[{"ec_funded":1,"oa_version":"Preprint","isi":1,"publication":"Journal of Mathematical Physics","doi":"10.1063/5.0005950","main_file_link":[{"url":"https://arxiv.org/abs/2002.08281","open_access":"1"}],"status":"public","day":"22","date_created":"2020-07-19T22:00:59Z","volume":61,"year":"2020","external_id":{"arxiv":["2002.08281"],"isi":["000544595100001"]},"oa":1,"issue":"6","date_updated":"2023-08-22T08:12:40Z","article_number":"061901","date_published":"2020-06-22T00:00:00Z","month":"06","intvolume":"        61","publication_status":"published","project":[{"name":"Analysis of quantum many-body systems","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","grant_number":"694227","call_identifier":"H2020"}],"quality_controlled":"1","_id":"8134","arxiv":1,"scopus_import":"1","abstract":[{"text":"We prove an upper bound on the free energy of a two-dimensional homogeneous Bose gas in the thermodynamic limit. We show that for a2ρ ≪ 1 and βρ ≳ 1, the free energy per unit volume differs from the one of the non-interacting system by at most 4πρ2|lna2ρ|−1(2−[1−βc/β]2+) to leading order, where a is the scattering length of the two-body interaction potential, ρ is the density, β is the inverse temperature, and βc is the inverse Berezinskii–Kosterlitz–Thouless critical temperature for superfluidity. In combination with the corresponding matching lower bound proved by Deuchert et al. [Forum Math. Sigma 8, e20 (2020)], this shows equality in the asymptotic expansion.","lang":"eng"}],"type":"journal_article","publication_identifier":{"issn":["00222488"]},"citation":{"ama":"Mayer S, Seiringer R. The free energy of the two-dimensional dilute Bose gas. II. Upper bound. <i>Journal of Mathematical Physics</i>. 2020;61(6). doi:<a href=\"https://doi.org/10.1063/5.0005950\">10.1063/5.0005950</a>","ista":"Mayer S, Seiringer R. 2020. The free energy of the two-dimensional dilute Bose gas. II. Upper bound. Journal of Mathematical Physics. 61(6), 061901.","short":"S. Mayer, R. Seiringer, Journal of Mathematical Physics 61 (2020).","ieee":"S. Mayer and R. Seiringer, “The free energy of the two-dimensional dilute Bose gas. II. Upper bound,” <i>Journal of Mathematical Physics</i>, vol. 61, no. 6. AIP Publishing, 2020.","chicago":"Mayer, Simon, and Robert Seiringer. “The Free Energy of the Two-Dimensional Dilute Bose Gas. II. Upper Bound.” <i>Journal of Mathematical Physics</i>. AIP Publishing, 2020. <a href=\"https://doi.org/10.1063/5.0005950\">https://doi.org/10.1063/5.0005950</a>.","apa":"Mayer, S., &#38; Seiringer, R. (2020). The free energy of the two-dimensional dilute Bose gas. II. Upper bound. <i>Journal of Mathematical Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0005950\">https://doi.org/10.1063/5.0005950</a>","mla":"Mayer, Simon, and Robert Seiringer. “The Free Energy of the Two-Dimensional Dilute Bose Gas. II. Upper Bound.” <i>Journal of Mathematical Physics</i>, vol. 61, no. 6, 061901, AIP Publishing, 2020, doi:<a href=\"https://doi.org/10.1063/5.0005950\">10.1063/5.0005950</a>."},"article_type":"original","language":[{"iso":"eng"}],"department":[{"_id":"RoSe"}],"article_processing_charge":"No","title":"The free energy of the two-dimensional dilute Bose gas. II. Upper bound","author":[{"full_name":"Mayer, Simon","last_name":"Mayer","id":"30C4630A-F248-11E8-B48F-1D18A9856A87","first_name":"Simon"},{"full_name":"Seiringer, Robert","last_name":"Seiringer","orcid":"0000-0002-6781-0521","first_name":"Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"AIP Publishing"},{"page":"181-218","year":"2020","acknowledgement":"This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreements No 78818 Alpha and No 638176). It is also partially supported by the DFG Collaborative Research Center TRR 109, ‘Discretization in Geometry and Dynamics’, through grant no. I02979-N35 of the Austrian Science Fund (FWF).","date_published":"2020-06-22T00:00:00Z","alternative_title":["Abel Symposia"],"month":"06","intvolume":"        15","oa":1,"date_updated":"2021-01-12T08:17:06Z","publication":"Topological Data Analysis","doi":"10.1007/978-3-030-43408-3_8","ec_funded":1,"oa_version":"Submitted Version","volume":15,"day":"22","status":"public","date_created":"2020-07-19T22:00:59Z","ddc":["510"],"department":[{"_id":"HeEd"}],"article_processing_charge":"No","language":[{"iso":"eng"}],"publisher":"Springer Nature","has_accepted_license":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Radius functions on Poisson–Delaunay mosaics and related complexes experimentally","author":[{"full_name":"Edelsbrunner, Herbert","last_name":"Edelsbrunner","orcid":"0000-0002-9823-6833","first_name":"Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Nikitenko, Anton","id":"3E4FF1BA-F248-11E8-B48F-1D18A9856A87","first_name":"Anton","last_name":"Nikitenko"},{"full_name":"Ölsböck, Katharina","first_name":"Katharina","id":"4D4AA390-F248-11E8-B48F-1D18A9856A87","last_name":"Ölsböck"},{"first_name":"Peter","id":"331776E2-F248-11E8-B48F-1D18A9856A87","last_name":"Synak","full_name":"Synak, Peter"}],"file":[{"file_size":2207071,"creator":"dernst","file_id":"8628","content_type":"application/pdf","checksum":"7b5e0de10675d787a2ddb2091370b8d8","relation":"main_file","access_level":"open_access","file_name":"2020-B-01-PoissonExperimentalSurvey.pdf","success":1,"date_updated":"2020-10-08T08:56:14Z","date_created":"2020-10-08T08:56:14Z"}],"publication_status":"published","project":[{"grant_number":"788183","call_identifier":"H2020","_id":"266A2E9E-B435-11E9-9278-68D0E5697425","name":"Alpha Shape Theory Extended"},{"grant_number":"638176","call_identifier":"H2020","name":"Efficient Simulation of Natural Phenomena at Extremely Large Scales","_id":"2533E772-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","grant_number":"I02979-N35","_id":"2561EBF4-B435-11E9-9278-68D0E5697425","name":"Persistence and stability of geometric complexes"}],"scopus_import":"1","abstract":[{"text":"Discrete Morse theory has recently lead to new developments in the theory of random geometric complexes. This article surveys the methods and results obtained with this new approach, and discusses some of its shortcomings. It uses simulations to illustrate the results and to form conjectures, getting numerical estimates for combinatorial, topological, and geometric properties of weighted and unweighted Delaunay mosaics, their dual Voronoi tessellations, and the Alpha and Wrap complexes contained in the mosaics.","lang":"eng"}],"type":"conference","file_date_updated":"2020-10-08T08:56:14Z","citation":{"chicago":"Edelsbrunner, Herbert, Anton Nikitenko, Katharina Ölsböck, and Peter Synak. “Radius Functions on Poisson–Delaunay Mosaics and Related Complexes Experimentally.” In <i>Topological Data Analysis</i>, 15:181–218. Springer Nature, 2020. <a href=\"https://doi.org/10.1007/978-3-030-43408-3_8\">https://doi.org/10.1007/978-3-030-43408-3_8</a>.","ista":"Edelsbrunner H, Nikitenko A, Ölsböck K, Synak P. 2020. Radius functions on Poisson–Delaunay mosaics and related complexes experimentally. Topological Data Analysis. , Abel Symposia, vol. 15, 181–218.","ieee":"H. Edelsbrunner, A. Nikitenko, K. Ölsböck, and P. Synak, “Radius functions on Poisson–Delaunay mosaics and related complexes experimentally,” in <i>Topological Data Analysis</i>, 2020, vol. 15, pp. 181–218.","short":"H. Edelsbrunner, A. Nikitenko, K. Ölsböck, P. Synak, in:, Topological Data Analysis, Springer Nature, 2020, pp. 181–218.","ama":"Edelsbrunner H, Nikitenko A, Ölsböck K, Synak P. Radius functions on Poisson–Delaunay mosaics and related complexes experimentally. In: <i>Topological Data Analysis</i>. Vol 15. Springer Nature; 2020:181-218. doi:<a href=\"https://doi.org/10.1007/978-3-030-43408-3_8\">10.1007/978-3-030-43408-3_8</a>","mla":"Edelsbrunner, Herbert, et al. “Radius Functions on Poisson–Delaunay Mosaics and Related Complexes Experimentally.” <i>Topological Data Analysis</i>, vol. 15, Springer Nature, 2020, pp. 181–218, doi:<a href=\"https://doi.org/10.1007/978-3-030-43408-3_8\">10.1007/978-3-030-43408-3_8</a>.","apa":"Edelsbrunner, H., Nikitenko, A., Ölsböck, K., &#38; Synak, P. (2020). Radius functions on Poisson–Delaunay mosaics and related complexes experimentally. In <i>Topological Data Analysis</i> (Vol. 15, pp. 181–218). Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-43408-3_8\">https://doi.org/10.1007/978-3-030-43408-3_8</a>"},"publication_identifier":{"issn":["21932808"],"isbn":["9783030434076"],"eissn":["21978549"]},"quality_controlled":"1","_id":"8135"},{"has_accepted_license":"1","publisher":"Springer Nature","file":[{"relation":"main_file","access_level":"open_access","creator":"dernst","file_size":1759490,"content_type":"application/pdf","file_id":"8148","date_created":"2020-07-22T08:32:55Z","date_updated":"2020-07-22T08:32:55Z","file_name":"2020_NatureComm_Zhang.pdf","success":1}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","author":[{"last_name":"Zhang","first_name":"J","full_name":"Zhang, J"},{"first_name":"E","last_name":"Mazur","full_name":"Mazur, E"},{"full_name":"Balla, J","first_name":"J","last_name":"Balla"},{"id":"35A03822-F248-11E8-B48F-1D18A9856A87","first_name":"Michelle C","orcid":"0000-0003-1286-7368","last_name":"Gallei","full_name":"Gallei, Michelle C"},{"full_name":"Kalousek, P","last_name":"Kalousek","first_name":"P"},{"last_name":"Medveďová","first_name":"Z","full_name":"Medveďová, Z"},{"last_name":"Li","first_name":"Y","full_name":"Li, Y"},{"last_name":"Wang","first_name":"Y","full_name":"Wang, Y"},{"last_name":"Prat","id":"3DA3BFEE-F248-11E8-B48F-1D18A9856A87","first_name":"Tomas","full_name":"Prat, Tomas"},{"full_name":"Vasileva, Mina K","id":"3407EB18-F248-11E8-B48F-1D18A9856A87","first_name":"Mina K","last_name":"Vasileva"},{"last_name":"Reinöhl","first_name":"V","full_name":"Reinöhl, V"},{"last_name":"Procházka","first_name":"S","full_name":"Procházka, S"},{"last_name":"Halouzka","first_name":"R","full_name":"Halouzka, R"},{"full_name":"Tarkowski, P","last_name":"Tarkowski","first_name":"P"},{"first_name":"C","last_name":"Luschnig","full_name":"Luschnig, C"},{"full_name":"Brewer, PB","last_name":"Brewer","first_name":"PB"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596"}],"title":"Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization","article_processing_charge":"No","department":[{"_id":"JiFr"}],"language":[{"iso":"eng"}],"article_type":"original","publication_identifier":{"issn":["2041-1723"]},"citation":{"apa":"Zhang, J., Mazur, E., Balla, J., Gallei, M. C., Kalousek, P., Medveďová, Z., … Friml, J. (2020). Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-020-17252-y\">https://doi.org/10.1038/s41467-020-17252-y</a>","mla":"Zhang, J., et al. “Strigolactones Inhibit Auxin Feedback on PIN-Dependent Auxin Transport Canalization.” <i>Nature Communications</i>, vol. 11, no. 1, Springer Nature, 2020, p. 3508, doi:<a href=\"https://doi.org/10.1038/s41467-020-17252-y\">10.1038/s41467-020-17252-y</a>.","ama":"Zhang J, Mazur E, Balla J, et al. Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization. <i>Nature Communications</i>. 2020;11(1):3508. doi:<a href=\"https://doi.org/10.1038/s41467-020-17252-y\">10.1038/s41467-020-17252-y</a>","ista":"Zhang J, Mazur E, Balla J, Gallei MC, Kalousek P, Medveďová Z, Li Y, Wang Y, Prat T, Vasileva MK, Reinöhl V, Procházka S, Halouzka R, Tarkowski P, Luschnig C, Brewer P, Friml J. 2020. Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization. Nature Communications. 11(1), 3508.","ieee":"J. Zhang <i>et al.</i>, “Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization,” <i>Nature Communications</i>, vol. 11, no. 1. Springer Nature, p. 3508, 2020.","short":"J. Zhang, E. Mazur, J. Balla, M.C. Gallei, P. Kalousek, Z. Medveďová, Y. Li, Y. Wang, T. Prat, M.K. Vasileva, V. Reinöhl, S. Procházka, R. Halouzka, P. Tarkowski, C. Luschnig, P. Brewer, J. Friml, Nature Communications 11 (2020) 3508.","chicago":"Zhang, J, E Mazur, J Balla, Michelle C Gallei, P Kalousek, Z Medveďová, Y Li, et al. “Strigolactones Inhibit Auxin Feedback on PIN-Dependent Auxin Transport Canalization.” <i>Nature Communications</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41467-020-17252-y\">https://doi.org/10.1038/s41467-020-17252-y</a>."},"type":"journal_article","file_date_updated":"2020-07-22T08:32:55Z","scopus_import":"1","abstract":[{"lang":"eng","text":"Directional transport of the phytohormone auxin is a versatile, plant-specific mechanism regulating many aspects of plant development. The recently identified plant hormones, strigolactones (SLs), are implicated in many plant traits; among others, they modify the phenotypic output of PIN-FORMED (PIN) auxin transporters for fine-tuning of growth and developmental responses. Here, we show in pea and Arabidopsis that SLs target processes dependent on the canalization of auxin flow, which involves auxin feedback on PIN subcellular distribution. D14 receptor- and MAX2 F-box-mediated SL signaling inhibits the formation of auxin-conducting channels after wounding or from artificial auxin sources, during vasculature de novo formation and regeneration. At the cellular level, SLs interfere with auxin effects on PIN polar targeting, constitutive PIN trafficking as well as clathrin-mediated endocytosis. Our results identify a non-transcriptional mechanism of SL action, uncoupling auxin feedback on PIN polarity and trafficking, thereby regulating vascular tissue formation and regeneration."