://doi.org/10.1103/physrevb.102.045307\">10.1103/physrevb.102.045307</a>","ieee":"C. Hubert, K. Cohen, A. Ghazaryan, M. Lemeshko, R. Rapaport, and P. V. Santos, “Attractive interactions, molecular complexes, and polarons in coupled dipolar exciton fluids,” <i>Physical Review B</i>, vol. 102, no. 4. American Physical Society, 2020."},"intvolume":"       102","scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1910.06015"}]},{"file":[{"date_created":"2020-09-30T14:50:20Z","file_name":"2020_Han_Thesis.docx","date_updated":"2020-09-30T14:50:20Z","access_level":"closed","file_id":"8590","creator":"dernst","checksum":"c4bda1947d4c09c428ac9ce667b02327","file_size":49198118,"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","relation":"source_file"},{"date_created":"2020-09-30T14:49:59Z","file_name":"2020_Han_Thesis.pdf","date_updated":"2021-10-01T13:33:02Z","access_level":"open_access","creator":"dernst","checksum":"3f4f5d1718c2230adf30639ecaf8a00b","file_id":"8591","file_size":15513963,"content_type":"application/pdf","relation":"main_file"}],"author":[{"full_name":"Han, Huibin","last_name":"Han","id":"31435098-F248-11E8-B48F-1D18A9856A87","first_name":"Huibin"}],"day":"30","acknowledgement":"I also want to thank the China Scholarship Council for supporting my study during the year from 2015 to 2019. I also want to thank IST facilities – the Bioimaging facility, the media kitchen, the plant facility and all of the campus services, for their support.","supervisor":[{"full_name":"Friml, Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří"}],"degree_awarded":"PhD","alternative_title":["ISTA Thesis"],"title":"Novel insights into PIN polarity regulation during Arabidopsis development","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publisher":"Institute of Science and Technology Austria","department":[{"_id":"JiFr"}],"language":[{"iso":"eng"}],"type":"dissertation","date_created":"2020-09-30T14:50:51Z","page":"164","has_accepted_license":"1","related_material":{"record":[{"id":"7643","status":"public","relation":"part_of_dissertation"}]},"article_processing_charge":"No","_id":"8589","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"year":"2020","abstract":[{"lang":"eng","text":"The plant hormone auxin plays indispensable roles in plant growth and development. An essential level of regulation in auxin action is the directional auxin transport within cells. The establishment of auxin gradient in plant tissue has been attributed to local auxin biosynthesis and directional intercellular auxin transport, which both are controlled by various environmental and developmental signals. It is well established that asymmetric auxin distribution in cells is achieved by polarly localized PIN-FORMED (PIN) auxin efflux transporters. Despite the initial insights into cellular mechanisms of PIN polarization obtained from the last decades, the molecular mechanism and specific regulators mediating PIN polarization remains elusive. In this thesis, we aim to find novel players in PIN subcellular polarity regulation during Arabidopsis development. We first characterize the physiological effect of piperonylic acid (PA) on Arabidopsis hypocotyl gravitropic bending and PIN polarization. Secondly, we reveal the importance of SCFTIR1/AFB auxin signaling pathway in shoot gravitropism bending termination. In addition, we also explore the role of myosin XI complex, and actin cytoskeleton in auxin feedback regulation on PIN polarity. In Chapter 1, we give an overview of the current knowledge about PIN-mediated auxin fluxes in various plant tropic responses. In Chapter 2, we study the physiological effect of PA on shoot gravitropic bending. Our results show that PA treatment inhibits auxin-mediated PIN3 repolarization by interfering with PINOID and PIN3 phosphorylation status, ultimately leading to hyperbending hypocotyls. In Chapter 3, we provide evidence to show that the SCFTIR1/AFB nuclear auxin signaling pathway is crucial and required for auxin-mediated PIN3 repolarization and shoot gravitropic bending termination. In Chapter 4, we perform a phosphoproteomics approach and identify the motor protein Myosin XI and its binding protein, the MadB2 family, as an essential regulator of PIN polarity for auxin-canalization related developmental processes. In Chapter 5, we demonstrate the vital role of actin cytoskeleton in auxin feedback on PIN polarity by regulating PIN subcellular trafficking. Overall, the data presented in this PhD thesis brings novel insights into the PIN polar localization regulation that resulted in the (re)establishment of the polar auxin flow and gradient in response to environmental stimuli during plant development."