[{"isi":1,"day":"01","abstract":[{"lang":"eng","text":"AtNHX5 and AtNHX6 are endosomal Na+,K+/H+ antiporters that are critical for growth and development in Arabidopsis, but the mechanism behind their action remains unknown. Here, we report that AtNHX5 and AtNHX6, functioning as H+ leak, control auxin homeostasis and auxin-mediated development. We found that nhx5 nhx6 exhibited growth variations of auxin-related defects. We further showed that nhx5 nhx6 was affected in auxin homeostasis. Genetic analysis showed that AtNHX5 and AtNHX6 were required for the function of the ER-localized auxin transporter PIN5. Although AtNHX5 and AtNHX6 were co-localized with PIN5 at ER, they did not interact directly. Instead, the conserved acidic residues in AtNHX5 and AtNHX6, which are essential for exchange activity, were required for PIN5 function. AtNHX5 and AtNHX6 regulated the pH in ER. Overall, AtNHX5 and AtNHX6 may regulate auxin transport across the ER via the pH gradient created by their transport activity. H+-leak pathway provides a fine-tuning mechanism that controls cellular auxin fluxes. "}],"status":"public","date_published":"2018-05-01T00:00:00Z","quality_controlled":"1","scopus_import":"1","date_created":"2018-12-11T11:46:36Z","publisher":"Wiley-Blackwell","type":"journal_article","file":[{"file_name":"2018_PlantCellEnv_Fan.pdf","checksum":"6a20f843565f962cb20281cdf5e40914","creator":"dernst","relation":"main_file","access_level":"open_access","file_size":1937976,"file_id":"7042","date_created":"2019-11-18T16:22:22Z","content_type":"application/pdf","date_updated":"2020-07-14T12:46:32Z"}],"publist_id":"7359","article_type":"original","has_accepted_license":"1","department":[{"_id":"JiFr"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","doi":"10.1111/pce.13153","language":[{"iso":"eng"}],"author":[{"last_name":"Fan","full_name":"Fan, Ligang","first_name":"Ligang"},{"first_name":"Lei","last_name":"Zhao","full_name":"Zhao, Lei"},{"full_name":"Hu, Wei","last_name":"Hu","first_name":"Wei"},{"first_name":"Weina","last_name":"Li","full_name":"Li, Weina"},{"first_name":"Ondřej","last_name":"Novák","full_name":"Novák, Ondřej"},{"full_name":"Strnad, Miroslav","last_name":"Strnad","first_name":"Miroslav"},{"full_name":"Simon, Sibu","last_name":"Simon","first_name":"Sibu","orcid":"0000-0002-1998-6741","id":"4542EF9A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Friml","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jirí"},{"first_name":"Jinbo","full_name":"Shen, Jinbo","last_name":"Shen"},{"first_name":"Liwen","full_name":"Jiang, Liwen","last_name":"Jiang"},{"last_name":"Qiu","full_name":"Qiu, Quan","first_name":"Quan"}],"file_date_updated":"2020-07-14T12:46:32Z","citation":{"ama":"Fan L, Zhao L, Hu W, et al. NHX antiporters regulate the pH of endoplasmic reticulum and auxin-mediated development. <i>Plant, Cell and Environment</i>. 2018;41:850-864. doi:<a href=\"https://doi.org/10.1111/pce.13153\">10.1111/pce.13153</a>","chicago":"Fan, Ligang, Lei Zhao, Wei Hu, Weina Li, Ondřej Novák, Miroslav Strnad, Sibu Simon, et al. “NHX Antiporters Regulate the PH of Endoplasmic Reticulum and Auxin-Mediated Development.” <i>Plant, Cell and Environment</i>. Wiley-Blackwell, 2018. <a href=\"https://doi.org/10.1111/pce.13153\">https://doi.org/10.1111/pce.13153</a>.","mla":"Fan, Ligang, et al. “NHX Antiporters Regulate the PH of Endoplasmic Reticulum and Auxin-Mediated Development.” <i>Plant, Cell and Environment</i>, vol. 41, Wiley-Blackwell, 2018, pp. 850–64, doi:<a href=\"https://doi.org/10.1111/pce.13153\">10.1111/pce.13153</a>.","ieee":"L. Fan <i>et al.</i>, “NHX antiporters regulate the pH of endoplasmic reticulum and auxin-mediated development,” <i>Plant, Cell and Environment</i>, vol. 41. Wiley-Blackwell, pp. 850–864, 2018.","short":"L. Fan, L. Zhao, W. Hu, W. Li, O. Novák, M. Strnad, S. Simon, J. Friml, J. Shen, L. Jiang, Q. Qiu, Plant, Cell and Environment 41 (2018) 850–864.","ista":"Fan L, Zhao L, Hu W, Li W, Novák O, Strnad M, Simon S, Friml J, Shen J, Jiang L, Qiu Q. 2018. NHX antiporters regulate the pH of endoplasmic reticulum and auxin-mediated development. Plant, Cell and Environment. 41, 850–864.","apa":"Fan, L., Zhao, L., Hu, W., Li, W., Novák, O., Strnad, M., … Qiu, Q. (2018). NHX antiporters regulate the pH of endoplasmic reticulum and auxin-mediated development. <i>Plant, Cell and Environment</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1111/pce.13153\">https://doi.org/10.1111/pce.13153</a>"},"publication_status":"published","publication":"Plant, Cell and Environment","article_processing_charge":"No","year":"2018","page":"850 - 864","oa_version":"Submitted Version","pmid":1,"acknowledgement":"This work was supported by the National Natural Science Foundation of China (31571464, 31371438 and 31070222 to Q.S.Q.), the National Basic Research Program of China (973 project, 2013CB429904 to Q.S.Q.), the Research Fund for the Doctoral Program of Higher Education of China (20130211110001 to Q.S.Q.), the Ministry of Education, Youth and Sports of the Czech Republic (the National Program for Sustainability I, LO1204), and The Czech Science Foundation GAČR (GA13–40637S) to JF. We thank Dr. Tom J. Guilfoyle for DR5::GUS line and Dr. Jia Li for pBIB‐RFP vector and DR5::GFP line. We thank Liping Guan and Yang Zhao for their help with the confocal microscope assay. ","_id":"462","date_updated":"2023-09-13T09:03:18Z","tmp":{"image":"/images/cc_by_nc.png","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","short":"CC BY-NC (4.0)"},"ddc":["580"],"intvolume":"        41","title":"NHX antiporters regulate the pH of endoplasmic reticulum and auxin-mediated development","external_id":{"pmid":["29360148"],"isi":["000426870500012"]},"volume":41,"month":"05","oa":1},{"doi":"10.1016/j.jbiotec.2018.01.008","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","department":[{"_id":"CaGu"}],"publist_id":"7317","type":"journal_article","publisher":"Elsevier","date_created":"2018-12-11T11:46:50Z","scopus_import":"1","quality_controlled":"1","date_published":"2018-02-20T00:00:00Z","status":"public","abstract":[{"text":"Buffers are essential for diluting bacterial cultures for flow cytometry analysis in order to study bacterial physiology and gene expression parameters based on fluorescence signals. Using a variety of constitutively expressed fluorescent proteins in Escherichia coli K-12 strain MG1655, we found strong artifactual changes in fluorescence levels after dilution into the commonly used flow cytometry buffer phosphate-buffered saline (PBS) and two other buffer solutions, Tris-HCl and M9 salts. These changes appeared very rapidly after dilution, and were linked to increased membrane permeability and loss in cell viability. We observed buffer-related effects in several different E. coli strains, K-12, C and W, but not E. coli B, which can be partially explained by differences in lipopolysaccharide (LPS) and outer membrane composition. Supplementing the buffers with divalent cations responsible for outer membrane stability, Mg2+ and Ca2+, preserved fluorescence signals, membrane integrity and viability of E. coli. Thus, stabilizing the bacterial outer membrane is essential for precise and unbiased measurements of fluorescence parameters using flow cytometry.","lang":"eng"}],"day":"20","isi":1,"month":"02","volume":268,"external_id":{"isi":["000425715100006"]},"title":"Lack of cations in flow cytometry buffers affect fluorescence signals by reducing membrane stability and viability of Escherichia coli strains","acknowledged_ssus":[{"_id":"Bio"}],"intvolume":"       268","date_updated":"2024-10-09T20:58:29Z","_id":"503","acknowledgement":"We thank R Chait and M Lagator for sharing Bacillus subtilis CR_Y1 and pZS*_2R-cIPtet-Venus-Prm, respectively. We are grateful to T Pilizota and all members of the Guet lab for critically reading the manuscript. We also thank the Bioimaging facility at IST Austria for assistance using the FACSAria III system.\r\n\r\n","oa_version":"None","corr_author":"1","page":"40 - 52","year":"2018","article_processing_charge":"No","publication":"Journal of Biotechnology","publication_status":"published","citation":{"mla":"Tomasek, Kathrin, et al. “Lack of Cations in Flow Cytometry Buffers Affect Fluorescence Signals by Reducing Membrane Stability and Viability of Escherichia Coli Strains.” <i>Journal of Biotechnology</i>, vol. 268, Elsevier, 2018, pp. 40–52, doi:<a href=\"https://doi.org/10.1016/j.jbiotec.2018.01.008\">10.1016/j.jbiotec.2018.01.008</a>.","chicago":"Tomasek, Kathrin, Tobias Bergmiller, and Calin C Guet. “Lack of Cations in Flow Cytometry Buffers Affect Fluorescence Signals by Reducing Membrane Stability and Viability of Escherichia Coli Strains.” <i>Journal of Biotechnology</i>. Elsevier, 2018. <a href=\"https://doi.org/10.1016/j.jbiotec.2018.01.008\">https://doi.org/10.1016/j.jbiotec.2018.01.008</a>.","ama":"Tomasek K, Bergmiller T, Guet CC. Lack of cations in flow cytometry buffers affect fluorescence signals by reducing membrane stability and viability of Escherichia coli strains. <i>Journal of Biotechnology</i>. 