}],"_id":"8138","quality_controlled":"1","project":[{"grant_number":"742985","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}],"publication_status":"published","month":"07","intvolume":"        11","date_published":"2020-07-14T00:00:00Z","acknowledgement":"We are grateful to David Nelson for providing published materials and extremely helpful comments, and Elizabeth Dun and Christine Beveridge for helpful discussions. The research leading to these results has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (742985). This work was also supported by the Beijing Municipal Natural Science Foundation (5192011), Beijing Outstanding University Discipline Program, the National Natural Science Foundation of China (31370309), CEITEC 2020 (LQ1601) project with financial contribution made by the Ministry of Education, Youth and Sports of the Czech Republic within special support paid from the National Program of Sustainability II funds, Australian Research Council (FT180100081), and China Postdoctoral Science Foundation (2019M660864).","date_updated":"2023-08-22T08:13:44Z","issue":"1","oa":1,"page":"3508","external_id":{"isi":["000550062200004"],"pmid":["32665554"]},"year":"2020","pmid":1,"volume":11,"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2020-07-21T08:58:07Z","ddc":["580"],"day":"14","status":"public","doi":"10.1038/s41467-020-17252-y","publication":"Nature Communications","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"11626"}]},"isi":1,"oa_version":"Published Version","ec_funded":1},{"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","author":[{"first_name":"Alexander J","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","last_name":"Johnson","full_name":"Johnson, Alexander J"},{"full_name":"Gnyliukh, Nataliia","first_name":"Nataliia","id":"390C1120-F248-11E8-B48F-1D18A9856A87","last_name":"Gnyliukh","orcid":"0000-0002-2198-0509"},{"full_name":"Kaufmann, Walter","first_name":"Walter","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9735-5315","last_name":"Kaufmann"},{"full_name":"Narasimhan, Madhumitha","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","first_name":"Madhumitha","last_name":"Narasimhan","orcid":"0000-0002-8600-0671"},{"full_name":"Vert, G","last_name":"Vert","first_name":"G"},{"first_name":"SY","last_name":"Bednarek","full_name":"Bednarek, SY"},{"orcid":"0000-0002-8302-7596","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří"}],"title":"Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis","file":[{"file_name":"2020 - Johnson - JSC - plant CME toolbox.pdf","date_updated":"2021-08-08T22:30:03Z","date_created":"2020-11-26T17:12:51Z","creator":"ajohnson","file_size":15150403,"file_id":"8815","content_type":"application/pdf","embargo":"2021-08-07","access_level":"open_access","checksum":"2d11f79a0b4e0a380fb002b933da331a","relation":"main_file"}],"has_accepted_license":"1","publisher":"The Company of Biologists","language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","department":[{"_id":"JiFr"},{"_id":"EM-Fac"}],"_id":"8139","quality_controlled":"1","publication_identifier":{"eissn":["1477-9137"],"issn":["0021-9533"]},"citation":{"apa":"Johnson, A. J., Gnyliukh, N., Kaufmann, W., Narasimhan, M., Vert, G., Bednarek, S., &#38; Friml, J. (2020). Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis. <i>Journal of Cell Science</i>. The Company of Biologists. <a href=\"https://doi.org/10.1242/jcs.248062\">https://doi.org/10.1242/jcs.248062</a>","mla":"Johnson, Alexander J., et al. “Experimental Toolbox for Quantitative Evaluation of Clathrin-Mediated Endocytosis in the Plant Model Arabidopsis.” <i>Journal of Cell Science</i>, vol. 133, no. 15, jcs248062, The Company of Biologists, 2020, doi:<a href=\"https://doi.org/10.1242/jcs.248062\">10.1242/jcs.248062</a>.","short":"A.J. Johnson, N. Gnyliukh, W. Kaufmann, M. Narasimhan, G. Vert, S. Bednarek, J. Friml, Journal of Cell Science 133 (2020).","ista":"Johnson AJ, Gnyliukh N, Kaufmann W, Narasimhan M, Vert G, Bednarek S, Friml J. 2020. Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis. Journal of Cell Science. 133(15), jcs248062.","ieee":"A. J. Johnson <i>et al.</i>, “Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis,” <i>Journal of Cell Science</i>, vol. 133, no. 15. The Company of Biologists, 2020.","ama":"Johnson AJ, Gnyliukh N, Kaufmann W, et al. Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis. <i>Journal of Cell Science</i>. 2020;133(15). doi:<a href=\"https://doi.org/10.1242/jcs.248062\">10.1242/jcs.248062</a>","chicago":"Johnson, Alexander J, Nataliia Gnyliukh, Walter Kaufmann, Madhumitha Narasimhan, G Vert, SY Bednarek, and Jiří Friml. “Experimental Toolbox for Quantitative Evaluation of Clathrin-Mediated Endocytosis in the Plant Model Arabidopsis.” <i>Journal of Cell Science</i>. The Company of Biologists, 2020. <a href=\"https://doi.org/10.1242/jcs.248062\">https://doi.org/10.1242/jcs.248062</a>."},"scopus_import":"1","abstract":[{"text":"Clathrin-mediated endocytosis (CME) is a crucial cellular process implicated in many aspects of plant growth, development, intra- and inter-cellular signaling, nutrient uptake and pathogen defense. Despite these significant roles, little is known about the precise molecular details of how it functions in planta. In order to facilitate the direct quantitative study of plant CME, here we review current routinely used methods and present refined, standardized quantitative imaging protocols which allow the detailed characterization of CME at multiple scales in plant tissues. These include: (i) an efficient electron microscopy protocol for the imaging of Arabidopsis CME vesicles in situ, thus providing a method for the detailed characterization of the ultra-structure of clathrin-coated vesicles; (ii) a detailed protocol and analysis for quantitative live-cell fluorescence microscopy to precisely examine the temporal interplay of endocytosis components during single CME events; (iii) a semi-automated analysis to allow the quantitative characterization of global internalization of cargos in whole plant tissues; and (iv) an overview and validation of useful genetic and pharmacological tools to interrogate the molecular mechanisms and function of CME in intact plant samples.","lang":"eng"}],"type":"journal_article","file_date_updated":"2021-08-08T22:30:03Z","project":[{"_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","call_identifier":"FWF"},{"name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","call_identifier":"H2020"}],"publication_status":"published","date_updated":"2023-12-01T13:51:07Z","oa":1,"acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"Bio"}],"issue":"15","date_published":"2020-08-06T00:00:00Z","month":"08","intvolume":"       133","article_number":"jcs248062","acknowledgement":"This paper is dedicated to the memory of Christien Merrifield. He pioneered quantitative\r\nimaging approaches in mammalian CME and his mentorship inspired the development of all\r\nthe analysis methods presented here. His joy in research, pure scientific curiosity and\r\nmicroscopy excellence remain a constant inspiration. We thank Daniel Van Damme for gifting\r\nus the CLC2-GFP x TPLATE-TagRFP plants used in this manuscript. We further thank the\r\nScientific Service Units at IST Austria; specifically, the Electron Microscopy Facility for\r\ntechnical assistance (in particular Vanessa Zheden) and the BioImaging Facility BioImaging\r\nFacility for access to equipment. ","year":"2020","external_id":{"pmid":["32616560"],"isi":["000561047900021"]},"ddc":["575"],"date_created":"2020-07-21T08:58:19Z","day":"06","status":"public","volume":133,"pmid":1,"related_material":{"record":[{"id":"14510","status":"public","relation":"dissertation_contains"}]},"oa_version":"Published Version","ec_funded":1,"isi":1,"publication":"Journal of Cell Science","doi":"10.1242/jcs.248062"},{"pmid":1,"volume":39,"status":"public","day":"01","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2020-07-21T09:08:38Z","ddc":["580"],"doi":"10.15252/embj.2019104238","publication":"The Embo Journal","isi":1,"oa_version":"Published Version","acknowledgement":"We thank Takashi Aoyama, David Alabadi, and Bert De Rybel for sharing material, Jiří Friml, Maciek Adamowski, and Katerina Schwarzerová for inspiring discussions, and Martine De Cock for help in preparing the manuscript. This research was supported by the Scientific Service Units (SSUs) of IST Austria through resources provided by the Bioimaging Facility (BIF), especially to Robert Hauschild; and the Life Science Facility (LSF). J.C.M. is the recipient of a EMBO Long‐Term Fellowship (ALTF number 710‐2016). This work was supported with MEYS CR, project no.CZ.02.1.01/0.0/0.0/16_019/0000738 to J.P., and by the Austrian Science Fund (FWF01_I1774S) to E.B.","article_number":"e104238","intvolume":"        39","month":"09","date_published":"2020-09-01T00:00:00Z","issue":"17","oa":1,"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"date_updated":"2023-09-05T13:05:47Z","external_id":{"pmid":["32667089"],"isi":["000548311800001"]},"year":"2020","type":"journal_article","file_date_updated":"2020-12-02T09:13:23Z","abstract":[{"lang":"eng","text":"Cell production and differentiation for the acquisition of specific functions are key features of living systems. The dynamic network of cellular microtubules provides the necessary platform to accommodate processes associated with the transition of cells through the individual phases of cytogenesis. Here, we show that the plant hormone cytokinin fine‐tunes the activity of the microtubular cytoskeleton during cell differentiation and counteracts microtubular rearrangements driven by the hormone auxin. The endogenous upward gradient of cytokinin activity along the longitudinal growth axis in Arabidopsis thaliana roots correlates with robust rearrangements of the microtubule cytoskeleton in epidermal cells progressing from the proliferative to the differentiation stage. Controlled increases in cytokinin activity result in premature re‐organization of the microtubule network from transversal to an oblique disposition in cells prior to their differentiation, whereas attenuated hormone perception delays cytoskeleton conversion into a configuration typical for differentiated cells. Intriguingly, cytokinin can interfere with microtubules also in animal cells, such as leukocytes, suggesting that a cytokinin‐sensitive control pathway for the microtubular cytoskeleton may be at least partially conserved between plant and animal cells."}],"scopus_import":"1","publication_identifier":{"issn":["0261-4189"],"eissn":["1460-2075"]},"citation":{"chicago":"Montesinos López, Juan C, A Abuzeineh, Aglaja Kopf, Alba Juanes Garcia, Krisztina Ötvös, J Petrášek, Michael K Sixt, and Eva Benková. “Phytohormone Cytokinin Guides Microtubule Dynamics during Cell Progression from Proliferative to Differentiated Stage.” <i>The Embo Journal</i>. Embo Press, 2020. <a href=\"https://doi.org/10.15252/embj.2019104238\">https://doi.org/10.15252/embj.2019104238</a>.","short":"J.C. Montesinos López, A. Abuzeineh, A. Kopf, A. Juanes Garcia, K. Ötvös, J. Petrášek, M.K. Sixt, E. Benková, The Embo Journal 39 (2020).","ieee":"J. C. Montesinos López <i>et al.</i>, “Phytohormone cytokinin guides microtubule dynamics during cell progression from proliferative to differentiated stage,” <i>The Embo Journal</i>, vol. 39, no. 17. Embo Press, 2020.","ista":"Montesinos López JC, Abuzeineh A, Kopf A, Juanes Garcia A, Ötvös K, Petrášek J, Sixt MK, Benková E. 2020. Phytohormone cytokinin guides microtubule dynamics during cell progression from proliferative to differentiated stage. The Embo Journal. 39(17), e104238.","ama":"Montesinos López JC, Abuzeineh A, Kopf A, et al. Phytohormone cytokinin guides microtubule dynamics during cell progression from proliferative to differentiated stage. <i>The Embo Journal</i>. 