[{"publication_status":"epub_ahead","oa":1,"has_accepted_license":"1","ddc":["570"],"date_published":"2024-02-05T00:00:00Z","main_file_link":[{"url":"https://doi.org/10.1038/s41594-023-01201-6","open_access":"1"}],"acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"LifeSc"},{"_id":"EM-Fac"}],"status":"public","external_id":{"pmid":["38316877"]},"related_material":{"link":[{"description":"News on ISTA Website","url":"https://ista.ac.at/en/news/down-to-the-core-of-poxviruses/","relation":"press_release"}]},"citation":{"ieee":"J. Datler <i>et al.</i>, “Multi-modal cryo-EM reveals trimers of protein A10 to form the palisade layer in poxvirus cores,” <i>Nature Structural &#38; Molecular Biology</i>. Springer Nature, 2024.","chicago":"Datler, Julia, Jesse Hansen, Andreas Thader, Alois Schlögl, Lukas W Bauer, Victor-Valentin Hodirnau, and Florian KM Schur. “Multi-Modal Cryo-EM Reveals Trimers of Protein A10 to Form the Palisade Layer in Poxvirus Cores.” <i>Nature Structural &#38; Molecular Biology</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41594-023-01201-6\">https://doi.org/10.1038/s41594-023-01201-6</a>.","short":"J. Datler, J. Hansen, A. Thader, A. Schlögl, L.W. Bauer, V.-V. Hodirnau, F.K. Schur, Nature Structural &#38; Molecular Biology (2024).","ama":"Datler J, Hansen J, Thader A, et al. Multi-modal cryo-EM reveals trimers of protein A10 to form the palisade layer in poxvirus cores. <i>Nature Structural &#38; Molecular Biology</i>. 2024. doi:<a href=\"https://doi.org/10.1038/s41594-023-01201-6\">10.1038/s41594-023-01201-6</a>","mla":"Datler, Julia, et al. “Multi-Modal Cryo-EM Reveals Trimers of Protein A10 to Form the Palisade Layer in Poxvirus Cores.” <i>Nature Structural &#38; Molecular Biology</i>, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1038/s41594-023-01201-6\">10.1038/s41594-023-01201-6</a>.","ista":"Datler J, Hansen J, Thader A, Schlögl A, Bauer LW, Hodirnau V-V, Schur FK. 2024. Multi-modal cryo-EM reveals trimers of protein A10 to form the palisade layer in poxvirus cores. Nature Structural &#38; Molecular Biology.","apa":"Datler, J., Hansen, J., Thader, A., Schlögl, A., Bauer, L. W., Hodirnau, V.-V., &#38; Schur, F. K. (2024). Multi-modal cryo-EM reveals trimers of protein A10 to form the palisade layer in poxvirus cores. <i>Nature Structural &#38; Molecular Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41594-023-01201-6\">https://doi.org/10.1038/s41594-023-01201-6</a>"},"abstract":[{"lang":"eng","text":"Poxviruses are among the largest double-stranded DNA viruses, with members such as variola virus, monkeypox virus and the vaccination strain vaccinia virus (VACV). Knowledge about the structural proteins that form the viral core has remained sparse. While major core proteins have been annotated via indirect experimental evidence, their structures have remained elusive and they could not be assigned to individual core features. Hence, which proteins constitute which layers of the core, such as the palisade layer and the inner core wall, has remained enigmatic. Here we show, using a multi-modal cryo-electron microscopy (cryo-EM) approach in combination with AlphaFold molecular modeling, that trimers formed by the cleavage product of VACV protein A10 are the key component of the palisade layer. This allows us to place previously obtained descriptions of protein interactions within the core wall into perspective and to provide a detailed model of poxvirus core architecture. Importantly, we show that interactions within A10 trimers are likely generalizable over members of orthopox- and parapoxviruses."