2018;268:40-52. doi:<a href=\"https://doi.org/10.1016/j.jbiotec.2018.01.008\">10.1016/j.jbiotec.2018.01.008</a>","ista":"Tomasek K, Bergmiller T, Guet CC. 2018. Lack of cations in flow cytometry buffers affect fluorescence signals by reducing membrane stability and viability of Escherichia coli strains. Journal of Biotechnology. 268, 40–52.","apa":"Tomasek, K., Bergmiller, T., &#38; Guet, C. C. (2018). Lack of cations in flow cytometry buffers affect fluorescence signals by reducing membrane stability and viability of Escherichia coli strains. <i>Journal of Biotechnology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jbiotec.2018.01.008\">https://doi.org/10.1016/j.jbiotec.2018.01.008</a>","short":"K. Tomasek, T. Bergmiller, C.C. Guet, Journal of Biotechnology 268 (2018) 40–52.","ieee":"K. Tomasek, T. Bergmiller, and C. C. Guet, “Lack of cations in flow cytometry buffers affect fluorescence signals by reducing membrane stability and viability of Escherichia coli strains,” <i>Journal of Biotechnology</i>, vol. 268. Elsevier, pp. 40–52, 2018."},"author":[{"id":"3AEC8556-F248-11E8-B48F-1D18A9856A87","first_name":"Kathrin","orcid":"0000-0003-3768-877X","last_name":"Tomasek","full_name":"Tomasek, Kathrin"},{"full_name":"Bergmiller, Tobias","last_name":"Bergmiller","orcid":"0000-0001-5396-4346","first_name":"Tobias","id":"2C471CFA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Calin C","orcid":"0000-0001-6220-2052","id":"47F8433E-F248-11E8-B48F-1D18A9856A87","full_name":"Guet, Calin C","last_name":"Guet"}],"language":[{"iso":"eng"}]},{"ddc":["530"],"title":"Non-linear dynamics and alternating ‘flip’ solutions in ferrofluidic Taylor-Couette flow","intvolume":"       452","external_id":{"isi":["000425547700061"]},"oa":1,"volume":452,"month":"04","acknowledgement":"S.Altmeyer is a Serra Húnter Fellow","_id":"519","date_updated":"2024-10-09T20:58:32Z","article_processing_charge":"No","year":"2018","page":"427 - 441","oa_version":"Submitted Version","corr_author":"1","language":[{"iso":"eng"}],"file_date_updated":"2020-07-14T12:46:37Z","author":[{"last_name":"Altmeyer","full_name":"Altmeyer, Sebastian","id":"2EE67FDC-F248-11E8-B48F-1D18A9856A87","first_name":"Sebastian","orcid":"0000-0001-5964-0203"}],"publication_status":"published","citation":{"mla":"Altmeyer, Sebastian. “Non-Linear Dynamics and Alternating ‘Flip’ Solutions in Ferrofluidic Taylor-Couette Flow.” <i>Journal of Magnetism and Magnetic Materials</i>, vol. 452, Elsevier, 2018, pp. 427–41, doi:<a href=\"https://doi.org/10.1016/j.jmmm.2017.12.073\">10.1016/j.jmmm.2017.12.073</a>.","chicago":"Altmeyer, Sebastian. “Non-Linear Dynamics and Alternating ‘Flip’ Solutions in Ferrofluidic Taylor-Couette Flow.” <i>Journal of Magnetism and Magnetic Materials</i>. Elsevier, 2018. <a href=\"https://doi.org/10.1016/j.jmmm.2017.12.073\">https://doi.org/10.1016/j.jmmm.2017.12.073</a>.","ama":"Altmeyer S. Non-linear dynamics and alternating ‘flip’ solutions in ferrofluidic Taylor-Couette flow. <i>Journal of Magnetism and Magnetic Materials</i>. 2018;452:427-441. doi:<a href=\"https://doi.org/10.1016/j.jmmm.2017.12.073\">10.1016/j.jmmm.2017.12.073</a>","ista":"Altmeyer S. 2018. Non-linear dynamics and alternating ‘flip’ solutions in ferrofluidic Taylor-Couette flow. Journal of Magnetism and Magnetic Materials. 452, 427–441.","apa":"Altmeyer, S. (2018). Non-linear dynamics and alternating ‘flip’ solutions in ferrofluidic Taylor-Couette flow. <i>Journal of Magnetism and Magnetic Materials</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jmmm.2017.12.073\">https://doi.org/10.1016/j.jmmm.2017.12.073</a>","short":"S. Altmeyer, Journal of Magnetism and Magnetic Materials 452 (2018) 427–441.","ieee":"S. Altmeyer, “Non-linear dynamics and alternating ‘flip’ solutions in ferrofluidic Taylor-Couette flow,” <i>Journal of Magnetism and Magnetic Materials</i>, vol. 452. Elsevier, pp. 427–441, 2018."},"publication":"Journal of Magnetism and Magnetic Materials","department":[{"_id":"BjHo"}],"has_accepted_license":"1","article_type":"original","file":[{"file_size":17309535,"file_id":"7838","access_level":"open_access","relation":"main_file","creator":"dernst","file_name":"2018_Magnetism_Altmeyer.pdf","checksum":"431f5cd4a628d7ca21161f82b14ccb4f","date_updated":"2020-07-14T12:46:37Z","content_type":"application/pdf","date_created":"2020-05-14T14:41:17Z"}],"publist_id":"7297","doi":"10.1016/j.jmmm.2017.12.073","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_published":"2018-04-15T00:00:00Z","quality_controlled":"1","date_created":"2018-12-11T11:46:56Z","publisher":"Elsevier","scopus_import":"1","type":"journal_article","abstract":[{"lang":"eng","text":"This study treats with the influence of a symmetry-breaking transversal magnetic field on the nonlinear dynamics of ferrofluidic Taylor-Couette flow – flow confined between two concentric independently rotating cylinders. We detected alternating ‘flip’ solutions which are flow states featuring typical characteristics of slow-fast-dynamics in dynamical systems. The flip corresponds to a temporal change in the axial wavenumber and we find them to appear either as pure 2-fold axisymmetric (due to the symmetry-breaking nature of the applied transversal magnetic field) or involving non-axisymmetric, helical modes in its interim solution. The latter ones show features of typical ribbon solutions. In any case the flip solutions have a preferential first axial wavenumber which corresponds to the more stable state (slow dynamics) and second axial wavenumber, corresponding to the short appearing more unstable state (fast dynamics). However, in both cases the flip time grows exponential with increasing the magnetic field strength before the flip solutions, living on 2-tori invariant manifolds, cease to exist, with lifetime going to infinity. Further we show that ferrofluidic flow turbulence differ from the classical, ordinary (usually at high Reynolds number) turbulence. The applied magnetic field hinders the free motion of ferrofluid partials and therefore smoothen typical turbulent quantities and features so that speaking of mildly chaotic dynamics seems to be a more appropriate expression for the observed motion. "}],"status":"public","isi":1,"day":"15"},{"_id":"53","date_updated":"2021-01-12T08:01:26Z","month":"10","volume":71,"oa":1,"ddc":["020"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"intvolume":"        71","title":"IST PubRep and IST DataRep: the institutional repositories at IST Austria","citation":{"ista":"Petritsch B, Porsche J. 2018. IST PubRep and IST DataRep: the institutional repositories at IST Austria. VÖB Mitteilungen. 71(1), 199–206.","apa":"Petritsch, B., &#38; Porsche, J. (2018). IST PubRep and IST DataRep: the institutional repositories at IST Austria. <i>VÖB Mitteilungen</i>. Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare. <a href=\"https://doi.org/10.31263/voebm.v71i1.1993\">https://doi.org/10.31263/voebm.v71i1.1993</a>","short":"B. Petritsch, J. Porsche, VÖB Mitteilungen 71 (2018) 199–206.","ieee":"B. Petritsch and J. Porsche, “IST PubRep and IST DataRep: the institutional repositories at IST Austria,” <i>VÖB Mitteilungen</i>, vol. 71, no. 1. Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, pp. 199–206, 2018.","mla":"Petritsch, Barbara, and Jana Porsche. “IST PubRep and IST DataRep: The Institutional Repositories at IST Austria.” <i>VÖB Mitteilungen</i>, vol. 71, no. 1, Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, 2018, pp. 199–206, doi:<a href=\"https://doi.org/10.31263/voebm.v71i1.1993\">10.31263/voebm.v71i1.1993</a>.","ama":"Petritsch B, Porsche J. IST PubRep and IST DataRep: the institutional repositories at IST Austria. <i>VÖB Mitteilungen</i>. 2018;71(1):199-206. doi:<a href=\"https://doi.org/10.31263/voebm.v71i1.1993\">10.31263/voebm.v71i1.1993</a>","chicago":"Petritsch, Barbara, and Jana Porsche. “IST PubRep and IST DataRep: The Institutional Repositories at IST Austria.” <i>VÖB Mitteilungen</i>. Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, 2018. <a href=\"https://doi.org/10.31263/voebm.v71i1.1993\">https://doi.org/10.31263/voebm.v71i1.1993</a>."