}],"date_updated":"2023-09-07T13:13:05Z","month":"09","oa":1,"publication_identifier":{"issn":["2663-337X"]},"status":"public","date_published":"2020-09-30T00:00:00Z","oa_version":"Published Version","doi":"10.15479/AT:ISTA:8589","publication_status":"published","citation":{"ama":"Han H. Novel insights into PIN polarity regulation during Arabidopsis development. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8589\">10.15479/AT:ISTA:8589</a>","ieee":"H. Han, “Novel insights into PIN polarity regulation during Arabidopsis development,” Institute of Science and Technology Austria, 2020.","short":"H. Han, Novel Insights into PIN Polarity Regulation during Arabidopsis Development, Institute of Science and Technology Austria, 2020.","chicago":"Han, Huibin. “Novel Insights into PIN Polarity Regulation during Arabidopsis Development.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8589\">https://doi.org/10.15479/AT:ISTA:8589</a>.","apa":"Han, H. (2020). <i>Novel insights into PIN polarity regulation during Arabidopsis development</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8589\">https://doi.org/10.15479/AT:ISTA:8589</a>","ista":"Han H. 2020. Novel insights into PIN polarity regulation during Arabidopsis development. Institute of Science and Technology Austria.","mla":"Han, Huibin. <i>Novel Insights into PIN Polarity Regulation during Arabidopsis Development</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8589\">10.15479/AT:ISTA:8589</a>."},"ddc":["580"],"file_date_updated":"2021-10-01T13:33:02Z"},{"status":"public","publication_identifier":{"issn":["2198-3844"]},"oa":1,"month":"11","ec_funded":1,"abstract":[{"lang":"eng","text":"Glioblastoma is the most malignant cancer in the brain and currently incurable. It is urgent to identify effective targets for this lethal disease. Inhibition of such targets should suppress the growth of cancer cells and, ideally also precancerous cells for early prevention, but minimally affect their normal counterparts. Using genetic mouse models with neural stem cells (NSCs) or oligodendrocyte precursor cells (OPCs) as the cells‐of‐origin/mutation, it is shown that the susceptibility of cells within the development hierarchy of glioma to the knockout of insulin‐like growth factor I receptor (IGF1R) is determined not only by their oncogenic states, but also by their cell identities/states. Knockout of IGF1R selectively disrupts the growth of mutant and transformed, but not normal OPCs, or NSCs. The desirable outcome of IGF1R knockout on cell growth requires the mutant cells to commit to the OPC identity regardless of its development hierarchical status. At the molecular level, oncogenic mutations reprogram the cellular network of OPCs and force them to depend more on IGF1R for their growth. A new‐generation brain‐penetrable, orally available IGF1R inhibitor harnessing tumor OPCs in the brain is also developed. The findings reveal the cellular window of IGF1R targeting and establish IGF1R as an effective target for the prevention and treatment of glioblastoma."}],"issue":"21","date_updated":"2023-08-22T09:53:01Z","year":"2020","article_number":"2001724","_id":"8592","file_date_updated":"2020-12-10T14:07:24Z","ddc":["570"],"citation":{"short":"A. Tian, B. Kang, B. Li, B. Qiu, W. Jiang, F. Shao, Q. Gao, R. Liu, C. Cai, R. Jing, W. Wang, P. Chen, Q. Liang, L. Bao, J. Man, Y. Wang, Y. Shi, J. Li, M. Yang, L. Wang, J. Zhang, S. Hippenmeyer, J. Zhu, X. Bian, Y. Wang, C. Liu, Advanced Science 7 (2020).","ieee":"A. Tian <i>et al.</i>, “Oncogenic state and cell identity combinatorially dictate the susceptibility of cells within glioma development hierarchy to IGF1R targeting,” <i>Advanced Science</i>, vol. 7, no. 21. Wiley, 2020.","ama":"Tian A, Kang B, Li B, et al. Oncogenic state and cell identity combinatorially dictate the susceptibility of cells within glioma development hierarchy to IGF1R targeting. <i>Advanced Science</i>. 2020;7(21). doi:<a href=\"https://doi.org/10.1002/advs.202001724\">10.1002/advs.202001724</a>","chicago":"Tian, Anhao, Bo Kang, Baizhou Li, Biying Qiu, Wenhong Jiang, Fangjie Shao, Qingqing Gao, et al. “Oncogenic State and Cell Identity Combinatorially Dictate the Susceptibility of Cells within Glioma Development Hierarchy to IGF1R Targeting.” <i>Advanced Science</i>. Wiley, 2020. <a href=\"https://doi.org/10.1002/advs.202001724\">https://doi.org/10.1002/advs.202001724</a>.","apa":"Tian, A., Kang, B., Li, B., Qiu, B., Jiang, W., Shao, F., … Liu, C. (2020). Oncogenic state and cell identity combinatorially dictate the susceptibility of cells within glioma development hierarchy to IGF1R targeting. <i>Advanced Science</i>. Wiley. <a href=\"https://doi.org/10.1002/advs.202001724\">https://doi.org/10.1002/advs.202001724</a>","ista":"Tian A, Kang B, Li B, Qiu B, Jiang W, Shao F, Gao Q, Liu R, Cai C, Jing R, Wang W, Chen P, Liang Q, Bao L, Man J, Wang Y, Shi Y, Li J, Yang M, Wang L, Zhang J, Hippenmeyer S, Zhu J, Bian X, Wang Y, Liu C. 2020. Oncogenic state and cell identity combinatorially dictate the susceptibility of cells within glioma development hierarchy to IGF1R targeting. Advanced Science. 