2020;39(17). doi:<a href=\"https://doi.org/10.15252/embj.2019104238\">10.15252/embj.2019104238</a>","mla":"Montesinos López, Juan C., et al. “Phytohormone Cytokinin Guides Microtubule Dynamics during Cell Progression from Proliferative to Differentiated Stage.” <i>The Embo Journal</i>, vol. 39, no. 17, e104238, Embo Press, 2020, doi:<a href=\"https://doi.org/10.15252/embj.2019104238\">10.15252/embj.2019104238</a>.","apa":"Montesinos López, J. C., Abuzeineh, A., Kopf, A., Juanes Garcia, A., Ötvös, K., Petrášek, J., … Benková, E. (2020). Phytohormone cytokinin guides microtubule dynamics during cell progression from proliferative to differentiated stage. <i>The Embo Journal</i>. Embo Press. <a href=\"https://doi.org/10.15252/embj.2019104238\">https://doi.org/10.15252/embj.2019104238</a>"},"quality_controlled":"1","_id":"8142","publication_status":"published","project":[{"name":"Molecular mechanism of auxindriven formative divisions delineating lateral root organogenesis in plants","_id":"253E54C8-B435-11E9-9278-68D0E5697425","grant_number":"ALTF710-2016"},{"grant_number":"I 1774-B16","call_identifier":"FWF","name":"Hormone cross-talk drives nutrient dependent plant development","_id":"2542D156-B435-11E9-9278-68D0E5697425"}],"publisher":"Embo Press","has_accepted_license":"1","file":[{"relation":"main_file","access_level":"open_access","checksum":"43d2b36598708e6ab05c69074e191d57","file_size":3497156,"creator":"dernst","content_type":"application/pdf","file_id":"8827","date_updated":"2020-12-02T09:13:23Z","date_created":"2020-12-02T09:13:23Z","file_name":"2020_EMBO_Montesinos.pdf","success":1}],"author":[{"full_name":"Montesinos López, Juan C","first_name":"Juan C","id":"310A8E3E-F248-11E8-B48F-1D18A9856A87","last_name":"Montesinos López","orcid":"0000-0001-9179-6099"},{"full_name":"Abuzeineh, A","last_name":"Abuzeineh","first_name":"A"},{"full_name":"Kopf, Aglaja","id":"31DAC7B6-F248-11E8-B48F-1D18A9856A87","first_name":"Aglaja","orcid":"0000-0002-2187-6656","last_name":"Kopf"},{"full_name":"Juanes Garcia, Alba","orcid":"0000-0002-1009-9652","last_name":"Juanes Garcia","first_name":"Alba","id":"40F05888-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-5503-4983","last_name":"Ötvös","id":"29B901B0-F248-11E8-B48F-1D18A9856A87","first_name":"Krisztina","full_name":"Ötvös, Krisztina"},{"full_name":"Petrášek, J","last_name":"Petrášek","first_name":"J"},{"full_name":"Sixt, Michael K","last_name":"Sixt","orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael K"},{"full_name":"Benková, Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","first_name":"Eva","orcid":"0000-0002-8510-9739","last_name":"Benková"}],"title":"Phytohormone cytokinin guides microtubule dynamics during cell progression from proliferative to differentiated stage","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","department":[{"_id":"MiSi"},{"_id":"EvBe"}],"article_processing_charge":"Yes (via OA deal)","article_type":"original","language":[{"iso":"eng"}]},{"ddc":["530","570"],"date_created":"2020-07-23T09:51:28Z","day":"24","status":"public","supervisor":[{"full_name":"Guet, Calin C","orcid":"0000-0001-6220-2052","last_name":"Guet","id":"47F8433E-F248-11E8-B48F-1D18A9856A87","first_name":"Calin C"},{"id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gašper","orcid":"0000-0002-6699-1455","last_name":"Tkačik","full_name":"Tkačik, Gašper"}],"degree_awarded":"PhD","doi":"10.15479/AT:ISTA:8155","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"7675"},{"relation":"part_of_dissertation","status":"public","id":"7569"},{"id":"7652","relation":"part_of_dissertation","status":"public"}]},"oa_version":"Published Version","date_published":"2020-07-24T00:00:00Z","alternative_title":["ISTA Thesis"],"month":"07","acknowledgement":"For the duration of his PhD, Rok was a recipient of a DOC fellowship of the Austrian Academy of Sciences.","date_updated":"2023-09-07T13:13:27Z","oa":1,"page":"310","year":"2020","citation":{"apa":"Grah, R. (2020). <i>Gene regulation across scales – how biophysical constraints shape evolution</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8155\">https://doi.org/10.15479/AT:ISTA:8155</a>","mla":"Grah, Rok. <i>Gene Regulation across Scales – How Biophysical Constraints Shape Evolution</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8155\">10.15479/AT:ISTA:8155</a>.","ista":"Grah R. 2020. Gene regulation across scales – how biophysical constraints shape evolution. Institute of Science and Technology Austria.","short":"R. Grah, Gene Regulation across Scales – How Biophysical Constraints Shape Evolution, Institute of Science and Technology Austria, 2020.","ieee":"R. Grah, “Gene regulation across scales – how biophysical constraints shape evolution,” Institute of Science and Technology Austria, 2020.","ama":"Grah R. Gene regulation across scales – how biophysical constraints shape evolution. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8155\">10.15479/AT:ISTA:8155</a>","chicago":"Grah, Rok. “Gene Regulation across Scales – How Biophysical Constraints Shape Evolution.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8155\">https://doi.org/10.15479/AT:ISTA:8155</a>."},"publication_identifier":{"issn":["2663-337X"]},"abstract":[{"lang":"eng","text":"In the thesis we focus on the interplay of the biophysics and evolution of gene regulation. We start by addressing how the type of prokaryotic gene regulation – activation and repression – affects spurious binding to DNA, also known as\r\ntranscriptional crosstalk. We propose that regulatory interference caused by excess regulatory proteins in the dense cellular medium – global crosstalk – could be a factor in determining which type of gene regulatory network is evolutionarily preferred. Next,we use a normative approach in eukaryotic gene regulation to describe minimal\r\nnon-equilibrium enhancer models that optimize so-called regulatory phenotypes. We find a class of models that differ from standard thermodynamic equilibrium models by a single parameter that notably increases the regulatory performance. Next chapter addresses the question of genotype-phenotype-fitness maps of higher dimensional phenotypes. We show that our biophysically realistic approach allows us to understand how the mechanisms of promoter function constrain genotypephenotype maps, and how they affect the evolutionary trajectories of promoters.\r\nIn the last chapter we ask whether the intrinsic instability of gene duplication and amplification provides a generic alternative to canonical gene regulation. Using mathematical modeling, we show that amplifications can tune gene expression in many environments, including those where transcription factor-based schemes are\r\nhard to evolve or maintain. "}],"type":"dissertation","file_date_updated":"2020-07-30T13:04:55Z","_id":"8155","project":[{"name":"Biophysically realistic genotype-phenotype maps for regulatory networks","_id":"267C84F4-B435-11E9-9278-68D0E5697425"}],"publication_status":"published","has_accepted_license":"1","publisher":"Institute of Science and Technology Austria","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","author":[{"first_name":"Rok","id":"483E70DE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2539-3560","last_name":"Grah","full_name":"Grah, Rok"}],"title":"Gene regulation across scales – how biophysical constraints shape evolution","file":[{"file_name":"Thesis_RokGrah_200727_convertedNew.pdf","success":1,"date_created":"2020-07-27T12:00:07Z","date_updated":"2020-07-27T12:00:07Z","file_size":16638998,"creator":"rgrah","file_id":"8176","content_type":"application/pdf","access_level":"open_access","relation":"main_file"},{"relation":"main_file","access_level":"closed","creator":"rgrah","file_size":347459978,"content_type":"application/zip","file_id":"8177","date_updated":"2020-07-30T13:04:55Z","date_created":"2020-07-27T12:02:23Z","file_name":"Thesis_new.zip"}],"article_processing_charge":"No","department":[{"_id":"CaGu"},{"_id":"GaTk"}],"language":[{"iso":"eng"}]},{"status":"public","day":"24","supervisor":[{"full_name":"Wagner, Uli","orcid":"0000-0002-1494-0568","last_name":"Wagner","first_name":"Uli","id":"36690CA2-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2020-07-23T09:51:29Z","ddc":["514"],"oa_version":"Published Version","related_material":{"record":[{"id":"8182","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"8183"},{"id":"8185","status":"public","relation":"part_of_dissertation"},{"id":"8184","status":"public","relation":"part_of_dissertation"},{"id":"6355","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"75"}]},"doi":"10.15479/AT:ISTA:8156","degree_awarded":"PhD","oa":1,"date_updated":"2023-12-18T10:51:01Z","date_published":"2020-07-24T00:00:00Z","alternative_title":["ISTA Thesis"],"month":"07","year":"2020","page":"119","_id":"8156","abstract":[{"text":"We present solutions to several problems originating from geometry and discrete mathematics: existence of equipartitions, maps without Tverberg multiple points, and inscribing quadrilaterals. Equivariant obstruction theory is the natural topological approach to these type of questions. However, for the specific problems we consider it had yielded only partial or no results. We get our results by complementing equivariant obstruction theory with other techniques from topology and geometry.","lang":"eng"}],"type":"dissertation","file_date_updated":"2020-07-27T12:46:53Z","publication_identifier":{"issn":["2663-337X"]},"citation":{"ama":"Avvakumov S. Topological methods in geometry and discrete mathematics. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8156\">10.15479/AT:ISTA:8156</a>","short":"S. Avvakumov, Topological Methods in Geometry and Discrete Mathematics, Institute of Science and Technology Austria, 2020.","ieee":"S. Avvakumov, “Topological methods in geometry and discrete mathematics,” Institute of Science and Technology Austria, 2020.","ista":"Avvakumov S. 2020. Topological methods in geometry and discrete mathematics. Institute of Science and Technology Austria.","chicago":"Avvakumov, Sergey. “Topological Methods in Geometry and Discrete Mathematics.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8156\">https://doi.org/10.15479/AT:ISTA:8156</a>.","apa":"Avvakumov, S. (2020). <i>Topological methods in geometry and discrete mathematics</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8156\">https://doi.org/10.15479/AT:ISTA:8156</a>","mla":"Avvakumov, Sergey. <i>Topological Methods in Geometry and Discrete Mathematics</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8156\">10.15479/AT:ISTA:8156</a>."},"publication_status":"published","author":[{"full_name":"Avvakumov, Sergey","first_name":"Sergey","id":"3827DAC8-F248-11E8-B48F-1D18A9856A87","last_name":"Avvakumov"}],"title":"Topological methods in geometry and discrete mathematics","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"file_name":"source.zip","date_created":"2020-07-27T12:44:51Z","date_updated":"2020-07-27T12:44:51Z","file_id":"8178","content_type":"application/zip","creator":"savvakum","file_size":1061740,"relation":"source_file","access_level":"closed"},{"access_level":"open_access","relation":"main_file","file_id":"8179","content_type":"application/pdf","file_size":1336501,"creator":"savvakum","date_updated":"2020-07-27T12:46:53Z","date_created":"2020-07-27T12:46:53Z","success":1,"file_name":"thesis_pdfa.pdf"}],"publisher":"Institute of Science and Technology Austria","has_accepted_license":"1","language":[{"iso":"eng"}],"department":[{"_id":"UlWa"}],"article_processing_charge":"No"},{"publication":"Neuron","doi":"10.1016/j.neuron.2020.06.031","ec_funded":1,"oa_version":"Published Version","isi":1,"related_material":{"link":[{"description":"News on IST Website","url":"https://ist.ac.at/en/news/cells-react-differently-to-genomic-imprinting/","relation":"press_release"}]},"volume":107,"status":"public","day":"23","date_created":"2020-07-23T16:03:12Z","tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"ddc":["570"],"page":"1160-1179.e9","external_id":{"isi":["000579698700006"]},"year":"2020","acknowledgement":"We thank A. Heger (IST Austria Preclinical Facility), A. Sommer and C. Czepe (VBCF GmbH, NGS Unit), and A. Seitz and P. Moll (Lexogen GmbH) for technical support; G. Arque, S. Resch, C. Igler, C. Dotter, C. Yahya, Q. Hudson, and D. Andergassen for initial experiments and/or assistance; D. Barlow, O. Bell, and all members of the Hippenmeyer lab for discussion; and N. Barton, B. Vicoso, M. Sixt, and L. Luo for comments on earlier versions of the manuscript. This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by the Bioimaging Facilities (BIF), Life Science Facilities (LSF), and Preclinical Facilities (PCF). A.H.H. is a recipient of a DOC fellowship (24812) of the Austrian Academy of Sciences. N.A. received support from the FWF Firnberg-Programm (T 1031). R.B. received support from the FWF Meitner-Programm (M 2416). This work was also supported by IST Austria institutional funds; a NÖ Forschung und Bildung n[f+b] life science call grant (C13-002) to S.H.; a program grant from the Human Frontiers Science Program (RGP0053/2014) to S.H.; the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement 618444 to S.H.; and the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement 725780 LinPro) to S.H.","date_published":"2020-09-23T00:00:00Z","month":"09","intvolume":"       