},"publication_status":"published","publication":"VÖB Mitteilungen","language":[{"iso":"eng"}],"author":[{"full_name":"Petritsch, Barbara","last_name":"Petritsch","orcid":"0000-0003-2724-4614","first_name":"Barbara","id":"406048EC-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Porsche","full_name":"Porsche, Jana","id":"3252EDC2-F248-11E8-B48F-1D18A9856A87","first_name":"Jana"}],"file_date_updated":"2020-07-14T12:46:38Z","page":"199 - 206","oa_version":"Published Version","year":"2018","issue":"1","type":"journal_article","date_published":"2018-10-01T00:00:00Z","scopus_import":1,"date_created":"2018-12-11T11:44:22Z","publisher":"Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare","file":[{"checksum":"7ac61bade5f37db011ca435ebcf86797","file_name":"2018_VOEB_Petritsch.pdf","relation":"main_file","creator":"dernst","access_level":"open_access","file_size":509434,"file_id":"5702","date_created":"2018-12-17T12:40:27Z","content_type":"application/pdf","date_updated":"2020-07-14T12:46:38Z"}],"publist_id":"8001","department":[{"_id":"E-Lib"}],"has_accepted_license":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.31263/voebm.v71i1.1993","day":"01","abstract":[{"lang":"eng","text":"In 2013, a publication repository was implemented at IST Austria and 2015 after a thorough preparation phase a data repository was implemented - both based on the Open Source Software EPrints. In this text, designed as field report, we will reflect on our experiences with Open Source Software in general and specifically with EPrints regarding technical aspects but also regarding their characteristics of the user community. The second part is a pleading for including the end users in the process of implementation, adaption and evaluation."}],"status":"public"},{"publication":"Computational Geometry: Theory and Applications","publication_status":"published","citation":{"apa":"Edelsbrunner, H., &#38; Iglesias Ham, M. (2018). Multiple covers with balls I: Inclusion–exclusion. <i>Computational Geometry: Theory and Applications</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.comgeo.2017.06.014\">https://doi.org/10.1016/j.comgeo.2017.06.014</a>","ista":"Edelsbrunner H, Iglesias Ham M. 2018. Multiple covers with balls I: Inclusion–exclusion. Computational Geometry: Theory and Applications. 68, 119–133.","ieee":"H. Edelsbrunner and M. Iglesias Ham, “Multiple covers with balls I: Inclusion–exclusion,” <i>Computational Geometry: Theory and Applications</i>, vol. 68. Elsevier, pp. 119–133, 2018.","short":"H. Edelsbrunner, M. Iglesias Ham, Computational Geometry: Theory and Applications 68 (2018) 119–133.","mla":"Edelsbrunner, Herbert, and Mabel Iglesias Ham. “Multiple Covers with Balls I: Inclusion–Exclusion.” <i>Computational Geometry: Theory and Applications</i>, vol. 68, Elsevier, 2018, pp. 119–33, doi:<a href=\"https://doi.org/10.1016/j.comgeo.2017.06.014\">10.1016/j.comgeo.2017.06.014</a>.","chicago":"Edelsbrunner, Herbert, and Mabel Iglesias Ham. “Multiple Covers with Balls I: Inclusion–Exclusion.” <i>Computational Geometry: Theory and Applications</i>. Elsevier, 2018. <a href=\"https://doi.org/10.1016/j.comgeo.2017.06.014\">https://doi.org/10.1016/j.comgeo.2017.06.014</a>.","ama":"Edelsbrunner H, Iglesias Ham M. Multiple covers with balls I: Inclusion–exclusion. <i>Computational Geometry: Theory and Applications</i>. 2018;68:119-133. doi:<a href=\"https://doi.org/10.1016/j.comgeo.2017.06.014\">10.1016/j.comgeo.2017.06.014</a>"},"file_date_updated":"2020-07-14T12:46:38Z","author":[{"full_name":"Edelsbrunner, Herbert","last_name":"Edelsbrunner","first_name":"Herbert","orcid":"0000-0002-9823-6833","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"id":"41B58C0C-F248-11E8-B48F-1D18A9856A87","first_name":"Mabel","last_name":"Iglesias Ham","full_name":"Iglesias Ham, Mabel"}],"language":[{"iso":"eng"}],"corr_author":"1","oa_version":"Preprint","page":"119 - 133","project":[{"call_identifier":"FP7","grant_number":"318493","name":"Topological Complex Systems","_id":"255D761E-B435-11E9-9278-68D0E5697425"}],"year":"2018","article_processing_charge":"No","date_updated":"2025-04-15T08:37:54Z","_id":"530","ec_funded":1,"oa":1,"month":"03","volume":68,"external_id":{"isi":["000415778300010"]},"title":"Multiple covers with balls I: Inclusion–exclusion","intvolume":"        68","ddc":["000"],"day":"01","isi":1,"status":"public","abstract":[{"text":"Inclusion–exclusion is an effective method for computing the volume of a union of measurable sets. We extend it to multiple coverings, proving short inclusion–exclusion formulas for the subset of Rn covered by at least k balls in a finite set. We implement two of the formulas in dimension n=3 and report on results obtained with our software.","lang":"eng"}],"type":"journal_article","publisher":"Elsevier","date_created":"2018-12-11T11:46:59Z","scopus_import":"1","quality_controlled":"1","date_published":"2018-03-01T00:00:00Z","doi":"10.1016/j.comgeo.2017.06.014","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","department":[{"_id":"HeEd"}],"has_accepted_license":"1","file":[{"creator":"dernst","relation":"main_file","file_name":"2018_Edelsbrunner.pdf","checksum":"1c8d58cd489a66cd3e2064c1141c8c5e","access_level":"open_access","file_id":"5953","file_size":708357,"date_created":"2019-02-12T06:47:52Z","date_updated":"2020-07-14T12:46:38Z","content_type":"application/pdf"}],"publist_id":"7289"},{"file_date_updated":"2020-07-14T12:46:38Z","author":[{"last_name":"Alistarh","full_name":"Alistarh, Dan-Adrian","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","first_name":"Dan-Adrian","orcid":"0000-0003-3650-940X"},{"full_name":"Aspnes, James","last_name":"Aspnes","first_name":"James"},{"first_name":"Valerie","full_name":"King, Valerie","last_name":"King"},{"full_name":"Saia, Jared","last_name":"Saia","first_name":"Jared"}],"language":[{"iso":"eng"}],"publication_identifier":{"issn":["0178-2770"]},"publication":"Distributed Computing","publication_status":"published","citation":{"ieee":"D.-A. Alistarh, J. Aspnes, V. King, and J. Saia, “Communication-efficient randomized consensus,” <i>Distributed Computing</i>, vol. 31, no. 6. Springer, pp. 489–501, 2018.","short":"D.-A. Alistarh, J. Aspnes, V. King, J. Saia, Distributed Computing 31 (2018) 489–501.","apa":"Alistarh, D.-A., Aspnes, J., King, V., &#38; Saia, J. (2018). Communication-efficient randomized consensus. <i>Distributed Computing</i>. Springer. <a href=\"https://doi.org/10.1007/s00446-017-0315-1\">https://doi.org/10.1007/s00446-017-0315-1</a>","ista":"Alistarh D-A, Aspnes J, King V, Saia J. 2018. Communication-efficient randomized consensus. Distributed Computing. 31(6), 489–501.","chicago":"Alistarh, Dan-Adrian, James Aspnes, Valerie King, and Jared Saia. “Communication-Efficient Randomized Consensus.” <i>Distributed Computing</i>. Springer, 2018. <a href=\"https://doi.org/10.1007/s00446-017-0315-1\">https://doi.org/10.1007/s00446-017-0315-1</a>.","ama":"Alistarh D-A, Aspnes J, King V, Saia J. Communication-efficient randomized consensus. <i>Distributed Computing</i>. 2018;31(6):489-501. doi:<a href=\"https://doi.org/10.1007/s00446-017-0315-1\">10.1007/s00446-017-0315-1</a>","mla":"Alistarh, Dan-Adrian, et al. “Communication-Efficient Randomized Consensus.” <i>Distributed Computing</i>, vol. 31, no. 6, Springer, 2018, pp. 489–501, doi:<a href=\"https://doi.org/10.1007/s00446-017-0315-1\">10.1007/s00446-017-0315-1</a>."},"year":"2018","article_processing_charge":"Yes (via OA deal)","corr_author":"1","oa_version":"Published Version","page":"489-501","project":[{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"date_updated":"2026-04-16T09:53:54Z","_id":"536","title":"Communication-efficient randomized consensus","intvolume":"        31","ddc":["000"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa":1,"volume":31,"month":"11","external_id":{"isi":["000443832300005"]},"isi":1,"day":"01","status":"public","abstract":[{"lang":"eng","text":"We consider the problem of consensus in the challenging classic model. In this model, the adversary is adaptive; it can choose which processors crash at any point during the course of the algorithm. Further, communication is via asynchronous message passing: there is no known upper bound on the time to send a message from one processor to another, and all messages and coin flips are seen by the adversary. We describe a new randomized consensus protocol with expected message complexity O(n2log2n) when fewer than n / 2 processes may fail by crashing. This is an almost-linear improvement over the best previously known protocol, and within logarithmic factors of a known Ω(n2) message lower bound. The protocol further ensures that no process sends more than O(nlog3n) messages in expectation, which is again within logarithmic factors of optimal. We also present a generalization of the algorithm to an arbitrary number of failures t, which uses expected O(nt+t2log2t) total messages. Our approach is to build a message-efficient, resilient mechanism for aggregating individual processor votes, implementing the message-passing equivalent of a weak shared coin. Roughly, in our protocol, a processor first announces its votes to small groups, then propagates them to increasingly larger groups as it generates more and more votes. To bound the number of messages that an individual process might have to send or receive, the protocol progressively increases the weight of generated votes. The main technical challenge is bounding the impact of votes that are still “in flight” (generated, but not fully propagated) on the final outcome of the shared coin, especially since such votes might have different weights. We achieve this by leveraging the structure of the algorithm, and a technical argument based on martingale concentration bounds. Overall, we show that it is possible to build an efficient message-passing implementation of a shared coin, and in the process (almost-optimally) solve the classic consensus problem in the asynchronous message-passing model."