7(21), 2001724.","mla":"Tian, Anhao, et al. “Oncogenic State and Cell Identity Combinatorially Dictate the Susceptibility of Cells within Glioma Development Hierarchy to IGF1R Targeting.” <i>Advanced Science</i>, vol. 7, no. 21, 2001724, Wiley, 2020, doi:<a href=\"https://doi.org/10.1002/advs.202001724\">10.1002/advs.202001724</a>."},"intvolume":"         7","doi":"10.1002/advs.202001724","publication_status":"published","oa_version":"Published Version","date_published":"2020-11-04T00:00:00Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"Wiley","title":"Oncogenic state and cell identity combinatorially dictate the susceptibility of cells within glioma development hierarchy to IGF1R targeting","acknowledgement":"The authors thank Drs. J. Eisen, QR. Lu, S. Duan, Z‐H. Li, W. Mo, and Q. Wu for their critical comments on the manuscript. They also thank Dr. H. Zong for providing the CKO_NG2‐CreER model. This work is supported by the National Key Research and Development Program of China, Stem Cell and Translational Research (2016YFA0101201 to C.L., 2016YFA0100303 to Y.J.W.), the National Natural Science Foundation of China (81673035 and 81972915 to C.L., 81472722 to Y.J.W.), the Science Foundation for Distinguished Young Scientists of Zhejiang Province (LR17H160001 to C.L.), Fundamental Research Funds for the Central Universities (2016QNA7023 and 2017QNA7028 to C.L.) and the Thousand Talent Program for Young Outstanding Scientists, China (to C.L.), IST Austria institutional funds (to S.H.), European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (725780 LinPro to S.H.). C.L. is a scholar of K. C. Wong Education Foundation.","day":"04","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"author":[{"first_name":"Anhao","last_name":"Tian","full_name":"Tian, Anhao"},{"first_name":"Bo","last_name":"Kang","full_name":"Kang, Bo"},{"first_name":"Baizhou","last_name":"Li","full_name":"Li, Baizhou"},{"full_name":"Qiu, Biying","first_name":"Biying","last_name":"Qiu"},{"last_name":"Jiang","first_name":"Wenhong","full_name":"Jiang, Wenhong"},{"last_name":"Shao","first_name":"Fangjie","full_name":"Shao, Fangjie"},{"full_name":"Gao, Qingqing","first_name":"Qingqing","last_name":"Gao"},{"first_name":"Rui","last_name":"Liu","full_name":"Liu, Rui"},{"full_name":"Cai, Chengwei","last_name":"Cai","first_name":"Chengwei"},{"first_name":"Rui","last_name":"Jing","full_name":"Jing, Rui"},{"full_name":"Wang, Wei","last_name":"Wang","first_name":"Wei"},{"first_name":"Pengxiang","last_name":"Chen","full_name":"Chen, Pengxiang"},{"first_name":"Qinghui","last_name":"Liang","full_name":"Liang, Qinghui"},{"full_name":"Bao, Lili","last_name":"Bao","first_name":"Lili"},{"full_name":"Man, Jianghong","first_name":"Jianghong","last_name":"Man"},{"full_name":"Wang, Yan","first_name":"Yan","last_name":"Wang"},{"full_name":"Shi, Yu","last_name":"Shi","first_name":"Yu"},{"full_name":"Li, Jin","first_name":"Jin","last_name":"Li"},{"last_name":"Yang","first_name":"Minmin","full_name":"Yang, Minmin"},{"first_name":"Lisha","last_name":"Wang","full_name":"Wang, Lisha"},{"last_name":"Zhang","first_name":"Jianmin","full_name":"Zhang, Jianmin"},{"orcid":"0000-0003-2279-1061","first_name":"Simon","last_name":"Hippenmeyer","id":"37B36620-F248-11E8-B48F-1D18A9856A87","full_name":"Hippenmeyer, Simon"},{"last_name":"Zhu","first_name":"Junming","full_name":"Zhu, Junming"},{"last_name":"Bian","first_name":"Xiuwu","full_name":"Bian, Xiuwu"},{"first_name":"Ying‐Jie","last_name":"Wang","full_name":"Wang, Ying‐Jie"},{"first_name":"Chong","last_name":"Liu","full_name":"Liu, Chong"}],"isi":1,"project":[{"grant_number":"725780","_id":"260018B0-B435-11E9-9278-68D0E5697425","name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development","call_identifier":"H2020"}],"file":[{"content_type":"application/pdf","relation":"main_file","success":1,"file_size":7835833,"creator":"dernst","checksum":"92818c23ecc70e35acfa671f3cfb9909","file_id":"8938","access_level":"open_access","date_updated":"2020-12-10T14:07:24Z","file_name":"2020_AdvScience_Tian.pdf","date_created":"2020-12-10T14:07:24Z"}],"article_processing_charge":"No","article_type":"original","quality_controlled":"1","volume":7,"keyword":["General Engineering","General Physics and Astronomy","General Materials Science","Medicine (miscellaneous)","General Chemical Engineering","Biochemistry","Genetics and Molecular Biology (miscellaneous)"],"external_id":{"isi":["000573860700001"]},"has_accepted_license":"1","publication":"Advanced Science","date_created":"2020-10-01T09:44:13Z","type":"journal_article","department":[{"_id":"SiHi"}],"language":[{"iso":"eng"}]}]