}],"date_updated":"2024-03-05T09:27:47Z","type":"journal_article","oa_version":"Published Version","month":"02","date_created":"2024-02-12T09:59:45Z","acknowledgement":"We thank A. Bergthaler (Research Center for Molecular Medicine of the Austrian Academy of Sciences) for providing VACV WR. We thank A. Nicholas and his team at the ISTA proteomics facility, and S. Elefante at the ISTA Scientific Computing facility for their support. We also thank F. Fäßler, D. Porley, T. Muthspiel and other members of the Schur group for support and helpful discussions. We also thank D. Castaño-Díez for support with Dynamo. We thank D. Farrell for his help optimizing the Rosetta protocol to refine the atomic model into the cryo-EM map with symmetry.\r\n\r\nF.K.M.S. acknowledges support from ISTA and EMBO. F.K.M.S. also received support from the Austrian Science Fund (FWF) grant P31445. This publication has been made possible in part by CZI grant DAF2021-234754 and grant https://doi.org/10.37921/812628ebpcwg from the Chan Zuckerberg Initiative DAF, an advised fund of Silicon Valley Community Foundation (funder https://doi.org/10.13039/100014989) awarded to F.K.M.S.\r\n\r\nThis research was also supported by the Scientific Service Units (SSUs) of ISTA through resources provided by Scientific Computing (SciComp), the Life Science Facility (LSF), and the Electron Microscopy Facility (EMF). We also acknowledge the use of COSMIC45 and Colabfold46.","year":"2024","_id":"14979","publication_identifier":{"issn":["1545-9993"],"eissn":["1545-9985"]},"doi":"10.1038/s41594-023-01201-6","quality_controlled":"1","project":[{"name":"Structural conservation and diversity in retroviral capsid","_id":"26736D6A-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"P31445"}],"keyword":["Molecular Biology","Structural Biology"],"language":[{"iso":"eng"}],"author":[{"first_name":"Julia","last_name":"Datler","orcid":"0000-0002-3616-8580","id":"3B12E2E6-F248-11E8-B48F-1D18A9856A87","full_name":"Datler, Julia"},{"full_name":"Hansen, Jesse","id":"1063c618-6f9b-11ec-9123-f912fccded63","first_name":"Jesse","last_name":"Hansen"},{"first_name":"Andreas","last_name":"Thader","id":"3A18A7B8-F248-11E8-B48F-1D18A9856A87","full_name":"Thader, Andreas"},{"last_name":"Schlögl","first_name":"Alois","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","full_name":"Schlögl, Alois"},{"id":"0c894dcf-897b-11ed-a09c-8186353224b0","full_name":"Bauer, Lukas W","last_name":"Bauer","first_name":"Lukas W"},{"first_name":"Victor-Valentin","last_name":"Hodirnau","id":"3661B498-F248-11E8-B48F-1D18A9856A87","full_name":"Hodirnau, Victor-Valentin"},{"first_name":"Florian KM","last_name":"Schur","orcid":"0000-0003-4790-8078","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","full_name":"Schur, Florian KM"}],"day":"05","title":"Multi-modal cryo-EM reveals trimers of protein A10 to form the palisade layer in poxvirus cores","publisher":"Springer Nature","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pmid":1,"department":[{"_id":"FlSc"},{"_id":"ScienComp"},{"_id":"EM-Fac"}],"publication":"Nature Structural & Molecular Biology","article_processing_charge":"Yes (in subscription journal)","article_type":"original","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"}},{"page":"59-59","date_updated":"2023-07-18T09:30:54Z","month":"07","oa_version":"Submitted Version","type":"conference_abstract","file_date_updated":"2023-07-18T09:18:55Z","date_created":"2023-06-23T11:01:23Z","acknowledgement":"Thanks to Jesse Hansen for his suggestions on improving the abstract.","year":"2023","_id":"13161","publication_status":"inpress","oa":1,"has_accepted_license":"1","ddc":["000"],"date_published":"2023-07-01T00:00:00Z","status":"public","citation":{"ama":"Schlögl A, Elefante S, Hodirnau V-V. Running Windows-applications on a Linux HPC cluster using WINE. In: <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>. EuroCC; :59-59.","apa":"Schlögl, A., Elefante, S., &#38; Hodirnau, V.