}],"publisher":"Springer","date_created":"2018-12-11T11:47:01Z","scopus_import":"1","date_published":"2018-11-01T00:00:00Z","quality_controlled":"1","type":"journal_article","issue":"6","doi":"10.1007/s00446-017-0315-1","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","department":[{"_id":"DaAl"}],"has_accepted_license":"1","file":[{"access_level":"open_access","file_id":"5867","file_size":595707,"relation":"main_file","creator":"dernst","file_name":"2017_DistribComp_Alistarh.pdf","checksum":"69b46e537acdcac745237ddb853fcbb5","date_updated":"2020-07-14T12:46:38Z","content_type":"application/pdf","date_created":"2019-01-22T07:25:51Z"}],"publist_id":"7281"},{"isi":1,"day":"08","status":"public","abstract":[{"text":"During epithelial tissue development, repair, and homeostasis, adherens junctions (AJs) ensure intercellular adhesion and tissue integrity while allowing for cell and tissue dynamics. Mechanical forces play critical roles in AJs’ composition and dynamics. Recent findings highlight that beyond a well-established role in reinforcing cell-cell adhesion, AJ mechanosensitivity promotes junctional remodeling and polarization, thereby regulating critical processes such as cell intercalation, division, and collective migration. Here, we provide an integrated view of mechanosensing mechanisms that regulate cell-cell contact composition, geometry, and integrity under tension and highlight pivotal roles for mechanosensitive AJ remodeling in preserving epithelial integrity and sustaining tissue dynamics.","lang":"eng"}],"main_file_link":[{"url":"https://doi.org/10.1016/j.devcel.2018.09.014","open_access":"1"}],"date_created":"2018-12-11T11:44:23Z","publisher":"Cell Press","scopus_import":"1","quality_controlled":"1","date_published":"2018-10-08T00:00:00Z","type":"journal_article","issue":"1","doi":"10.1016/j.devcel.2018.09.014","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"CaHe"}],"article_type":"review","publist_id":"8000","author":[{"orcid":"0000-0003-4333-7503","first_name":"Diana C","id":"2E839F16-F248-11E8-B48F-1D18A9856A87","full_name":"Nunes Pinheiro, Diana C","last_name":"Nunes Pinheiro"},{"full_name":"Bellaïche, Yohanns","last_name":"Bellaïche","first_name":"Yohanns"}],"language":[{"iso":"eng"}],"publication":"Developmental Cell","publication_status":"published","citation":{"short":"D.C. Nunes Pinheiro, Y. Bellaïche, Developmental Cell 47 (2018) 3–19.","ieee":"D. C. Nunes Pinheiro and Y. Bellaïche, “Mechanical force-driven adherents junction remodeling and epithelial dynamics,” <i>Developmental Cell</i>, vol. 47, no. 1. Cell Press, pp. 3–19, 2018.","apa":"Nunes Pinheiro, D. C., &#38; Bellaïche, Y. (2018). Mechanical force-driven adherents junction remodeling and epithelial dynamics. <i>Developmental Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.devcel.2018.09.014\">https://doi.org/10.1016/j.devcel.2018.09.014</a>","ista":"Nunes Pinheiro DC, Bellaïche Y. 2018. Mechanical force-driven adherents junction remodeling and epithelial dynamics. Developmental Cell. 47(1), 3–19.","ama":"Nunes Pinheiro DC, Bellaïche Y. Mechanical force-driven adherents junction remodeling and epithelial dynamics. <i>Developmental Cell</i>. 2018;47(1):3-19. doi:<a href=\"https://doi.org/10.1016/j.devcel.2018.09.014\">10.1016/j.devcel.2018.09.014</a>","chicago":"Nunes Pinheiro, Diana C, and Yohanns Bellaïche. “Mechanical Force-Driven Adherents Junction Remodeling and Epithelial Dynamics.” <i>Developmental Cell</i>. Cell Press, 2018. <a href=\"https://doi.org/10.1016/j.devcel.2018.09.014\">https://doi.org/10.1016/j.devcel.2018.09.014</a>.","mla":"Nunes Pinheiro, Diana C., and Yohanns Bellaïche. “Mechanical Force-Driven Adherents Junction Remodeling and Epithelial Dynamics.” <i>Developmental Cell</i>, vol. 47, no. 1, Cell Press, 2018, pp. 3–19, doi:<a href=\"https://doi.org/10.1016/j.devcel.2018.09.014\">10.1016/j.devcel.2018.09.014</a>."},"year":"2018","article_processing_charge":"No","oa_version":"Published Version","page":"3 - 19","acknowledgement":"Research in the Bellaïche laboratory is supported by the European Research Council (ERC Advanced, TiMoprh, 340784), the Fondation ARC pour la Recherche sur le Cancer (SL220130607097), the Agence Nationale de la Recherche (ANR lLabex DEEP; 11-LBX-0044, ANR-10-IDEX-0001-02), the Centre National de la Recherche Scientifique, the Institut National de la Santé et de la Recherche Médicale, and Institut Curie and PSL Research University funding or grants.","OA_type":"free access","date_updated":"2026-06-18T18:52:56Z","_id":"54","title":"Mechanical force-driven adherents junction remodeling and epithelial dynamics","intvolume":"        47","ddc":["570"],"oa":1,"volume":47,"month":"10","external_id":{"isi":["000446579900002"]}},{"date_updated":"2025-05-14T10:55:59Z","_id":"543","title":"Toward a unified theory of efficient, predictive, and sparse coding","intvolume":"       115","oa":1,"volume":115,"month":"01","external_id":{"isi":["000419128700049"]},"author":[{"orcid":"0000-0001-7782-4436","first_name":"Matthew J","id":"2BAAC544-F248-11E8-B48F-1D18A9856A87","full_name":"Chalk, Matthew J","last_name":"Chalk"},{"full_name":"Marre, Olivier","last_name":"Marre","first_name":"Olivier"},{"last_name":"Tkacik","full_name":"Tkacik, Gasper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gasper","orcid":"0000-0002-6699-1455"}],"language":[{"iso":"eng"}],"publication":"Proceedings of the National Academy of Sciences of the United States of America","publication_status":"published","citation":{"mla":"Chalk, Matthew J., et al. “Toward a Unified Theory of Efficient, Predictive, and Sparse Coding.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 115, no. 1, National Academy of Sciences, 2018, pp. 186–91, doi:<a href=\"https://doi.org/10.1073/pnas.1711114115\">10.1073/pnas.1711114115</a>.","ama":"Chalk MJ, Marre O, Tkačik G. Toward a unified theory of efficient, predictive, and sparse coding. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2018;115(1):186-191. doi:<a href=\"https://doi.org/10.1073/pnas.1711114115\">10.1073/pnas.1711114115</a>","chicago":"Chalk, Matthew J, Olivier Marre, and Gašper Tkačik. “Toward a Unified Theory of Efficient, Predictive, and Sparse Coding.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1711114115\">https://doi.org/10.1073/pnas.1711114115</a>.","apa":"Chalk, M. J., Marre, O., &#38; Tkačik, G. (2018). Toward a unified theory of efficient, predictive, and sparse coding. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1711114115\">https://doi.org/10.1073/pnas.1711114115</a>","ista":"Chalk MJ, Marre O, Tkačik G. 2018. Toward a unified theory of efficient, predictive, and sparse coding. Proceedings of the National Academy of Sciences of the United States of America. 115(1), 186–191.","ieee":"M. J. Chalk, O. Marre, and G. Tkačik, “Toward a unified theory of efficient, predictive, and sparse coding,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 115, no. 1. National Academy of Sciences, pp. 186–191, 2018.","short":"M.J. Chalk, O. Marre, G. Tkačik, Proceedings of the National Academy of Sciences of the United States of America 115 (2018) 186–191."