107","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"PreCl"}],"oa":1,"issue":"6","date_updated":"2023-08-22T08:20:11Z","publication_status":"published","project":[{"_id":"2625A13E-B435-11E9-9278-68D0E5697425","name":"Molecular Mechanisms of Radial Neuronal Migration","grant_number":"24812"},{"name":"Role of Eed in neural stem cell lineage progression","_id":"268F8446-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"T0101031"},{"name":"Molecular Mechanisms Regulating Gliogenesis in the Cerebral Cortex","_id":"264E56E2-B435-11E9-9278-68D0E5697425","grant_number":"M02416","call_identifier":"FWF"},{"name":"Mapping Cell-Type Specificity of the Genomic Imprintome in the Brain","_id":"25D92700-B435-11E9-9278-68D0E5697425","grant_number":"LS13-002"},{"grant_number":"RGP0053/2014","name":"Quantitative Structure-Function Analysis of Cerebral Cortex Assembly at Clonal Level","_id":"25D7962E-B435-11E9-9278-68D0E5697425"},{"grant_number":"618444","call_identifier":"FP7","_id":"25D61E48-B435-11E9-9278-68D0E5697425","name":"Molecular Mechanisms of Cerebral Cortex Development"},{"_id":"260018B0-B435-11E9-9278-68D0E5697425","name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development","call_identifier":"H2020","grant_number":"725780"}],"abstract":[{"lang":"eng","text":"In mammalian genomes, a subset of genes is regulated by genomic imprinting, resulting in silencing of one parental allele. Imprinting is essential for cerebral cortex development, but prevalence and functional impact in individual cells is unclear. Here, we determined allelic expression in cortical cell types and established a quantitative platform to interrogate imprinting in single cells. We created cells with uniparental chromosome disomy (UPD) containing two copies of either the maternal or the paternal chromosome; hence, imprinted genes will be 2-fold overexpressed or not expressed. By genetic labeling of UPD, we determined cellular phenotypes and transcriptional responses to deregulated imprinted gene expression at unprecedented single-cell resolution. We discovered an unexpected degree of cell-type specificity and a novel function of imprinting in the regulation of cortical astrocyte survival. More generally, our results suggest functional relevance of imprinted gene expression in glial astrocyte lineage and thus for generating cortical cell-type diversity."}],"scopus_import":"1","file_date_updated":"2020-12-02T09:26:46Z","type":"journal_article","publication_identifier":{"issn":["0896-6273"]},"citation":{"ista":"Laukoter S, Pauler F, Beattie RJ, Amberg N, Hansen AH, Streicher C, Penz T, Bock C, Hippenmeyer S. 2020. Cell-type specificity of genomic imprinting in cerebral cortex. Neuron. 107(6), 1160–1179.e9.","short":"S. Laukoter, F. Pauler, R.J. Beattie, N. Amberg, A.H. Hansen, C. Streicher, T. Penz, C. Bock, S. Hippenmeyer, Neuron 107 (2020) 1160–1179.e9.","ieee":"S. Laukoter <i>et al.</i>, “Cell-type specificity of genomic imprinting in cerebral cortex,” <i>Neuron</i>, vol. 107, no. 6. Elsevier, p. 1160–1179.e9, 2020.","ama":"Laukoter S, Pauler F, Beattie RJ, et al. Cell-type specificity of genomic imprinting in cerebral cortex. <i>Neuron</i>. 2020;107(6):1160-1179.e9. doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.06.031\">10.1016/j.neuron.2020.06.031</a>","chicago":"Laukoter, Susanne, Florian Pauler, Robert J Beattie, Nicole Amberg, Andi H Hansen, Carmen Streicher, Thomas Penz, Christoph Bock, and Simon Hippenmeyer. “Cell-Type Specificity of Genomic Imprinting in Cerebral Cortex.” <i>Neuron</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.neuron.2020.06.031\">https://doi.org/10.1016/j.neuron.2020.06.031</a>.","apa":"Laukoter, S., Pauler, F., Beattie, R. J., Amberg, N., Hansen, A. H., Streicher, C., … Hippenmeyer, S. (2020). Cell-type specificity of genomic imprinting in cerebral cortex. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2020.06.031\">https://doi.org/10.1016/j.neuron.2020.06.031</a>","mla":"Laukoter, Susanne, et al. “Cell-Type Specificity of Genomic Imprinting in Cerebral Cortex.” <i>Neuron</i>, vol. 107, no. 6, Elsevier, 2020, p. 1160–1179.e9, doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.06.031\">10.1016/j.neuron.2020.06.031</a>."},"quality_controlled":"1","_id":"8162","department":[{"_id":"SiHi"}],"article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}],"publisher":"Elsevier","has_accepted_license":"1","author":[{"first_name":"Susanne","id":"2D6B7A9A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7903-3010","last_name":"Laukoter","full_name":"Laukoter, Susanne"},{"orcid":"0000-0002-7462-0048","last_name":"Pauler","id":"48EA0138-F248-11E8-B48F-1D18A9856A87","first_name":"Florian","full_name":"Pauler, Florian"},{"full_name":"Beattie, Robert J","last_name":"Beattie","orcid":"0000-0002-8483-8753","first_name":"Robert J","id":"2E26DF60-F248-11E8-B48F-1D18A9856A87"},{"id":"4CD6AAC6-F248-11E8-B48F-1D18A9856A87","first_name":"Nicole","last_name":"Amberg","orcid":"0000-0002-3183-8207","full_name":"Amberg, Nicole"},{"full_name":"Hansen, Andi H","last_name":"Hansen","first_name":"Andi H","id":"38853E16-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Streicher, Carmen","last_name":"Streicher","id":"36BCB99C-F248-11E8-B48F-1D18A9856A87","first_name":"Carmen"},{"full_name":"Penz, Thomas","last_name":"Penz","first_name":"Thomas"},{"full_name":"Bock, Christoph","last_name":"Bock","orcid":"0000-0001-6091-3088","first_name":"Christoph"},{"first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2279-1061","last_name":"Hippenmeyer","full_name":"Hippenmeyer, Simon"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Cell-type specificity of genomic imprinting in cerebral cortex","file":[{"date_created":"2020-12-02T09:26:46Z","date_updated":"2020-12-02T09:26:46Z","success":1,"file_name":"2020_Neuron_Laukoter.pdf","relation":"main_file","checksum":"7becdc16a6317304304631087ae7dd7f","access_level":"open_access","file_id":"8828","content_type":"application/pdf","file_size":8911830,"creator":"dernst"}]},{"page":"193-199","external_id":{"isi":["000570978400005"]},"license":"https://creativecommons.org/licenses/by-nc/4.0/","year":"2020","date_published":"2020-07-24T00:00:00Z","month":"07","intvolume":"        57","acknowledgement":"The authors are greatly indebted to Dror Atariah, Günther Rote and John Sullivan for discussion and suggestions. The authors also thank Jean-Daniel Boissonnat, Ramsay Dyer, David de Laat and Rien van de Weijgaert for discussion. This work has been supported in part by the European Union’s Seventh Framework Programme for Research of the\r\nEuropean Commission, under FET-Open grant number 255827 (CGL Computational Geometry Learning) and ERC Grant Agreement number 339025 GUDHI (Algorithmic Foundations of Geometry Understanding in Higher Dimensions), the European Union’s Horizon 2020 research and innovation programme under the Marie Sk lodowska-Curie grant agreement number 754411,and the Austrian Science Fund (FWF): Z00342 N31.","date_updated":"2023-10-10T13:05:27Z","oa":1,"issue":"2","publication":"Studia Scientiarum Mathematicarum Hungarica","doi":"10.1556/012.2020.57.2.1454","ec_funded":1,"oa_version":"Published Version","isi":1,"volume":57,"tmp":{"short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png"},"ddc":["510"],"date_created":"2020-07-24T07:09:18Z","status":"public","day":"24","article_processing_charge":"No","department":[{"_id":"HeEd"}],"language":[{"iso":"eng"}],"article_type":"original","has_accepted_license":"1","publisher":"Akadémiai Kiadó","author":[{"full_name":"Vegter, Gert","first_name":"Gert","last_name":"Vegter"},{"full_name":"Wintraecken, Mathijs","last_name":"Wintraecken","orcid":"0000-0002-7472-2220","id":"307CFBC8-F248-11E8-B48F-1D18A9856A87","first_name":"Mathijs"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Refutation of a claim made by Fejes Tóth on the accuracy of surface meshes","file":[{"access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_id":"8164","file_size":1476072,"creator":"mwintrae","date_updated":"2020-07-24T07:09:06Z","date_created":"2020-07-24T07:09:06Z","file_name":"57-2-05_4214-1454Vegter-Wintraecken_OpenAccess_CC-BY-NC.pdf"}],"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","call_identifier":"H2020"},{"grant_number":"Z00342","call_identifier":"FWF","name":"The Wittgenstein Prize","_id":"268116B8-B435-11E9-9278-68D0E5697425"}],"publication_status":"published","publication_identifier":{"issn":["0081-6906"],"eissn":["1588-2896"]},"citation":{"apa":"Vegter, G., &#38; Wintraecken, M. (2020). Refutation of a claim made by Fejes Tóth on the accuracy of surface meshes. <i>Studia Scientiarum Mathematicarum Hungarica</i>. Akadémiai Kiadó. <a href=\"https://doi.org/10.1556/012.2020.57.2.1454\">https://doi.org/10.1556/012.2020.57.2.1454</a>","mla":"Vegter, Gert, and Mathijs Wintraecken. “Refutation of a Claim Made by Fejes Tóth on the Accuracy of Surface Meshes.” <i>Studia Scientiarum Mathematicarum Hungarica</i>, vol. 57, no. 2, Akadémiai Kiadó, 2020, pp. 193–99, doi:<a href=\"https://doi.org/10.1556/012.2020.57.2.1454\">10.1556/012.2020.57.2.1454</a>.","ista":"Vegter G, Wintraecken M. 2020. Refutation of a claim made by Fejes Tóth on the accuracy of surface meshes. Studia Scientiarum Mathematicarum Hungarica. 57(2), 193–199.","short":"G. Vegter, M. Wintraecken, Studia Scientiarum Mathematicarum Hungarica 57 (2020) 193–199.","ieee":"G. Vegter and M. Wintraecken, “Refutation of a claim made by Fejes Tóth on the accuracy of surface meshes,” <i>Studia Scientiarum Mathematicarum Hungarica</i>, vol. 57, no. 2. Akadémiai Kiadó, pp. 193–199, 2020.","ama":"Vegter G, Wintraecken M. Refutation of a claim made by Fejes Tóth on the accuracy of surface meshes. <i>Studia Scientiarum Mathematicarum Hungarica</i>. 2020;57(2):193-199. doi:<a href=\"https://doi.org/10.1556/012.2020.57.2.1454\">10.1556/012.2020.57.2.1454</a>","chicago":"Vegter, Gert, and Mathijs Wintraecken. “Refutation of a Claim Made by Fejes Tóth on the Accuracy of Surface Meshes.” <i>Studia Scientiarum Mathematicarum Hungarica</i>. Akadémiai Kiadó, 2020. <a href=\"https://doi.org/10.1556/012.2020.57.2.1454\">https://doi.org/10.1556/012.2020.57.2.1454</a>."},"abstract":[{"lang":"eng","text":"Fejes Tóth [3] studied approximations of smooth surfaces in three-space by piecewise flat triangular meshes with a given number of vertices on the surface that are optimal with respect to Hausdorff distance. He proves that this Hausdorff distance decreases inversely proportional with the number of vertices of the approximating mesh if the surface is convex. He also claims that this Hausdorff distance is inversely proportional to the square of the number of vertices for a specific non-convex surface, namely a one-sheeted hyperboloid of revolution bounded by two congruent circles. We refute this claim, and show that the asymptotic behavior of the Hausdorff distance is linear, that is the same as for convex surfaces."}],"scopus_import":"1","file_date_updated":"2020-07-24T07:09:06Z","type":"journal_article","_id":"8163","quality_controlled":"1"},{"volume":375,"pmid":1,"date_created":"2020-07-26T22:01:01Z","day":"12","status":"public","publication":"Philosophical Transactions of the Royal Society. Series B: Biological Sciences","doi":"10.1098/rstb.2019.0545","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1098/rstb.2019.0545"}],"oa_version":"Published Version","isi":1,"date_published":"2020-07-12T00:00:00Z","month":"07","intvolume":"       375","article_number":"20190545","acknowledgement":"Funding was provided by the Natural Environment Research Council (NERC) and the European Research Council. We thank Rui Faria, Nicola Nadeau, Martin Garlovsky and Hernan Morales for advice and/or useful discussion during the project. Richard Turney, Graciela Sotelo, Jenny Larson, Stéphane Loisel and Meghan Wharton participated in the collection and processing of samples. Mark Dunning helped with the development of bioinformatic pipelines. The analysis of genomic data was conducted on the University of Sheffield High-performance computer, ShARC. Jeffrey Feder and an anonymous reviewer provided comments that improved the manuscript.","date_updated":"2023-08-22T08:22:13Z","oa":1,"issue":"1806","external_id":{"isi":["000552662100014"],"pmid":["32654639"]},"year":"2020","publication_identifier":{"eissn":["1471-2970"]},"citation":{"mla":"Stankowski, Sean, et al. “The Evolution of Strong Reproductive Isolation between Sympatric Intertidal Snails.” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>, vol. 375, no. 1806, 20190545, The Royal Society, 2020, doi:<a href=\"https://doi.org/10.1098/rstb.2019.0545\">10.1098/rstb.2019.0545</a>.","apa":"Stankowski, S., Westram, A. M., Zagrodzka, Z. B., Eyres, I., Broquet, T., Johannesson, K., &#38; Butlin, R. K. (2020). The evolution of strong reproductive isolation between sympatric intertidal snails. <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rstb.2019.0545\">https://doi.org/10.1098/rstb.2019.0545</a>","chicago":"Stankowski, Sean, Anja M Westram, Zuzanna B. Zagrodzka, Isobel Eyres, Thomas Broquet, Kerstin Johannesson, and Roger K. Butlin. “The Evolution of Strong Reproductive Isolation between Sympatric Intertidal Snails.” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>. The Royal Society, 2020. <a href=\"https://doi.org/10.1098/rstb.2019.0545\">https://doi.org/10.1098/rstb.2019.0545</a>.","ama":"Stankowski S, Westram AM, Zagrodzka ZB, et al. The evolution of strong reproductive isolation between sympatric intertidal snails. <i>Philosophical Transactions of the Royal Society Series B: Biological Sciences</i>. 2020;375(1806). doi:<a href=\"https://doi.org/10.1098/rstb.2019.0545\">10.1098/rstb.2019.0545</a>","short":"S. Stankowski, A.M. Westram, Z.B. Zagrodzka, I. Eyres, T. Broquet, K. Johannesson, R.K. Butlin, Philosophical Transactions of the Royal Society. Series B: Biological Sciences 375 (2020).","ista":"Stankowski S, Westram AM, Zagrodzka ZB, Eyres I, Broquet T, Johannesson K, Butlin RK. 2020. The evolution of strong reproductive isolation between sympatric intertidal snails. Philosophical Transactions of the Royal Society. Series B: Biological Sciences. 375(1806), 20190545.","ieee":"S. Stankowski <i>et al.</i>, “The evolution of strong reproductive isolation between sympatric intertidal snails,” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>, vol. 375, no. 1806. The Royal Society, 2020."},"abstract":[{"text":"The evolution of strong reproductive isolation (RI) is fundamental to the origins and maintenance of biological diversity, especially in situations where geographical distributions of taxa broadly overlap. But what is the history behind strong barriers currently acting in sympatry? Using whole-genome sequencing and single nucleotide polymorphism genotyping, we inferred (i) the evolutionary relationships, (ii) the strength of RI, and (iii) the demographic history of divergence between two broadly sympatric taxa of intertidal snail. Despite being cryptic, based on external morphology, Littorina arcana and Littorina saxatilis differ in their mode of female reproduction (egg-laying versus brooding), which may generate a strong post-zygotic barrier. We show that egg-laying and brooding snails are closely related, but genetically distinct. Genotyping of 3092 snails from three locations failed to recover any recent hybrid or backcrossed individuals, confirming that RI is strong. There was, however, evidence for a very low level of asymmetrical introgression, suggesting that isolation remains incomplete. The presence of strong, asymmetrical RI was further supported by demographic analysis of these populations. Although the taxa are currently broadly sympatric, demographic modelling suggests that they initially diverged during a short period of geographical separation involving very low gene flow. Our study suggests that some geographical separation may kick-start the evolution of strong RI, facilitating subsequent coexistence of taxa in sympatry. The strength of RI needed to achieve sympatry and the subsequent effect of sympatry on RI remain open questions.","lang":"eng"}],"scopus_import":"1","type":"journal_article","_id":"8167","quality_controlled":"1","publication_status":"published","publisher":"The Royal Society","title":"The evolution of strong reproductive isolation between sympatric intertidal snails","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","author":[{"id":"43161670-5719-11EA-8025-FABC3DDC885E","first_name":"Sean","last_name":"Stankowski","full_name":"Stankowski, Sean"},{"full_name":"Westram, Anja M","orcid":"0000-0003-1050-4969","last_name":"Westram","id":"3C147470-F248-11E8-B48F-1D18A9856A87","first_name":"Anja M"},{"first_name":"Zuzanna B.","last_name":"Zagrodzka","full_name":"Zagrodzka, Zuzanna B."},{"first_name":"Isobel","last_name":"Eyres","full_name":"Eyres, Isobel"},{"full_name":"Broquet, Thomas","first_name":"Thomas","last_name":"Broquet"},{"first_name":"Kerstin","last_name":"Johannesson","full_name":"Johannesson, Kerstin"},{"last_name":"Butlin","first_name":"Roger K.","full_name":"Butlin, Roger K."}],"article_processing_charge":"No","department":[{"_id":"NiBa"}],"language":[{"iso":"eng"}],"article_type":"original"},{"publication_status":"published","project":[{"grant_number":"797747","call_identifier":"H2020","name":"Theoretical and empirical approaches to understanding Parallel Adaptation","_id":"265B41B8-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","_id":"8168","scopus_import":"1","abstract":[{"lang":"eng","text":"Speciation, that is, the evolution of reproductive barriers eventually leading to complete isolation, is a crucial process generating biodiversity. Recent work has contributed much to our understanding of how reproductive barriers begin to evolve, and how they are maintained in the face of gene flow. However, little is known about the transition from partial to strong reproductive isolation (RI) and the completion of speciation. We argue that the evolution of strong RI is likely to involve different processes, or new interactions among processes, compared with the evolution of the first reproductive barriers. Transition to strong RI may be brought about by changing external conditions, for example, following secondary contact. However, the increasing levels of RI themselves create opportunities for new barriers to evolve and, and interaction or coupling among barriers. These changing processes may depend on genomic architecture and leave detectable signals in the genome. We outline outstanding questions and suggest more theoretical and empirical work, considering both patterns and processes associated with strong RI, is needed to understand how speciation is completed."}],"type":"journal_article","citation":{"ama":"Kulmuni J, Butlin RK, Lucek K, Savolainen V, Westram AM. Towards the completion of speciation: The evolution of reproductive isolation beyond the first barriers. <i>Philosophical Transactions of the Royal Society Series B: Biological sciences</i>. 2020;375(1806). doi:<a href=\"https://doi.org/10.1098/rstb.2019.0528\">10.1098/rstb.2019.0528</a>","ieee":"J. Kulmuni, R. K. Butlin, K. Lucek, V. Savolainen, and A. M. Westram, “Towards the completion of speciation: The evolution of reproductive isolation beyond the first barriers,” <i>Philosophical Transactions of the Royal Society. Series B: Biological sciences</i>, vol. 375, no. 1806. The Royal Society, 2020.","short":"J. Kulmuni, R.K. Butlin, K. Lucek, V. Savolainen, A.M. Westram, Philosophical Transactions of the Royal Society. Series B: Biological Sciences 375 (2020).","ista":"Kulmuni J, Butlin RK, Lucek K, Savolainen V, Westram AM. 2020. Towards the completion of speciation: The evolution of reproductive isolation beyond the first barriers. Philosophical Transactions of the Royal Society. Series B: Biological sciences. 375(1806), 20190528.","chicago":"Kulmuni, Jonna, Roger K. Butlin, Kay Lucek, Vincent Savolainen, and Anja M Westram. “Towards the Completion of Speciation: The Evolution of Reproductive Isolation beyond the First Barriers.” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>. The Royal Society, 2020. <a href=\"https://doi.org/10.1098/rstb.2019.0528\">https://doi.org/10.1098/rstb.2019.0528</a>.","apa":"Kulmuni, J., Butlin, R. K., Lucek, K., Savolainen, V., &#38; Westram, A. M. (2020). Towards the completion of speciation: The evolution of reproductive isolation beyond the first barriers. <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rstb.2019.0528\">https://doi.org/10.1098/rstb.2019.0528</a>","mla":"Kulmuni, Jonna, et al. “Towards the Completion of Speciation: The Evolution of Reproductive Isolation beyond the First Barriers.” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>, vol. 375, no. 1806, 20190528, The Royal Society, 2020, doi:<a href=\"https://doi.org/10.1098/rstb.2019.0528\">10.1098/rstb.2019.0528</a>."},"publication_identifier":{"issn":["0962-8436"],"eissn":["1471-2970"]},"article_type":"original","language":[{"iso":"eng"}],"department":[{"_id":"NiBa"}],"article_processing_charge":"No","title":"Towards the completion of speciation: The evolution of reproductive isolation beyond the first barriers","author":[{"full_name":"Kulmuni, Jonna","first_name":"Jonna","last_name":"Kulmuni"},{"full_name":"Butlin, Roger K.","last_name":"Butlin","first_name":"Roger K."},{"full_name":"Lucek, Kay","last_name":"Lucek","first_name":"Kay"},{"first_name":"Vincent","last_name":"Savolainen","full_name":"Savolainen, Vincent"},{"full_name":"Westram, Anja M","orcid":"0000-0003-1050-4969","last_name":"Westram","id":"3C147470-F248-11E8-B48F-1D18A9856A87","first_name":"Anja M"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"The Royal Society","ec_funded":1,"oa_version":"Published Version","isi":1,"publication":"Philosophical Transactions of the Royal Society. Series B: Biological sciences","main_file_link":[{"url":"https://doi.org/10.1098/rstb.2019.0528","open_access":"1"}],"doi":"10.1098/rstb.2019.0528","day":"12","status":"public","date_created":"2020-07-26T22:01:01Z","volume":375,"pmid":1,"year":"2020","external_id":{"isi":["000552662100001"],"pmid":["32654637"]},"oa":1,"issue":"1806","date_updated":"2023-08-22T08:21:31Z","article_number":"20190528","date_published":"2020-07-12T00:00:00Z","intvolume":"       375","month":"07"},{"year":"2020","external_id":{"pmid":["32654641"],"isi":["000552662100013"]},"issue":"1806","date_updated":"2023-08-22T08:23:24Z","acknowledgement":"This work was supported by a fellowship from the China Scholarship Council (CSC) to H.S., Swiss National Science Foundation (SNF) grant no. 31003A_149306 to C.L., doctoral programme grant W1225-B20 to a faculty team including C.L., and the University of Vienna. We thank members of J.L.’s lab for collecting samples, Michael Barfuss and Elfi Grasserbauer for help in the laboratory, the Next Generation Sequencing Platform of the University of Berne for sequencing, the Vienna Scientific Cluster (VSC) for access to computational resources, and Claus Vogel and members of the PopGen Vienna graduate school for helpful discussions.","article_number":"20190544","intvolume":"       375","month":"07","date_published":"2020-07-12T00:00:00Z","isi":1,"oa_version":"Published Version","doi":"10.1098/rstb.2019.0544","publication":"Philosophical Transactions of the Royal Society. Series B: Biological Sciences","day":"12","status":"public","date_created":"2020-07-26T22:01:02Z","pmid":1,"volume":375,"article_type":"original","language":[{"iso":"eng"}],"department":[{"_id":"NiBa"}],"article_processing_charge":"No","author":[{"first_name":"Huiying","last_name":"Shang","full_name":"Shang, Huiying"},{"first_name":"Jaqueline","last_name":"Hess","full_name":"Hess, Jaqueline"},{"full_name":"Pickup, Melinda","orcid":"0000-0001-6118-0541","last_name":"Pickup","id":"2C78037E-F248-11E8-B48F-1D18A9856A87","first_name":"Melinda"},{"first_name":"David","id":"419049E2-F248-11E8-B48F-1D18A9856A87","last_name":"Field","orcid":"0000-0002-4014-8478","full_name":"Field, David"},{"full_name":"Ingvarsson, Pär K.","last_name":"Ingvarsson","first_name":"Pär K."},{"last_name":"Liu","first_name":"Jianquan","full_name":"Liu, Jianquan"},{"last_name":"Lexer","first_name":"Christian","full_name":"Lexer, Christian"}],"title":"Evolution of strong reproductive isolation in plants: Broad-scale patterns and lessons from a perennial model group","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"The Royal Society","publication_status":"published","quality_controlled":"1","_id":"8169","type":"journal_article","scopus_import":"1","abstract":[{"text":"Many recent studies have addressed the mechanisms operating during the early stages of speciation, but surprisingly few studies have tested theoretical predictions on the evolution of strong reproductive isolation (RI). To help address this gap, we first undertook a quantitative review of the hybrid zone literature for flowering plants in relation to reproductive barriers. Then, using Populus as an exemplary model group, we analysed genome-wide variation for phylogenetic tree topologies in both early- and late-stage speciation taxa to determine how these patterns may be related to the genomic architecture of RI. Our plant literature survey revealed variation in barrier complexity and an association between barrier number and introgressive gene flow. Focusing on Populus, our genome-wide analysis of tree topologies in speciating poplar taxa points to unusually complex genomic architectures of RI, consistent with earlier genome-wide association studies. These architectures appear to facilitate the ‘escape’ of introgressed genome segments from polygenic barriers even with strong RI, thus affecting their relationships with recombination rates. Placed within the context of the broader literature, our data illustrate how phylogenomic approaches hold great promise for addressing the evolution and temporary breakdown of RI during late stages of speciation.","lang":"eng"}],"citation":{"apa":"Shang, H., Hess, J., Pickup, M., Field, D., Ingvarsson, P. K., Liu, J., &#38; Lexer, C. (2020). Evolution of strong reproductive isolation in plants: Broad-scale patterns and lessons from a perennial model group. <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rstb.2019.0544\">https://doi.org/10.1098/rstb.2019.0544</a>","mla":"Shang, Huiying, et al. “Evolution of Strong Reproductive Isolation in Plants: Broad-Scale Patterns and Lessons from a Perennial Model Group.” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>, vol. 375, no. 1806, 20190544, The Royal Society, 2020, doi:<a href=\"https://doi.org/10.1098/rstb.2019.0544\">10.1098/rstb.2019.0544</a>.","ieee":"H. Shang <i>et al.</i>, “Evolution of strong reproductive isolation in plants: Broad-scale patterns and lessons from a perennial model group,” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>, vol. 375, no. 1806. The Royal Society, 2020.","short":"H. Shang, J. Hess, M. Pickup, D. Field, P.K. Ingvarsson, J. Liu, C. Lexer, Philosophical Transactions of the Royal Society. Series B: Biological Sciences 375 (2020).","ista":"Shang H, Hess J, Pickup M, Field D, Ingvarsson PK, Liu J, Lexer C. 2020. Evolution of strong reproductive isolation in plants: Broad-scale patterns and lessons from a perennial model group. Philosophical Transactions of the Royal Society. Series B: Biological Sciences. 375(1806), 20190544.","ama":"Shang H, Hess J, Pickup M, et al. Evolution of strong reproductive isolation in plants: Broad-scale patterns and lessons from a perennial model group. <i>Philosophical Transactions of the Royal Society Series B: Biological Sciences</i>. 2020;375(1806). doi:<a href=\"https://doi.org/10.1098/rstb.2019.0544\">10.1098/rstb.2019.0544</a>","chicago":"Shang, Huiying, Jaqueline Hess, Melinda Pickup, David Field, Pär K. Ingvarsson, Jianquan Liu, and Christian Lexer. “Evolution of Strong Reproductive Isolation in Plants: Broad-Scale Patterns and Lessons from a Perennial Model Group.” <i>Philosophical Transactions of the Royal Society. Series B: Biological Sciences</i>. The Royal Society, 2020. <a href=\"https://doi.org/10.1098/rstb.2019.0544\">https://doi.org/10.1098/rstb.2019.0544</a>."},"publication_identifier":{"eissn":["14712970"]}},{"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2006.02694"}],"doi":"10.1103/PhysRevLett.125.013001","publication":"Physical Review Letters","isi":1,"oa_version":"Preprint","ec_funded":1,"volume":125,"day":"03","status":"public","date_created":"2020-07-26T22:01:02Z","external_id":{"arxiv":["2006.02694"],"isi":["000544526900006"]},"year":"2020","acknowledgement":"H. S. acknowledges support from the European Research Council-AdG (Project No. 320459, DropletControl)\r\nand from The Villum Foundation through a Villum Investigator Grant No. 25886. M. L. acknowledges support\r\nby the Austrian Science Fund (FWF), under Project No. P29902-N27, and by the European Research Council\r\n(ERC) Starting Grant No. 801770 (ANGULON). G. B. acknowledges support from the Austrian Science Fund\r\n(FWF), under Project No. M2641-N27. I. C. acknowledges support by the European Union’s Horizon 2020 research and\r\ninnovation programme under the Marie Skłodowska-Curie Grant Agreement No. 665385. Computational resources for\r\nthe PIMC simulations were provided by the division for scientific computing at the Johannes Kepler University.","article_number":"013001","month":"07","intvolume":"       125","date_published":"2020-07-03T00:00:00Z","issue":"1","oa":1,"date_updated":"2024-08-07T07:16:52Z","publication_status":"published","project":[{"grant_number":"P29902","call_identifier":"FWF","name":"Quantum rotations in the presence of a many-body environment","_id":"26031614-B435-11E9-9278-68D0E5697425"},{"name":"Angulon: physics and applications of a new quasiparticle","_id":"2688CF98-B435-11E9-9278-68D0E5697425","grant_number":"801770","call_identifier":"H2020"},{"_id":"26986C82-B435-11E9-9278-68D0E5697425","name":"A path-integral approach to composite impurities","grant_number":"M02641","call_identifier":"FWF"},{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program","grant_number":"665385","call_identifier":"H2020"}],"type":"journal_article","arxiv":1,"abstract":[{"text":"Alignment of OCS, CS2, and I2 molecules embedded in helium nanodroplets is measured as a function\r\nof time following rotational excitation by a nonresonant, comparatively weak ps laser pulse. The distinct\r\npeaks in the power spectra, obtained by Fourier analysis, are used to determine the rotational, B, and\r\ncentrifugal distortion, D, constants. For OCS, B and D match the values known from IR spectroscopy. For\r\nCS2 and I2, they are the first experimental results reported. The alignment dynamics calculated from the\r\ngas-phase rotational Schrödinger equation, using the experimental in-droplet B and D values, agree in\r\ndetail with the measurement for all three molecules. The rotational spectroscopy technique for molecules in\r\nhelium droplets introduced here should apply to a range of molecules and complexes.","lang":"eng"}],"scopus_import":"1","citation":{"ista":"Chatterley AS, Christiansen L, Schouder CA, Jørgensen AV, Shepperson B, Cherepanov I, Bighin G, Zillich RE, Lemeshko M, Stapelfeldt H. 2020. Rotational coherence spectroscopy of molecules in Helium nanodroplets: Reconciling the time and the frequency domains. Physical Review Letters. 125(1), 013001.","ieee":"A. S. Chatterley <i>et al.</i>, “Rotational coherence spectroscopy of molecules in Helium nanodroplets: Reconciling the time and the frequency domains,” <i>Physical Review Letters</i>, vol. 125, no. 1. American Physical Society, 2020.","short":"A.S. Chatterley, L. Christiansen, C.A. Schouder, A.V. Jørgensen, B. Shepperson, I. Cherepanov, G. Bighin, R.E. Zillich, M. Lemeshko, H. Stapelfeldt, Physical Review Letters 125 (2020).","ama":"Chatterley AS, Christiansen L, Schouder CA, et al. Rotational coherence spectroscopy of molecules in Helium nanodroplets: Reconciling the time and the frequency domains. <i>Physical Review Letters</i>. 2020;125(1). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.125.013001\">10.1103/PhysRevLett.125.013001</a>","chicago":"Chatterley, Adam S., Lars Christiansen, Constant A. Schouder, Anders V. Jørgensen, Benjamin Shepperson, Igor Cherepanov, Giacomo Bighin, Robert E. Zillich, Mikhail Lemeshko, and Henrik Stapelfeldt. “Rotational Coherence Spectroscopy of Molecules in Helium Nanodroplets: Reconciling the Time and the Frequency Domains.” <i>Physical Review Letters</i>. American Physical Society, 2020. <a href=\"https://doi.org/10.1103/PhysRevLett.125.013001\">https://doi.org/10.1103/PhysRevLett.125.013001</a>.","apa":"Chatterley, A. S., Christiansen, L., Schouder, C. A., Jørgensen, A. V., Shepperson, B., Cherepanov, I., … Stapelfeldt, H. (2020). Rotational coherence spectroscopy of molecules in Helium nanodroplets: Reconciling the time and the frequency domains. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.125.013001\">https://doi.org/10.1103/PhysRevLett.125.013001</a>","mla":"Chatterley, Adam S., et al. “Rotational Coherence Spectroscopy of Molecules in Helium Nanodroplets: Reconciling the Time and the Frequency Domains.” <i>Physical Review Letters</i>, vol. 125, no. 1, 013001, American Physical Society, 2020, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.125.013001\">10.1103/PhysRevLett.125.013001</a>."},"publication_identifier":{"issn":["00319007"],"eissn":["10797114"]},"quality_controlled":"1","_id":"8170","department":[{"_id":"MiLe"}],"article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}],"publisher":"American Physical Society","title":"Rotational coherence spectroscopy of molecules in Helium nanodroplets: Reconciling the time and the frequency domains","author":[{"first_name":"Adam S.","last_name":"Chatterley","full_name":"Chatterley, Adam S."},{"full_name":"Christiansen, Lars","first_name":"Lars","last_name":"Christiansen"},{"first_name":"Constant A.","last_name":"Schouder","full_name":"Schouder, Constant A."},{"full_name":"Jørgensen, Anders V.","last_name":"Jørgensen","first_name":"Anders V."},{"last_name":"Shepperson","first_name":"Benjamin","full_name":"Shepperson, Benjamin"},{"last_name":"Cherepanov","first_name":"Igor","id":"339C7E5A-F248-11E8-B48F-1D18A9856A87","full_name":"Cherepanov, Igor"},{"id":"4CA96FD4-F248-11E8-B48F-1D18A9856A87","first_name":"Giacomo","orcid":"0000-0001-8823-9777","last_name":"Bighin","full_name":"Bighin, Giacomo"},{"full_name":"Zillich, Robert E.","first_name":"Robert E.","last_name":"Zillich"},{"full_name":"Lemeshko, Mikhail","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","first_name":"Mikhail","last_name":"Lemeshko","orcid":"0000-0002-6990-7802"},{"last_name":"Stapelfeldt","first_name":"Henrik","full_name":"Stapelfeldt, Henrik"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8"},{"status":"public","day":"11","editor":[{"first_name":"Dominik","last_name":"Niopek","full_name":"Niopek, Dominik"}],"date_created":"2020-07-26T22:01:03Z","_id":"8173","type":"book_chapter","scopus_import":"1","abstract":[{"text":"Understanding how the activity of membrane receptors and cellular signaling pathways shapes cell behavior is of fundamental interest in basic and applied research. Reengineering receptors to react to light instead of their cognate ligands allows for generating defined signaling inputs with high spatial and temporal precision and facilitates the dissection of complex signaling networks. Here, we describe fundamental considerations in the design of light-regulated receptor tyrosine kinases (Opto-RTKs) and appropriate control experiments. We also introduce methods for transient receptor expression in HEK293 cells, quantitative assessment of signaling activity in reporter gene assays, semiquantitative assessment of (in)activation time courses through Western blot (WB) analysis, and easy to implement light stimulation hardware.","lang":"eng"}],"publication_identifier":{"eisbn":["9781071607558"],"eissn":["19406029"]},"citation":{"ama":"Kainrath S, Janovjak HL. Design and application of light-regulated receptor tyrosine kinases. In: Niopek D, ed. <i>Photoswitching Proteins</i>. Vol 2173. MIMB. Springer Nature; 2020:233-246. doi:<a href=\"https://doi.org/10.1007/978-1-0716-0755-8_16\">10.1007/978-1-0716-0755-8_16</a>","ista":"Kainrath S, Janovjak HL. 2020.Design and application of light-regulated receptor tyrosine kinases. In: Photoswitching Proteins. Methods in Molecular Biology, vol. 2173, 233–246.","ieee":"S. Kainrath and H. L. Janovjak, “Design and application of light-regulated receptor tyrosine kinases,” in <i>Photoswitching Proteins</i>, vol. 2173, D. Niopek, Ed. Springer Nature, 2020, pp. 233–246.","short":"S. Kainrath, H.L. Janovjak, in:, D. Niopek (Ed.), Photoswitching Proteins, Springer Nature, 2020, pp. 233–246.","chicago":"Kainrath, Stephanie, and Harald L Janovjak. “Design and Application of Light-Regulated Receptor Tyrosine Kinases.” In <i>Photoswitching Proteins</i>, edited by Dominik Niopek, 2173:233–46. MIMB. Springer Nature, 2020. <a href=\"https://doi.org/10.1007/978-1-0716-0755-8_16\">https://doi.org/10.1007/978-1-0716-0755-8_16</a>.","apa":"Kainrath, S., &#38; Janovjak, H. L. (2020). Design and application of light-regulated receptor tyrosine kinases. In D. Niopek (Ed.), <i>Photoswitching Proteins</i> (Vol. 2173, pp. 233–246). Springer Nature. <a href=\"https://doi.org/10.1007/978-1-0716-0755-8_16\">https://doi.org/10.1007/978-1-0716-0755-8_16</a>","mla":"Kainrath, Stephanie, and Harald L. Janovjak. “Design and Application of Light-Regulated Receptor Tyrosine Kinases.” <i>Photoswitching Proteins</i>, edited by Dominik Niopek, vol. 2173, Springer Nature, 2020, pp. 233–46, doi:<a href=\"https://doi.org/10.1007/978-1-0716-0755-8_16\">10.1007/978-1-0716-0755-8_16</a>."},"volume":2173,"oa_version":"None","publication_status":"published","doi":"10.1007/978-1-0716-0755-8_16","publication":"Photoswitching Proteins","title":"Design and application of light-regulated receptor tyrosine kinases","author":[{"full_name":"Kainrath, Stephanie","id":"32CFBA64-F248-11E8-B48F-1D18A9856A87","first_name":"Stephanie","last_name":"Kainrath"},{"full_name":"Janovjak, Harald L","first_name":"Harald L","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8023-9315","last_name":"Janovjak"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:17:17Z","publisher":"Springer Nature","intvolume":"      2173","month":"07","date_published":"2020-07-11T00:00:00Z","alternative_title":["Methods in Molecular Biology"],"year":"2020","language":[{"iso":"eng"}],"department":[{"_id":"CaGu"}],"series_title":"MIMB","page":"233-246","article_processing_charge":"No"},{"doi":"10.15479/AT:ISTA:8181","type":"software","file_date_updated":"2020-08-24T15:43:52Z","citation":{"chicago":"Hauschild, Robert. “Amplified Centrosomes in Dendritic Cells Promote Immune Cell Effector Functions.” IST Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:8181\">https://doi.org/10.15479/AT:ISTA:8181</a>.","ieee":"R. Hauschild, “Amplified centrosomes in dendritic cells promote immune cell effector functions.” IST Austria, 2020.","short":"R. Hauschild, (2020).","ista":"Hauschild R. 2020. Amplified centrosomes in dendritic cells promote immune cell effector functions, IST Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:8181\">10.15479/AT:ISTA:8181</a>.","ama":"Hauschild R. Amplified centrosomes in dendritic cells promote immune cell effector functions. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8181\">10.15479/AT:ISTA:8181</a>","mla":"Hauschild, Robert. <i>Amplified Centrosomes in Dendritic Cells Promote Immune Cell Effector Functions</i>. IST Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:8181\">10.15479/AT:ISTA:8181</a>.","apa":"Hauschild, R. (2020). Amplified centrosomes in dendritic cells promote immune cell effector functions. IST Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:8181\">https://doi.org/10.15479/AT:ISTA:8181</a>"},"day":"24","status":"public","tmp":{"legal_code_url":"https://opensource.org/licenses/BSD-3-Clause","name":"The 3-Clause BSD License","short":"3-Clause BSD"},"_id":"8181","date_created":"2020-07-28T16:24:37Z","department":[{"_id":"Bio"}],"license":"https://opensource.org/licenses/BSD-3-Clause","year":"2020","publisher":"IST Austria","date_published":"2020-08-24T00:00:00Z","month":"08","has_accepted_license":"1","title":"Amplified centrosomes in dendritic cells promote immune cell effector functions","author":[{"orcid":"0000-0001-9843-3522","last_name":"Hauschild","first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","full_name":"Hauschild, Robert"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"file":[{"file_name":"centriolesDistance.m","success":1,"date_updated":"2020-08-24T15:43:49Z","date_created":"2020-08-24T15:43:49Z","file_size":6577,"creator":"rhauschild","file_id":"8290","content_type":"text/plain","access_level":"open_access","checksum":"878c60885ce30afb59a884dd5eef451c","relation":"main_file"},{"relation":"main_file","checksum":"5a93ac7be2b66b28e4bd8b113ee6aade","access_level":"open_access","content_type":"text/plain","file_id":"8291","file_size":2680,"creator":"rhauschild","date_created":"2020-08-24T15:43:52Z","date_updated":"2020-08-24T15:43:52Z","success":1,"file_name":"goTracking.m"}],"date_updated":"2021-01-11T15:29:08Z"},{"date_updated":"2023-10-17T07:37:11Z","oa":1,"date_published":"2020-07-01T00:00:00Z","month":"07","year":"2020","page":"7498-7507","external_id":{"arxiv":["2004.04180"]},"conference":{"location":"Virtual","start_date":"2020-06-14","end_date":"2020-06-19","name":"CVPR: Conference on Computer Vision and Pattern Recognition"},"date_created":"2020-07-31T16:53:49Z","ddc":["004"],"status":"public","day":"01","oa_version":"Submitted Version","publication":"Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition","doi":"10.1109/CVPR42600.2020.00752","main_file_link":[{"url":"https://openaccess.thecvf.com/content_CVPR_2020/papers/Henderson_Leveraging_2D_Data_to_Learn_Textured_3D_Mesh_Generation_CVPR_2020_paper.pdf","open_access":"1"}],"author":[{"first_name":"Paul M","id":"13C09E74-18D9-11E9-8878-32CFE5697425","last_name":"Henderson","orcid":"0000-0002-5198-7445","full_name":"Henderson, Paul M"},{"first_name":"Vagia","last_name":"Tsiminaki","full_name":"Tsiminaki, Vagia"},{"orcid":"0000-0001-8622-7887","last_name":"Lampert","first_name":"Christoph","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","full_name":"Lampert, Christoph"}],"title":"Leveraging 2D data to learn textured 3D mesh generation","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"success":1,"file_name":"paper.pdf","date_created":"2020-07-31T16:57:12Z","date_updated":"2020-07-31T16:57:12Z","file_id":"8187","content_type":"application/pdf","creator":"phenders","file_size":10262773,"access_level":"open_access","relation":"main_file"}],"has_accepted_license":"1","publisher":"IEEE","language":[{"iso":"eng"}],"article_processing_charge":"No","department":[{"_id":"ChLa"}],"_id":"8186","quality_controlled":"1","publication_identifier":{"eisbn":["9781728171685"],"eissn":["2575-7075"]},"citation":{"apa":"Henderson, P. M., Tsiminaki, V., &#38; Lampert, C. (2020). Leveraging 2D data to learn textured 3D mesh generation. In <i>Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition</i> (pp. 7498–7507). Virtual: IEEE. <a href=\"https://doi.org/10.1109/CVPR42600.2020.00752\">https://doi.org/10.1109/CVPR42600.2020.00752</a>","mla":"Henderson, Paul M., et al. “Leveraging 2D Data to Learn Textured 3D Mesh Generation.” <i>Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition</i>, IEEE, 2020, pp. 7498–507, doi:<a href=\"https://doi.org/10.1109/CVPR42600.2020.00752\">10.1109/CVPR42600.2020.00752</a>.","ista":"Henderson PM, Tsiminaki V, Lampert C. 2020. Leveraging 2D data to learn textured 3D mesh generation. Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition. CVPR: Conference on Computer Vision and Pattern Recognition, 7498–7507.","short":"P.M. Henderson, V. Tsiminaki, C. Lampert, in:, Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition, IEEE, 2020, pp. 7498–7507.","ieee":"P. M. Henderson, V. Tsiminaki, and C. Lampert, “Leveraging 2D data to learn textured 3D mesh generation,” in <i>Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition</i>, Virtual, 2020, pp. 7498–7507.","ama":"Henderson PM, Tsiminaki V, Lampert C. Leveraging 2D data to learn textured 3D mesh generation. In: <i>Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition</i>. IEEE; 2020:7498-7507. doi:<a href=\"https://doi.org/10.1109/CVPR42600.2020.00752\">10.1109/CVPR42600.2020.00752</a>","chicago":"Henderson, Paul M, Vagia Tsiminaki, and Christoph Lampert. “Leveraging 2D Data to Learn Textured 3D Mesh Generation.” In <i>Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition</i>, 7498–7507. IEEE, 2020. <a href=\"https://doi.org/10.1109/CVPR42600.2020.00752\">https://doi.org/10.1109/CVPR42600.2020.00752</a>."},"arxiv":1,"scopus_import":"1","abstract":[{"lang":"eng","text":"Numerous methods have been proposed for probabilistic generative modelling of\r\n3D objects. However, none of these is able to produce textured objects, which\r\nrenders them of limited use for practical tasks. In this work, we present the\r\nfirst generative model of textured 3D meshes. Training such a model would\r\ntraditionally require a large dataset of textured meshes, but unfortunately,\r\nexisting datasets of meshes lack detailed textures. We instead propose a new\r\ntraining methodology that allows learning from collections of 2D images without\r\nany 3D information. To do so, we train our model to explain a distribution of\r\nimages by modelling each image as a 3D foreground object placed in front of a\r\n2D background. Thus, it learns to generate meshes that when rendered, produce\r\nimages similar to those in its training set.\r\n  A well-known problem when generating meshes with deep networks is the\r\nemergence of self-intersections, which are problematic for many use-cases. As a\r\nsecond contribution we therefore introduce a new generation process for 3D\r\nmeshes that guarantees no self-intersections arise, based on the physical\r\nintuition that faces should push one another out of the way as they move.\r\n  We conduct extensive experiments on our approach, reporting quantitative and\r\nqualitative results on both synthetic data and natural images. These show our\r\nmethod successfully learns to generate plausible and diverse textured 3D\r\nsamples for five challenging object classes."}],"file_date_updated":"2020-07-31T16:57:12Z","type":"conference","publication_status":"published"},{"publication_status":"published","_id":"8188","quality_controlled":"1","publication_identifier":{"isbn":["9781713829546"]},"citation":{"ama":"Henderson PM, Lampert C. Unsupervised object-centric video generation and decomposition in 3D. In: <i>34th Conference on Neural Information Processing Systems</i>. Vol 33. Curran Associates; 2020:3106–3117.","short":"P.M. Henderson, C. Lampert, in:, 34th Conference on Neural Information Processing Systems, Curran Associates, 2020, pp. 3106–3117.","ista":"Henderson PM, Lampert C. 2020. Unsupervised object-centric video generation and decomposition in 3D. 34th Conference on Neural Information Processing Systems. NeurIPS: Neural Information Processing Systems vol. 33, 3106–3117.","ieee":"P. M. Henderson and C. Lampert, “Unsupervised object-centric video generation and decomposition in 3D,” in <i>34th Conference on Neural Information Processing Systems</i>, Vancouver, Canada, 2020, vol. 33, pp. 3106–3117.","chicago":"Henderson, Paul M, and Christoph Lampert. “Unsupervised Object-Centric Video Generation and Decomposition in 3D.” In <i>34th Conference on Neural Information Processing Systems</i>, 33:3106–3117. Curran Associates, 2020.","apa":"Henderson, P. M., &#38; Lampert, C. (2020). Unsupervised object-centric video generation and decomposition in 3D. In <i>34th Conference on Neural Information Processing Systems</i> (Vol. 33, pp. 3106–3117). Vancouver, Canada: Curran Associates.","mla":"Henderson, Paul M., and Christoph Lampert. “Unsupervised Object-Centric Video Generation and Decomposition in 3D.” <i>34th Conference on Neural Information Processing Systems</i>, vol. 33, Curran Associates, 2020, pp. 3106–3117."},"abstract":[{"text":"A natural approach to generative modeling of videos is to represent them as a composition of moving objects. Recent works model a set of 2D sprites over a slowly-varying background, but without considering the underlying 3D scene that\r\ngives rise to them. We instead propose to model a video as the view seen while moving through a scene with multiple 3D objects and a 3D background. Our model is trained from monocular videos without any supervision, yet learns to\r\ngenerate coherent 3D scenes containing several moving objects. We conduct detailed experiments on two datasets, going beyond the visual complexity supported by state-of-the-art generative approaches. We evaluate our method on\r\ndepth-prediction and 3D object detection---tasks which cannot be addressed by those earlier works---and show it out-performs them even on 2D instance segmentation and tracking.","lang":"eng"}],"arxiv":1,"type":"conference","language":[{"iso":"eng"}],"article_processing_charge":"No","department":[{"_id":"ChLa"}],"title":"Unsupervised object-centric video generation and decomposition in 3D","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"last_name":"Henderson","orcid":"0000-0002-5198-7445","id":"13C09E74-18D9-11E9-8878-32CFE5697425","first_name":"Paul M","full_name":"Henderson, Paul M"},{"first_name":"Christoph","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887","last_name":"Lampert","full_name":"Lampert, Christoph"}],"publisher":"Curran Associates","oa_version":"Preprint","publication":"34th Conference on Neural Information Processing Systems","main_file_link":[{"url":"https://arxiv.org/abs/2007.06705","open_access":"1"}],"date_created":"2020-07-31T16:59:19Z","status":"public","day":"07","volume":33,"year":"2020","page":"3106–3117","external_id":{"arxiv":["2007.06705"]},"conference":{"start_date":"2020-12-06","end_date":"2020-12-12","name":"NeurIPS: Neural Information Processing Systems","location":"Vancouver, Canada"},"date_updated":"2023-04-25T09:49:58Z","acknowledged_ssus":[{"_id":"ScienComp"}],"oa":1,"date_published":"2020-07-07T00:00:00Z","intvolume":"        33","month":"07","acknowledgement":"This research was supported by the Scientific Service Units (SSU) of IST Austria through resources\r\nprovided by Scientific Computing (SciComp). PH is employed part-time by Blackford Analysis, but\r\nthey did not support this project in any way."},{"citation":{"chicago":"Yu, Xiaoting, Junfeng Liu, Junshan Li, Zhishan Luo, Yong Zuo, Congcong Xing, Jordi Llorca, et al. “Phosphorous Incorporation in Pd2Sn Alloys for Electrocatalytic Ethanol Oxidation.” <i>Nano Energy</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.nanoen.2020.105116\">https://doi.org/10.1016/j.nanoen.2020.105116</a>.","ieee":"X. Yu <i>et al.</i>, “Phosphorous incorporation in Pd2Sn alloys for electrocatalytic ethanol oxidation,” <i>Nano Energy</i>, vol. 77, no. 11. Elsevier, 2020.","short":"X. Yu, J. Liu, J. Li, Z. Luo, Y. Zuo, C. Xing, J. Llorca, D. Nasiou, J. Arbiol, K. Pan, T. Kleinhanns, Y. Xie, A. Cabot, Nano Energy 77 (2020).","ista":"Yu X, Liu J, Li J, Luo Z, Zuo Y, Xing C, Llorca J, Nasiou D, Arbiol J, Pan K, Kleinhanns T, Xie Y, Cabot A. 2020. Phosphorous incorporation in Pd2Sn alloys for electrocatalytic ethanol oxidation. Nano Energy. 77(11), 105116.","ama":"Yu X, Liu J, Li J, et al. Phosphorous incorporation in Pd2Sn alloys for electrocatalytic ethanol oxidation. <i>Nano Energy</i>. 