},"year":"2018","article_processing_charge":"No","corr_author":"1","oa_version":"Submitted Version","page":"186 - 191","project":[{"grant_number":"P 25651-N26","call_identifier":"FWF","name":"Sensitivity to higher-order statistics in natural scenes","_id":"254D1A94-B435-11E9-9278-68D0E5697425"}],"publisher":"National Academy of Sciences","date_created":"2018-12-11T11:47:04Z","scopus_import":"1","quality_controlled":"1","date_published":"2018-01-02T00:00:00Z","type":"journal_article","issue":"1","doi":"10.1073/pnas.1711114115","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"GaTk"}],"publist_id":"7273","isi":1,"day":"02","status":"public","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/152660 "}],"abstract":[{"text":"A central goal in theoretical neuroscience is to predict the response properties of sensory neurons from first principles. To this end, “efficient coding” posits that sensory neurons encode maximal information about their inputs given internal constraints. There exist, however, many variants of efficient coding (e.g., redundancy reduction, different formulations of predictive coding, robust coding, sparse coding, etc.), differing in their regimes of applicability, in the relevance of signals to be encoded, and in the choice of constraints. It is unclear how these types of efficient coding relate or what is expected when different coding objectives are combined. Here we present a unified framework that encompasses previously proposed efficient coding models and extends to unique regimes. We show that optimizing neural responses to encode predictive information can lead them to either correlate or decorrelate their inputs, depending on the stimulus statistics; in contrast, at low noise, efficiently encoding the past always predicts decorrelation. Later, we investigate coding of naturalistic movies and show that qualitatively different types of visual motion tuning and levels of response sparsity are predicted, depending on whether the objective is to recover the past or predict the future. Our approach promises a way to explain the observed diversity of sensory neural responses, as due to multiple functional goals and constraints fulfilled by different cell types and/or circuits.","lang":"eng"}]},{"has_accepted_license":"1","file":[{"date_updated":"2020-07-14T12:47:00Z","content_type":"application/pdf","date_created":"2018-12-12T11:53:32Z","access_level":"open_access","file_id":"5493","file_size":4202966,"creator":"system","relation":"main_file","file_name":"IST-2018-1066-v1+1_techreport.pdf","checksum":"ba3adafd36fe200385ccda583063b9eb"},{"date_created":"2019-05-10T13:22:12Z","date_updated":"2020-07-14T12:47:00Z","content_type":"text/plain","creator":"dernst","relation":"main_file","checksum":"6cf3a19164bb8e5048a9c8c84dfd9fa3","file_name":"authors-names.txt","access_level":"closed","file_id":"6402","file_size":322}],"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pubrep_id":"1066","month":"11","ddc":["000"],"title":"Cost analysis of nondeterministic probabilistic programs","_id":"5457","type":"technical_report","related_material":{"record":[{"relation":"later_version","id":"6175","status":"public"}]},"date_updated":"2025-04-15T08:11:42Z","date_published":"2018-11-11T00:00:00Z","publisher":"IST Austria","date_created":"2018-12-12T11:39:26Z","scopus_import":1,"abstract":[{"lang":"eng","text":"We consider the problem of expected cost analysis over nondeterministic probabilistic programs, which aims at automated methods for analyzing the resource-usage of such programs. Previous approaches for this problem could only handle nonnegative bounded costs. However, in many scenarios, such as queuing networks or analysis of cryptocurrency protocols, both positive and negative costs are necessary and the costs are unbounded as well.\r\n\r\nIn this work, we present a sound and efficient approach to obtain polynomial bounds on the expected accumulated cost of nondeterministic probabilistic programs. Our approach can handle (a) general positive and negative costs with bounded updates in variables; and (b) nonnegative costs with general updates to variables. We show that several natural examples which could not be handled by previous approaches are captured in our framework.\r\n\r\nMoreover, our approach leads to an efficient polynomial-time algorithm, while no previous approach for cost analysis of probabilistic programs could guarantee polynomial runtime. Finally, we show the effectiveness of our approach by presenting experimental results on a variety of programs, motivated by real-world applications, for which we efficiently synthesize tight resource-usage bounds."}],"page":"27","status":"public","corr_author":"1","oa_version":"Published Version","year":"2018","alternative_title":["IST Austria Technical Report"],"publication_status":"published","citation":{"ista":"Anonymous 1, Anonymous 2, Anonymous 3, Anonymous 4, Anonymous 5, Anonymous 6. 2018. Cost analysis of nondeterministic probabilistic programs, IST Austria, 27p.","apa":"Anonymous, 1, Anonymous, 2, Anonymous, 3, Anonymous, 4, Anonymous, 5, &#38; Anonymous, 6. (2018). <i>Cost analysis of nondeterministic probabilistic programs</i>. IST Austria.","short":"1 Anonymous, 2 Anonymous, 3 Anonymous, 4 Anonymous, 5 Anonymous, 6 Anonymous, Cost Analysis of Nondeterministic Probabilistic Programs, IST Austria, 2018.","ieee":"1 Anonymous, 2 Anonymous, 3 Anonymous, 4 Anonymous, 5 Anonymous, and 6 Anonymous, <i>Cost analysis of nondeterministic probabilistic programs</i>. IST Austria, 2018.","mla":"Anonymous, 1, et al. <i>Cost Analysis of Nondeterministic Probabilistic Programs</i>. IST Austria, 2018.","ama":"Anonymous 1, Anonymous 2, Anonymous 3, Anonymous 4, Anonymous 5, Anonymous 6. <i>Cost Analysis of Nondeterministic Probabilistic Programs</i>. IST Austria; 2018.","chicago":"Anonymous, 1, 2 Anonymous, 3 Anonymous, 4 Anonymous, 5 Anonymous, and 6 Anonymous. <i>Cost Analysis of Nondeterministic Probabilistic Programs</i>. IST Austria, 2018."},"day":"11","language":[{"iso":"eng"}],"publication_identifier":{"issn":["2664-1690"]},"file_date_updated":"2020-07-14T12:47:00Z","author":[{"full_name":"Anonymous, 1","last_name":"Anonymous","first_name":"1"},{"first_name":"2","last_name":"Anonymous","full_name":"Anonymous, 2"},{"first_name":"3","full_name":"Anonymous, 3","last_name":"Anonymous"},{"first_name":"4","last_name":"Anonymous","full_name":"Anonymous, 4"},{"first_name":"5","full_name":"Anonymous, 5","last_name":"Anonymous"},{"first_name":"6","full_name":"Anonymous, 6","last_name":"Anonymous"}]},{"title":"Neural stem cells in neuropsychiatric disorders","intvolume":"        48","external_id":{"isi":["000427101600018"]},"volume":48,"month":"02","_id":"546","date_updated":"2024-10-09T20:58:31Z","article_processing_charge":"No","year":"2018","page":"131 - 138","corr_author":"1","oa_version":"None","language":[{"iso":"eng"}],"author":[{"full_name":"Sacco, Roberto","last_name":"Sacco","first_name":"Roberto","id":"42C9F57E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Cacci","full_name":"Cacci, Emanuele","first_name":"Emanuele"},{"last_name":"Novarino","full_name":"Novarino, Gaia","id":"3E57A680-F248-11E8-B48F-1D18A9856A87","first_name":"Gaia","orcid":"0000-0002-7673-7178"}],"publication_status":"published","citation":{"short":"R. Sacco, E. Cacci, G. Novarino, Current Opinion in Neurobiology 48 (2018) 131–138.","ieee":"R. Sacco, E. Cacci, and G. Novarino, “Neural stem cells in neuropsychiatric disorders,” <i>Current Opinion in Neurobiology</i>, vol. 48, no. 2. Elsevier, pp. 131–138, 2018.","ista":"Sacco R, Cacci E, Novarino G. 2018. Neural stem cells in neuropsychiatric disorders. Current Opinion in Neurobiology. 48(2), 131–138.","apa":"Sacco, R., Cacci, E., &#38; Novarino, G. (2018). Neural stem cells in neuropsychiatric disorders. <i>Current Opinion in Neurobiology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.conb.2017.12.005\">https://doi.org/10.1016/j.conb.2017.12.005</a>","ama":"Sacco R, Cacci E, Novarino G. Neural stem cells in neuropsychiatric disorders. <i>Current Opinion in Neurobiology</i>. 2018;48(2):131-138. doi:<a href=\"https://doi.org/10.1016/j.conb.2017.12.005\">10.1016/j.conb.2017.12.005</a>","chicago":"Sacco, Roberto, Emanuele Cacci, and Gaia Novarino. “Neural Stem Cells in Neuropsychiatric Disorders.” <i>Current Opinion in Neurobiology</i>. Elsevier, 2018. <a href=\"https://doi.org/10.1016/j.conb.2017.12.005\">https://doi.org/10.1016/j.conb.2017.12.005</a>.","mla":"Sacco, Roberto, et al. “Neural Stem Cells in Neuropsychiatric Disorders.” <i>Current Opinion in Neurobiology</i>, vol. 48, no. 2, Elsevier, 2018, pp. 131–38, doi:<a href=\"https://doi.org/10.1016/j.conb.2017.12.005\">10.1016/j.conb.2017.12.005</a>."},"publication":"Current Opinion in Neurobiology","department":[{"_id":"GaNo"}],"publist_id":"7268","doi":"10.1016/j.conb.2017.12.005","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_published":"2018-02-01T00:00:00Z","quality_controlled":"1","publisher":"Elsevier","date_created":"2018-12-11T11:47:06Z","scopus_import":"1","type":"journal_article","issue":"2","abstract":[{"text":"The precise control of neural stem cell (NSC) proliferation and differentiation is crucial for the development and function of the human brain. Here, we review the emerging links between the alteration of embryonic and adult neurogenesis and the etiology of neuropsychiatric disorders (NPDs) such as autism spectrum disorders (ASDs) and schizophrenia (SCZ), as well as the advances in stem cell-based modeling and the novel therapeutic targets derived from these studies.","lang":"eng"}],"status":"public","isi":1,"day":"01"},{"day":"06","publication":"Nature Neuroscience","citation":{"short":"T. Gstrein, A. Edwards, A. Přistoupilová, I. Leca, M. Breuss, S. Pilat Carotta, A.H. Hansen, R. Tripathy, A. Traunbauer, T. Hochstoeger, G. Rosoklija, M. Repic, L. Landler, V. Stránecký, G. Dürnberger, T. Keane, J. Zuber, D. Adams, J. Flint, T. Honzik, M. Gut, S. Beltran, K. Mechtler, E. Sherr, S. Kmoch, I. Gut, D. Keays, Nature Neuroscience 21 (2018) 207–217.","ieee":"T. Gstrein <i>et al.</i>, “Mutations in Vps15 perturb neuronal migration in mice and are associated with neurodevelopmental disease in humans,” <i>Nature Neuroscience</i>, vol. 21, no. 2. Nature Publishing Group, pp. 207–217, 2018.","apa":"Gstrein, T., Edwards, A., Přistoupilová, A., Leca, I., Breuss, M., Pilat Carotta, S., … Keays, D. (2018). Mutations in Vps15 perturb neuronal migration in mice and are associated with neurodevelopmental disease in humans. <i>Nature Neuroscience</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41593-017-0053-5\">https://doi.org/10.1038/s41593-017-0053-5</a>","ista":"Gstrein T, Edwards A, Přistoupilová A, Leca I, Breuss M, Pilat Carotta S, Hansen AH, Tripathy R, Traunbauer A, Hochstoeger T, Rosoklija G, Repic M, Landler L, Stránecký V, Dürnberger G, Keane T, Zuber J, Adams D, Flint J, Honzik T, Gut M, Beltran S, Mechtler K, Sherr E, Kmoch S, Gut I, Keays D. 2018. Mutations in Vps15 perturb neuronal migration in mice and are associated with neurodevelopmental disease in humans. Nature Neuroscience. 21(2), 207–217.","ama":"Gstrein T, Edwards A, Přistoupilová A, et al. Mutations in Vps15 perturb neuronal migration in mice and are associated with neurodevelopmental disease in humans. <i>Nature Neuroscience</i>. 2018;21(2):207-217. doi:<a href=\"https://doi.org/10.1038/s41593-017-0053-5\">10.1038/s41593-017-0053-5</a>","chicago":"Gstrein, Thomas, Andrew Edwards, Anna Přistoupilová, Ines Leca, Martin Breuss, Sandra Pilat Carotta, Andi H Hansen, et al. “Mutations in Vps15 Perturb Neuronal Migration in Mice and Are Associated with Neurodevelopmental Disease in Humans.” <i>Nature Neuroscience</i>. Nature Publishing Group, 2018. <a href=\"https://doi.org/10.1038/s41593-017-0053-5\">https://doi.org/10.1038/s41593-017-0053-5</a>.","mla":"Gstrein, Thomas, et al. “Mutations in Vps15 Perturb Neuronal Migration in Mice and Are Associated with Neurodevelopmental Disease in Humans.” <i>Nature Neuroscience</i>, vol. 21, no. 2, Nature Publishing Group, 2018, pp. 207–17, doi:<a href=\"https://doi.org/10.1038/s41593-017-0053-5\">10.1038/s41593-017-0053-5</a>."},"publication_status":"published","author":[{"last_name":"Gstrein","full_name":"Gstrein, Thomas","first_name":"Thomas"},{"last_name":"Edwards","full_name":"Edwards, Andrew","first_name":"Andrew"},{"last_name":"Přistoupilová","full_name":"Přistoupilová, Anna","first_name":"Anna"},{"full_name":"Leca, Ines","last_name":"Leca","first_name":"Ines"},{"first_name":"Martin","last_name":"Breuss","full_name":"Breuss, Martin"},{"first_name":"Sandra","full_name":"Pilat Carotta, Sandra","last_name":"Pilat Carotta"},{"last_name":"Hansen","full_name":"Hansen, Andi H","id":"38853E16-F248-11E8-B48F-1D18A9856A87","first_name":"Andi H"},{"first_name":"Ratna","last_name":"Tripathy","full_name":"Tripathy, Ratna"},{"full_name":"Traunbauer, Anna","last_name":"Traunbauer","first_name":"Anna"},{"last_name":"Hochstoeger","full_name":"Hochstoeger, Tobias","first_name":"Tobias"},{"first_name":"Gavril","last_name":"Rosoklija","full_name":"Rosoklija, Gavril"},{"first_name":"Marco","full_name":"Repic, Marco","last_name":"Repic"},{"full_name":"Landler, Lukas","last_name":"Landler","first_name":"Lukas"},{"first_name":"Viktor","full_name":"Stránecký, Viktor","last_name":"Stránecký"},{"first_name":"Gerhard","full_name":"Dürnberger, Gerhard","last_name":"Dürnberger"},{"first_name":"Thomas","last_name":"Keane","full_name":"Keane, Thomas"},{"first_name":"Johannes","full_name":"Zuber, Johannes","last_name":"Zuber"},{"first_name":"David","last_name":"Adams","full_name":"Adams, David"},{"first_name":"Jonathan","full_name":"Flint, Jonathan","last_name":"Flint"},{"last_name":"Honzik","full_name":"Honzik, Tomas","first_name":"Tomas"},{"full_name":"Gut, Marta","last_name":"Gut","first_name":"Marta"},{"first_name":"Sergi","full_name":"Beltran, Sergi","last_name":"Beltran"},{"first_name":"Karl","full_name":"Mechtler, Karl","last_name":"Mechtler"},{"first_name":"Elliott","full_name":"Sherr, Elliott","last_name":"Sherr"},{"first_name":"Stanislav","full_name":"Kmoch, Stanislav","last_name":"Kmoch"},{"last_name":"Gut","full_name":"Gut, Ivo","first_name":"Ivo"},{"last_name":"Keays","full_name":"Keays, David","first_name":"David"}],"isi":1,"language":[{"iso":"eng"}],"oa_version":"None","status":"public","page":"207 - 217","abstract":[{"text":"The formation of the vertebrate brain requires the generation, migration, differentiation and survival of neurons. Genetic mutations that perturb these critical cellular events can result in malformations of the telencephalon, providing a molecular window into brain development. Here we report the identification of an N-ethyl-N-nitrosourea-induced mouse mutant characterized by a fractured hippocampal pyramidal cell layer, attributable to defects in neuronal migration. We show that this is caused by a hypomorphic mutation in Vps15 that perturbs endosomal-lysosomal trafficking and autophagy, resulting in an upregulation of Nischarin, which inhibits Pak1 signaling. The complete ablation of Vps15 results in the accumulation of autophagic substrates, the induction of apoptosis and severe cortical atrophy. Finally, we report that mutations in VPS15 are associated with cortical atrophy and epilepsy in humans. These data highlight the importance of the Vps15-Vps34 complex and the Nischarin-Pak1 signaling hub in the development of the telencephalon.","lang":"eng"}],"year":"2018","article_processing_charge":"No","date_updated":"2023-09-13T08:59:52Z","issue":"2","type":"journal_article","_id":"547","acknowledgement":"We also acknowledge the input of P. Potter and S. Wells from the mutagenesis program at MRC Harwell and the MRC funding that underpinned it (MC U142684172). We are indebted to R. Williams for modeling the VPS15 human mutation. We also thank the transgenic, bio-optics, proteomic and graphics services groups at the IMP/IMBA. We thank The National Center for Medical Genomics (LM2015091) for providing allelic frequencies in ethnically matched populations (project CZ.02.1.01/0.0/0.0/16_013/0001634). We thank Boehringer Ingelheim and the FWF for funding this research (D.A.K., I914, P24267). The human studies were funded by the European Community’s 7th Framework Program (FP7/2007-2013). S.K., A.P. and V.S. were supported by institutional programs of Charles University in Prague (UNCE 204011, PROGRES-Q26/LF1 and SVV 260367/2017). We acknowledge grants 15-28208A and RVO-VFN 64165 from the Ministry of Health of the Czech Republic and the project LQ1604 NPU II from the Ministry of Education.","date_created":"2018-12-11T11:47:06Z","publisher":"Nature Publishing Group","date_published":"2018-06-06T00:00:00Z","month":"06","volume":21,"extern":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","doi":"10.1038/s41593-017-0053-5","publist_id":"7267","external_id":{"isi":["000424269900012"]},"intvolume":"        21","title":"Mutations in Vps15 perturb neuronal migration in mice and are associated with neurodevelopmental disease in humans"},{"_id":"55","date_updated":"2026-06-18T18:53:43Z","external_id":{"isi":["000446693400008"]},"oa":1,"volume":28,"month":"10","ddc":["570"],"title":"Protection against the lethal side effects of social immunity in ants","intvolume":"        28","publication_status":"published","citation":{"ama":"Pull C, Metzler S, Naderlinger E, Cremer S. Protection against the lethal side effects of social immunity in ants. <i>Current Biology</i>. 