2020;77(11). doi:<a href=\"https://doi.org/10.1016/j.nanoen.2020.105116\">10.1016/j.nanoen.2020.105116</a>","mla":"Yu, Xiaoting, et al. “Phosphorous Incorporation in Pd2Sn Alloys for Electrocatalytic Ethanol Oxidation.” <i>Nano Energy</i>, vol. 77, no. 11, 105116, Elsevier, 2020, doi:<a href=\"https://doi.org/10.1016/j.nanoen.2020.105116\">10.1016/j.nanoen.2020.105116</a>.","apa":"Yu, X., Liu, J., Li, J., Luo, Z., Zuo, Y., Xing, C., … Cabot, A. (2020). Phosphorous incorporation in Pd2Sn alloys for electrocatalytic ethanol oxidation. <i>Nano Energy</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.nanoen.2020.105116\">https://doi.org/10.1016/j.nanoen.2020.105116</a>"},"publication_identifier":{"issn":["2211-2855"]},"scopus_import":"1","abstract":[{"lang":"eng","text":"Direct ethanol fuel cells (DEFCs) show a huge potential to power future electric vehicles and portable electronics, but their deployment is currently limited by the unavailability of proper electrocatalysis for the ethanol oxidation reaction (EOR). In this work, we engineer a new electrocatalyst by incorporating phosphorous into a palladium-tin alloy and demonstrate a significant performance improvement toward EOR. We first detail a synthetic method to produce Pd2Sn:P nanocrystals that incorporate 35% of phosphorus. These nanoparticles are supported on carbon black and tested for EOR. Pd2Sn:P/C catalysts exhibit mass current densities up to 5.03 A mgPd−1, well above those of Pd2Sn/C, PdP2/C and Pd/C reference catalysts. Furthermore, a twofold lower Tafel slope and a much longer durability are revealed for the Pd2Sn:P/C catalyst compared with Pd/C. The performance improvement is rationalized with the aid of density functional theory (DFT) calculations considering different phosphorous chemical environments. Depending on its oxidation state, surface phosphorus introduces sites with low energy OH− adsorption and/or strongly influences the electronic structure of palladium and tin to facilitate the oxidation of the acetyl to acetic acid, which is considered the EOR rate limiting step. DFT calculations also points out that the durability improvement of Pd2Sn:P/C catalyst is associated to the promotion of OH adsorption that accelerates the oxidation of intermediate poisoning COads, reactivating the catalyst surface."}],"type":"journal_article","_id":"8189","quality_controlled":"1","publication_status":"published","publisher":"Elsevier","title":"Phosphorous incorporation in Pd2Sn alloys for electrocatalytic ethanol oxidation","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","author":[{"full_name":"Yu, Xiaoting","first_name":"Xiaoting","last_name":"Yu"},{"last_name":"Liu","first_name":"Junfeng","full_name":"Liu, Junfeng"},{"last_name":"Li","first_name":"Junshan","full_name":"Li, Junshan"},{"last_name":"Luo","first_name":"Zhishan","full_name":"Luo, Zhishan"},{"full_name":"Zuo, Yong","first_name":"Yong","last_name":"Zuo"},{"full_name":"Xing, Congcong","last_name":"Xing","first_name":"Congcong"},{"first_name":"Jordi","last_name":"Llorca","full_name":"Llorca, Jordi"},{"last_name":"Nasiou","first_name":"Déspina","full_name":"Nasiou, Déspina"},{"full_name":"Arbiol, Jordi","last_name":"Arbiol","first_name":"Jordi"},{"full_name":"Pan, Kai","first_name":"Kai","last_name":"Pan"},{"last_name":"Kleinhanns","first_name":"Tobias","id":"8BD9DE16-AB3C-11E9-9C8C-2A03E6697425","full_name":"Kleinhanns, Tobias"},{"full_name":"Xie, Ying","first_name":"Ying","last_name":"Xie"},{"full_name":"Cabot, Andreu","first_name":"Andreu","last_name":"Cabot"}],"article_processing_charge":"No","department":[{"_id":"MaIb"}],"language":[{"iso":"eng"}],"article_type":"original","volume":77,"date_created":"2020-08-02T22:00:57Z","day":"01","status":"public","publication":"Nano Energy","doi":"10.1016/j.nanoen.2020.105116","oa_version":"None","isi":1,"date_published":"2020-11-01T00:00:00Z","intvolume":"        77","month":"11","acknowledgement":"This work was supported by the European Regional Development Funds and by the Spanish Ministerio de Economía y Competitividad through the project SEHTOP, ENE2016- 77798-C4-3-R, and ENE2017-85087-C3. X. Y. thanks the China Scholarship Council for the scholarship support. J. Liu acknowledges support from the Jiangsu University Foundation (4111510011). J. Li obtained International Postdoctoral Exchange Fellowship Program (Talent-Introduction program) in 2019 and is grateful for the project (2019M663468) funded by the China Postdoctoral Science Foundation. Authors acknowledge funding from Generalitat de Catalunya 2017 SGR 327 and 2017 SGR 1246, and from IST Austria. ICN2 acknowledges the support from the Severo Ochoa Programme (MINECO, grant no. SEV-2017-0706) and is funded by the CERCA Programme/Generalitat de Catalunya. J. Llorca is a Serra Húnter Fellow and is grateful to MICINN/FEDER RTI2018-093996-B-C31, GC 2017 SGR 128 and to ICREA Academia program.","article_number":"105116","date_updated":"2023-08-22T08:24:05Z","issue":"11","external_id":{"isi":["000581738300030"]},"year":"2020"},{"publication":"The Journal of Cell Biology","doi":"10.1083/jcb.202007029","oa_version":"Published Version","isi":1,"volume":219,"date_created":"2020-08-02T22:00:57Z","tmp":{"short":"CC BY-NC-SA (4.0)","image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"ddc":["570"],"day":"22","status":"public","external_id":{"isi":["000573631000004"]},"license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","year":"2020","date_published":"2020-07-22T00:00:00Z","month":"07","intvolume":"       219","article_number":"e202007029","date_updated":"2023-10-17T10:04:49Z","oa":1,"issue":"8","publication_status":"published","publication_identifier":{"eissn":["1540-8140"]},"citation":{"chicago":"Sixt, Michael K, and Anna Huttenlocher. “Zena Werb (1945-2020): Cell Biology in Context.” <i>The Journal of Cell Biology</i>. Rockefeller University Press, 2020. <a href=\"https://doi.org/10.1083/jcb.202007029\">https://doi.org/10.1083/jcb.202007029</a>.","short":"M.K. Sixt, A. Huttenlocher, The Journal of Cell Biology 219 (2020).","ieee":"M. K. Sixt and A. Huttenlocher, “Zena Werb (1945-2020): Cell biology in context,” <i>The Journal of Cell Biology</i>, vol. 219, no. 8. Rockefeller University Press, 2020.","ista":"Sixt MK, Huttenlocher A. 2020. Zena Werb (1945-2020): Cell biology in context. The Journal of Cell Biology. 219(8), e202007029.","ama":"Sixt MK, Huttenlocher A. Zena Werb (1945-2020): Cell biology in context. <i>The Journal of Cell Biology</i>. 2020;219(8). doi:<a href=\"https://doi.org/10.1083/jcb.202007029\">10.1083/jcb.202007029</a>","mla":"Sixt, Michael K., and Anna Huttenlocher. “Zena Werb (1945-2020): Cell Biology in Context.” <i>The Journal of Cell Biology</i>, vol. 219, no. 8, e202007029, Rockefeller University Press, 2020, doi:<a href=\"https://doi.org/10.1083/jcb.202007029\">10.1083/jcb.202007029</a>.","apa":"Sixt, M. K., &#38; Huttenlocher, A. (2020). Zena Werb (1945-2020): Cell biology in context. <i>The Journal of Cell Biology</i>. Rockefeller University Press. <a href=\"https://doi.org/10.1083/jcb.202007029\">https://doi.org/10.1083/jcb.202007029</a>"},"scopus_import":"1","type":"journal_article","file_date_updated":"2021-02-02T23:30:03Z","_id":"8190","article_processing_charge":"No","department":[{"_id":"MiSi"}],"language":[{"iso":"eng"}],"article_type":"letter_note","has_accepted_license":"1","publisher":"Rockefeller University Press","title":"Zena Werb (1945-2020): Cell biology in context","author":[{"first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K"},{"full_name":"Huttenlocher, Anna","last_name":"Huttenlocher","first_name":"Anna"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"file_name":"2020_JCB_Sixt.pdf","date_created":"2020-08-04T13:11:52Z","date_updated":"2021-02-02T23:30:03Z","content_type":"application/pdf","file_id":"8200","creator":"dernst","file_size":830725,"checksum":"30016d778d266b8e17d01094917873b8","relation":"main_file","access_level":"open_access","embargo":"2021-02-01"}]},{"date_updated":"2024-02-28T12:56:32Z","issue":"7","title":"Memory tagging: Minimalist synchronization for scalable concurrent data structures","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"orcid":"0000-0003-3650-940X","last_name":"Alistarh","first_name":"Dan-Adrian","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","full_name":"Alistarh, Dan-Adrian"},{"last_name":"Brown","id":"3569F0A0-F248-11E8-B48F-1D18A9856A87","first_name":"Trevor A","full_name":"Brown, Trevor A"},{"full_name":"Singhal, Nandini","last_name":"Singhal","first_name":"Nandini"}],"month":"07","date_published":"2020-07-06T00:00:00Z","publisher":"Association for Computing Machinery","language":[{"iso":"eng"}],"year":"2020","external_id":{"isi":["000744436200004"]},"page":"37-49","article_processing_charge":"No","department":[{"_id":"DaAl"}],"conference":{"location":"Virtual Event, United States","start_date":"2020-07-15","end_date":"2020-07-17","name":"SPAA: Symposium on Parallelism in Algorithms and Architectures"},"_id":"8191","date_created":"2020-08-02T22:00:58Z","status":"public","day":"06","quality_controlled":"1","citation":{"apa":"Alistarh, D.-A., Brown, T. A., &#38; Singhal, N. (2020). Memory tagging: Minimalist synchronization for scalable concurrent data structures. In <i>Annual ACM Symposium on Parallelism in Algorithms and Architectures</i> (pp. 37–49). Virtual Event, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3350755.3400213\">https://doi.org/10.1145/3350755.3400213</a>","mla":"Alistarh, Dan-Adrian, et al. “Memory Tagging: Minimalist Synchronization for Scalable Concurrent Data Structures.” <i>Annual ACM Symposium on Parallelism in Algorithms and Architectures</i>, no. 7, Association for Computing Machinery, 2020, pp. 37–49, doi:<a href=\"https://doi.org/10.1145/3350755.3400213\">10.1145/3350755.3400213</a>.","short":"D.-A. Alistarh, T.A. Brown, N. Singhal, in:, Annual ACM Symposium on Parallelism in Algorithms and Architectures, Association for Computing Machinery, 2020, pp. 37–49.","ista":"Alistarh D-A, Brown TA, Singhal N. 2020. Memory tagging: Minimalist synchronization for scalable concurrent data structures. Annual ACM Symposium on Parallelism in Algorithms and Architectures. SPAA: Symposium on Parallelism in Algorithms and Architectures, 37–49.","ieee":"D.-A. Alistarh, T. A. Brown, and N. Singhal, “Memory tagging: Minimalist synchronization for scalable concurrent data structures,” in <i>Annual ACM Symposium on Parallelism in Algorithms and Architectures</i>, Virtual Event, United States, 2020, no. 7, pp. 37–49.","ama":"Alistarh D-A, Brown TA, Singhal N. Memory tagging: Minimalist synchronization for scalable concurrent data structures. In: <i>Annual ACM Symposium on Parallelism in Algorithms and Architectures</i>. Association for Computing Machinery; 2020:37-49. doi:<a href=\"https://doi.org/10.1145/3350755.3400213\">10.1145/3350755.3400213</a>","chicago":"Alistarh, Dan-Adrian, Trevor A Brown, and Nandini Singhal. “Memory Tagging: Minimalist Synchronization for Scalable Concurrent Data Structures.” In <i>Annual ACM Symposium on Parallelism in Algorithms and Architectures</i>, 37–49. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3350755.3400213\">https://doi.org/10.1145/3350755.3400213</a>."},"publication_identifier":{"isbn":["9781450369350"]},"type":"conference","scopus_import":"1","abstract":[{"lang":"eng","text":"There has been a significant amount of research on hardware and software support for efficient concurrent data structures; yet, the question of how to build correct, simple, and scalable data structures has not yet been definitively settled. In this paper, we revisit this question from a minimalist perspective, and ask: what is the smallest amount of synchronization required for correct and efficient concurrent search data structures, and how could this minimal synchronization support be provided in hardware?\r\n\r\nTo address these questions, we introduce memory tagging, a simple hardware mechanism which enables the programmer to \"tag\" a dynamic set of memory locations, at cache-line granularity, and later validate whether the memory has been concurrently modified, with the possibility of updating one of the underlying locations atomically if validation succeeds. We provide several examples showing that this mechanism can enable fast and arguably simple concurrent data structure designs, such as lists, binary search trees, balanced search trees, range queries, and Software Transactional Memory (STM) implementations. We provide an implementation of memory tags in the Graphite multi-core simulator, showing that the mechanism can be implemented entirely at the level of L1 cache, and that it can enable non-trivial speedups versus existing implementations of the above data structures."}],"isi":1,"oa_version":"None","publication_status":"published","doi":"10.1145/3350755.3400213","publication":"Annual ACM Symposium on Parallelism in Algorithms and Architectures"}]