2018;28(19):R1139-R1140. doi:<a href=\"https://doi.org/10.1016/j.cub.2018.08.063\">10.1016/j.cub.2018.08.063</a>","chicago":"Pull, Christopher, Sina Metzler, Elisabeth Naderlinger, and Sylvia Cremer. “Protection against the Lethal Side Effects of Social Immunity in Ants.” <i>Current Biology</i>. Cell Press, 2018. <a href=\"https://doi.org/10.1016/j.cub.2018.08.063\">https://doi.org/10.1016/j.cub.2018.08.063</a>.","mla":"Pull, Christopher, et al. “Protection against the Lethal Side Effects of Social Immunity in Ants.” <i>Current Biology</i>, vol. 28, no. 19, Cell Press, 2018, pp. R1139–40, doi:<a href=\"https://doi.org/10.1016/j.cub.2018.08.063\">10.1016/j.cub.2018.08.063</a>.","short":"C. Pull, S. Metzler, E. Naderlinger, S. Cremer, Current Biology 28 (2018) R1139–R1140.","ieee":"C. Pull, S. Metzler, E. Naderlinger, and S. Cremer, “Protection against the lethal side effects of social immunity in ants,” <i>Current Biology</i>, vol. 28, no. 19. Cell Press, pp. R1139–R1140, 2018.","apa":"Pull, C., Metzler, S., Naderlinger, E., &#38; Cremer, S. (2018). Protection against the lethal side effects of social immunity in ants. <i>Current Biology</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cub.2018.08.063\">https://doi.org/10.1016/j.cub.2018.08.063</a>","ista":"Pull C, Metzler S, Naderlinger E, Cremer S. 2018. Protection against the lethal side effects of social immunity in ants. Current Biology. 28(19), R1139–R1140."},"publication":"Current Biology","language":[{"iso":"eng"}],"author":[{"id":"3C7F4840-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1122-3982","first_name":"Christopher","last_name":"Pull","full_name":"Pull, Christopher"},{"last_name":"Metzler","full_name":"Metzler, Sina","id":"48204546-F248-11E8-B48F-1D18A9856A87","first_name":"Sina","orcid":"0000-0002-9547-2494"},{"last_name":"Naderlinger","full_name":"Naderlinger, Elisabeth","id":"31757262-F248-11E8-B48F-1D18A9856A87","first_name":"Elisabeth"},{"last_name":"Cremer","full_name":"Cremer, Sylvia","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2193-3868","first_name":"Sylvia"}],"page":"R1139 - R1140","oa_version":"Published Version","article_processing_charge":"No","year":"2018","type":"journal_article","issue":"19","date_published":"2018-10-08T00:00:00Z","quality_controlled":"1","publisher":"Cell Press","date_created":"2018-12-11T11:44:23Z","scopus_import":"1","department":[{"_id":"SyCr"}],"publist_id":"7999","article_type":"original","doi":"10.1016/j.cub.2018.08.063","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"08","isi":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.cub.2018.08.063"}],"abstract":[{"lang":"eng","text":"Many animals use antimicrobials to prevent or cure disease [1,2]. For example, some animals will ingest plants with medicinal properties, both prophylactically to prevent infection and therapeutically to self-medicate when sick. Antimicrobial substances are also used as topical disinfectants, to prevent infection, protect offspring and to sanitise their surroundings [1,2]. Social insects (ants, bees, wasps and termites) build nests in environments with a high abundance and diversity of pathogenic microorganisms — such as soil and rotting wood — and colonies are often densely crowded, creating conditions that favour disease outbreaks. Consequently, social insects have evolved collective disease defences to protect their colonies from epidemics. These traits can be seen as functionally analogous to the immune system of individual organisms [3,4]. This ‘social immunity’ utilises antimicrobials to prevent and eradicate infections, and to keep the brood and nest clean. However, these antimicrobial compounds can be harmful to the insects themselves, and it is unknown how colonies prevent collateral damage when using them. Here, we demonstrate that antimicrobial acids, produced by workers to disinfect the colony, are harmful to the delicate pupal brood stage, but that the pupae are protected from the acids by the presence of a silk cocoon. Garden ants spray their nests with an antimicrobial poison to sanitize contaminated nestmates and brood. Here, Pull et al show that they also prophylactically sanitise their colonies, and that the silk cocoon serves as a barrier to protect developing pupae, thus preventing collateral damage during nest sanitation."}],"status":"public"},{"year":"2018","article_processing_charge":"No","arxiv":1,"oa_version":"Submitted Version","project":[{"call_identifier":"FWF","grant_number":"P27533_N27","_id":"25C878CE-B435-11E9-9278-68D0E5697425","name":"Structure of the Excitation Spectrum for Many-Body Quantum Systems"}],"page":"347-403","author":[{"id":"4197AD04-F248-11E8-B48F-1D18A9856A87","first_name":"Marcin M","last_name":"Napiórkowski","full_name":"Napiórkowski, Marcin M"},{"last_name":"Reuvers","full_name":"Reuvers, Robin","first_name":"Robin"},{"last_name":"Solovej","full_name":"Solovej, Jan","first_name":"Jan"}],"publication_identifier":{"issn":["0010-3616"]},"language":[{"iso":"eng"}],"publication":"Communications in Mathematical Physics","citation":{"apa":"Napiórkowski, M. M., Reuvers, R., &#38; Solovej, J. (2018). The Bogoliubov free energy functional II: The dilute Limit. <i>Communications in Mathematical Physics</i>. Springer. <a href=\"https://doi.org/10.1007/s00220-017-3064-x\">https://doi.org/10.1007/s00220-017-3064-x</a>","ista":"Napiórkowski MM, Reuvers R, Solovej J. 2018. The Bogoliubov free energy functional II: The dilute Limit. Communications in Mathematical Physics. 360(1), 347–403.","short":"M.M. Napiórkowski, R. Reuvers, J. Solovej, Communications in Mathematical Physics 360 (2018) 347–403.","ieee":"M. M. Napiórkowski, R. Reuvers, and J. Solovej, “The Bogoliubov free energy functional II: The dilute Limit,” <i>Communications in Mathematical Physics</i>, vol. 360, no. 1. Springer, pp. 347–403, 2018.","mla":"Napiórkowski, Marcin M., et al. “The Bogoliubov Free Energy Functional II: The Dilute Limit.” <i>Communications in Mathematical Physics</i>, vol. 360, no. 1, Springer, 2018, pp. 347–403, doi:<a href=\"https://doi.org/10.1007/s00220-017-3064-x\">10.1007/s00220-017-3064-x</a>.","chicago":"Napiórkowski, Marcin M, Robin Reuvers, and Jan Solovej. “The Bogoliubov Free Energy Functional II: The Dilute Limit.” <i>Communications in Mathematical Physics</i>. Springer, 2018. <a href=\"https://doi.org/10.1007/s00220-017-3064-x\">https://doi.org/10.1007/s00220-017-3064-x</a>.","ama":"Napiórkowski MM, Reuvers R, Solovej J. The Bogoliubov free energy functional II: The dilute Limit. <i>Communications in Mathematical Physics</i>. 2018;360(1):347-403. doi:<a href=\"https://doi.org/10.1007/s00220-017-3064-x\">10.1007/s00220-017-3064-x</a>"},"publication_status":"published","intvolume":"       360","title":"The Bogoliubov free energy functional II: The dilute Limit","month":"05","volume":360,"oa":1,"external_id":{"arxiv":["1511.05953"]},"date_updated":"2025-07-10T11:52:52Z","_id":"554","status":"public","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1511.05953"}],"abstract":[{"text":"We analyse the canonical Bogoliubov free energy functional in three dimensions at low temperatures in the dilute limit. We prove existence of a first-order phase transition and, in the limit (Formula presented.), we determine the critical temperature to be (Formula presented.) to leading order. Here, (Formula presented.) is the critical temperature of the free Bose gas, ρ is the density of the gas and a is the scattering length of the pair-interaction potential V. We also prove asymptotic expansions for the free energy. In particular, we recover the Lee–Huang–Yang formula in the limit (Formula presented.).","lang":"eng"}],"day":"01","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.1007/s00220-017-3064-x","publist_id":"7260","department":[{"_id":"RoSe"}],"scopus_import":"1","date_created":"2018-12-11T11:47:09Z","publisher":"Springer","date_published":"2018-05-01T00:00:00Z","quality_controlled":"1","issue":"1","type":"journal_article"},{"author":[{"first_name":"Ralf","last_name":"Richter","full_name":"Richter, Ralf"},{"full_name":"Baranova, Natalia","last_name":"Baranova","first_name":"Natalia","orcid":"0000-0002-3086-9124","id":"38661662-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Anthony","last_name":"Day","full_name":"Day, Anthony"},{"first_name":"Jessica","last_name":"Kwok","full_name":"Kwok, Jessica"}],"language":[{"iso":"eng"}],"publication":"Current Opinion in Structural Biology","publication_status":"published","citation":{"ama":"Richter R, Baranova NS, Day A, Kwok J. Glycosaminoglycans in extracellular matrix organisation: Are concepts from soft matter physics key to understanding the formation of perineuronal nets? <i>Current Opinion in Structural Biology</i>. 2018;50:65-74. doi:<a href=\"https://doi.org/10.1016/j.sbi.2017.12.002\">10.1016/j.sbi.2017.12.002</a>","chicago":"Richter, Ralf, Natalia S. Baranova, Anthony Day, and Jessica Kwok. “Glycosaminoglycans in Extracellular Matrix Organisation: Are Concepts from Soft Matter Physics Key to Understanding the Formation of Perineuronal Nets?” <i>Current Opinion in Structural Biology</i>. Elsevier, 2018. <a href=\"https://doi.org/10.1016/j.sbi.2017.12.002\">https://doi.org/10.1016/j.sbi.2017.12.002</a>.","mla":"Richter, Ralf, et al. “Glycosaminoglycans in Extracellular Matrix Organisation: Are Concepts from Soft Matter Physics Key to Understanding the Formation of Perineuronal Nets?” <i>Current Opinion in Structural Biology</i>, vol. 50, Elsevier, 2018, pp. 65–74, doi:<a href=\"https://doi.org/10.1016/j.sbi.2017.12.002\">10.1016/j.sbi.2017.12.002</a>.","short":"R. Richter, N.S. Baranova, A. Day, J. Kwok, Current Opinion in Structural Biology 50 (2018) 65–74.","ieee":"R. Richter, N. S. Baranova, A. Day, and J. Kwok, “Glycosaminoglycans in extracellular matrix organisation: Are concepts from soft matter physics key to understanding the formation of perineuronal nets?,” <i>Current Opinion in Structural Biology</i>, vol. 50. Elsevier, pp. 65–74, 2018.","apa":"Richter, R., Baranova, N. S., Day, A., &#38; Kwok, J. (2018). Glycosaminoglycans in extracellular matrix organisation: Are concepts from soft matter physics key to understanding the formation of perineuronal nets? <i>Current Opinion in Structural Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.sbi.2017.12.002\">https://doi.org/10.1016/j.sbi.2017.12.002</a>","ista":"Richter R, Baranova NS, Day A, Kwok J. 2018. Glycosaminoglycans in extracellular matrix organisation: Are concepts from soft matter physics key to understanding the formation of perineuronal nets? Current Opinion in Structural Biology. 50, 65–74."},"year":"2018","article_processing_charge":"No","oa_version":"Submitted Version","page":"65 - 74","acknowledgement":"This work was supported by the European Research Council [Starting Grant 306435 ‘JELLY’; to RPR], the Spanish Ministry of Competitiveness and Innovation [MAT2014-54867-R, to RPR], the EPSRC Centre for Doctoral Training in Tissue Engineering and Regenerative Medicine — Innovation in Medical and Biological Engineering [EP/L014823/1, to JCFK], the Royal Society [RG160410, to JCFK], Wings for Life [WFL-UK-008/15, to JCFK] and the European Union, the Operational Programme Research, Development and Education in the framework of the project ‘Centre of Reconstructive Neuroscience’ [CZ.02.1.01/0.0./0.0/15_003/0000419, to JCFK]. AJD would like to thank Arthritis Research UK [16539, 19489] and the MRC [76445, G0900538] for funding his work on GAG–protein interactions.\r\n","date_updated":"2023-09-11T14:07:03Z","_id":"555","title":"Glycosaminoglycans in extracellular matrix organisation: Are concepts from soft matter physics key to understanding the formation of perineuronal nets?","intvolume":"        50","oa":1,"month":"06","volume":50,"external_id":{"isi":["000443661300011"]},"isi":1,"day":"01","status":"public","abstract":[{"lang":"eng","text":"Conventional wisdom has it that proteins fold and assemble into definite structures, and that this defines their function. Glycosaminoglycans (GAGs) are different. In most cases the structures they form have a low degree of order, even when interacting with proteins. Here, we discuss how physical features common to all GAGs — hydrophilicity, charge, linearity and semi-flexibility — underpin the overall properties of GAG-rich matrices. By integrating soft matter physics concepts (e.g. polymer brushes and phase separation) with our molecular understanding of GAG–protein interactions, we can better comprehend how GAG-rich matrices assemble, what their properties are, and how they function. Taking perineuronal nets (PNNs) — a GAG-rich matrix enveloping neurons — as a relevant example, we propose that microphase separation determines the holey PNN anatomy that is pivotal to PNN functions."}],"main_file_link":[{"url":"http://eprints.whiterose.ac.uk/125524/","open_access":"1"}],"publisher":"Elsevier","date_created":"2018-12-11T11:47:09Z","scopus_import":"1","quality_controlled":"1","date_published":"2018-06-01T00:00:00Z","type":"journal_article","doi":"10.1016/j.sbi.2017.12.002","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","department":[{"_id":"MaLo"}],"publist_id":"7259","article_type":"original"},{"ec_funded":1,"_id":"556","date_updated":"2025-09-18T07:34:29Z","ddc":["500"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"intvolume":"        19","title":"The free boundary Schur process and applications I","external_id":{"isi":["000450487900003"],"arxiv":["1704.05809"]},"month":"11","volume":19,"oa":1,"publication_identifier":{"issn":["1424-0637"]},"language":[{"iso":"eng"}],"author":[{"full_name":"Betea, Dan","last_name":"Betea","first_name":"Dan"},{"last_name":"Bouttier","full_name":"Bouttier, Jeremie","first_name":"Jeremie"},{"full_name":"Nejjar, Peter","last_name":"Nejjar","first_name":"Peter","id":"4BF426E2-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Mirjana","last_name":"Vuletic","full_name":"Vuletic, Mirjana"}],"file_date_updated":"2020-07-14T12:47:03Z","citation":{"chicago":"Betea, Dan, Jeremie Bouttier, Peter Nejjar, and Mirjana Vuletic. “The Free Boundary Schur Process and Applications I.” <i>Annales Henri Poincare</i>. Springer Nature, 2018. <a href=\"https://doi.org/10.1007/s00023-018-0723-1\">https://doi.org/10.1007/s00023-018-0723-1</a>.","ama":"Betea D, Bouttier J, Nejjar P, Vuletic M. The free boundary Schur process and applications I. <i>Annales Henri Poincare</i>. 2018;19(12):3663-3742. doi:<a href=\"https://doi.org/10.1007/s00023-018-0723-1\">10.1007/s00023-018-0723-1</a>","mla":"Betea, Dan, et al. “The Free Boundary Schur Process and Applications I.” <i>Annales Henri Poincare</i>, vol. 19, no. 12, Springer Nature, 2018, pp. 3663–742, doi:<a href=\"https://doi.org/10.1007/s00023-018-0723-1\">10.1007/s00023-018-0723-1</a>.","ieee":"D. Betea, J. Bouttier, P. Nejjar, and M. Vuletic, “The free boundary Schur process and applications I,” <i>Annales Henri Poincare</i>, vol. 19, no. 12. Springer Nature, pp. 3663–3742, 2018.","short":"D. Betea, J. Bouttier, P. Nejjar, M. Vuletic, Annales Henri Poincare 19 (2018) 3663–3742.","apa":"Betea, D., Bouttier, J., Nejjar, P., &#38; Vuletic, M. (2018). The free boundary Schur process and applications I. <i>Annales Henri Poincare</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00023-018-0723-1\">https://doi.org/10.1007/s00023-018-0723-1</a>","ista":"Betea D, Bouttier J, Nejjar P, Vuletic M. 2018. The free boundary Schur process and applications I. Annales Henri Poincare. 19(12), 3663–3742."},"publication_status":"published","publication":"Annales Henri Poincare","article_processing_charge":"Yes (via OA deal)","year":"2018","page":"3663-3742","project":[{"grant_number":"338804","call_identifier":"FP7","name":"Random matrices, universality and disordered quantum systems","_id":"258DCDE6-B435-11E9-9278-68D0E5697425"},{"_id":"256E75B8-B435-11E9-9278-68D0E5697425","name":"Optimal Transport and Stochastic Dynamics","grant_number":"716117","call_identifier":"H2020"}],"arxiv":1,"oa_version":"Published Version","date_published":"2018-11-13T00:00:00Z","quality_controlled":"1","scopus_import":"1","date_created":"2018-12-11T11:47:09Z","publisher":"Springer Nature","issue":"12","type":"journal_article","publist_id":"7258","article_type":"original","file":[{"file_id":"5866","file_size":3084674,"access_level":"open_access","checksum":"0c38abe73569b7166b7487ad5d23cc68","file_name":"2018_Annales_Betea.pdf","creator":"dernst","relation":"main_file","content_type":"application/pdf","date_updated":"2020-07-14T12:47:03Z","date_created":"2019-01-21T15:18:55Z"}],"has_accepted_license":"1","department":[{"_id":"LaEr"},{"_id":"JaMa"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","doi":"10.1007/s00023-018-0723-1","isi":1,"day":"13","abstract":[{"lang":"eng","text":"We investigate the free boundary Schur process, a variant of the Schur process introduced by Okounkov and Reshetikhin, where we allow the first and the last partitions to be arbitrary (instead of empty in the original setting). The pfaffian Schur process, previously studied by several authors, is recovered when just one of the boundary partitions is left free. We compute the correlation functions of the process in all generality via the free fermion formalism, which we extend with the thorough treatment of “free boundary states.” For the case of one free boundary, our approach yields a new proof that the process is pfaffian. For the case of two free boundaries, we find that the process is not pfaffian, but a closely related process is. We also study three different applications of the Schur process with one free boundary: fluctuations of symmetrized last passage percolation models, limit shapes and processes for symmetric plane partitions and for plane overpartitions."}],"status":"public"},{"day":"07","keyword":["microscopy","microfluidics"],"citation":{"apa":"Bergmiller, T., &#38; Nikolic, N. (2018). Time-lapse microscopy data. 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