-V. (n.d.). Running Windows-applications on a Linux HPC cluster using WINE. In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i> (pp. 59–59). Maribor, Slovenia: EuroCC.","mla":"Schlögl, Alois, et al. “Running Windows-Applications on a Linux HPC Cluster Using WINE.” <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, EuroCC, pp. 59–59.","ista":"Schlögl A, Elefante S, Hodirnau V-V. Running Windows-applications on a Linux HPC cluster using WINE. ASHPC23 - Austrian-Slovenian HPC Meeting 2023. ASHPC: Austrian-Slovenian HPC Meeting, 59–59.","chicago":"Schlögl, Alois, Stefano Elefante, and Victor-Valentin Hodirnau. “Running Windows-Applications on a Linux HPC Cluster Using WINE.” In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, 59–59. EuroCC, n.d.","ieee":"A. Schlögl, S. Elefante, and V.-V. Hodirnau, “Running Windows-applications on a Linux HPC cluster using WINE,” in <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, Maribor, Slovenia, pp. 59–59.","short":"A. Schlögl, S. Elefante, V.-V. Hodirnau, in:, ASHPC23 - Austrian-Slovenian HPC Meeting 2023, EuroCC, n.d., pp. 59–59."},"author":[{"last_name":"Schlögl","first_name":"Alois","full_name":"Schlögl, Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100"},{"first_name":"Stefano","last_name":"Elefante","full_name":"Elefante, Stefano","id":"490F40CE-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Hodirnau","first_name":"Victor-Valentin","id":"3661B498-F248-11E8-B48F-1D18A9856A87","full_name":"Hodirnau, Victor-Valentin"}],"day":"01","file":[{"date_created":"2023-07-18T09:18:55Z","access_level":"open_access","date_updated":"2023-07-18T09:18:55Z","file_id":"13249","checksum":"ec8e4295d54171032cdd1b01423eb4a6","content_type":"application/pdf","relation":"main_file","file_size":316959,"creator":"dernst","success":1,"file_name":"2023_ASHPC_Schloegl.pdf"}],"title":"Running Windows-applications on a Linux HPC cluster using WINE","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"EuroCC","department":[{"_id":"ScienComp"},{"_id":"EM-Fac"}],"publication":"ASHPC23 - Austrian-Slovenian HPC Meeting 2023","article_processing_charge":"No","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"quality_controlled":"1","conference":{"start_date":"2023-06-13","location":"Maribor, Slovenia","name":"ASHPC: Austrian-Slovenian HPC Meeting","end_date":"2023-06-15"},"language":[{"iso":"eng"}]},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"EuroCC","department":[{"_id":"ScienComp"}],"year":"2023","publication":"ASHPC23 - Austrian-Slovenian HPC Meeting 2023","_id":"13162","article_processing_charge":"No","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"author":[{"first_name":"Stefano","last_name":"Elefante","id":"490F40CE-F248-11E8-B48F-1D18A9856A87","full_name":"Elefante, Stefano"},{"full_name":"Stadlbauer, Stephan","id":"4D0BC184-F248-11E8-B48F-1D18A9856A87","first_name":"Stephan","last_name":"Stadlbauer"},{"id":"3A02A8FA-F248-11E8-B48F-1D18A9856A87","full_name":"Alexander, Michael F","first_name":"Michael F","last_name":"Alexander"},{"full_name":"Schlögl, Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100","last_name":"Schlögl","first_name":"Alois"}],"page":"42-42","date_updated":"2023-07-18T09:32:16Z","day":"01","file":[{"file_name":"2023_ASHPC_Elefante.pdf","success":1,"file_size":380354,"relation":"main_file","content_type":"application/pdf","creator":"dernst","file_id":"13250","date_updated":"2023-07-18T09:28:30Z","checksum":"0ab6173cd5c5634ed773cd37ff012681","date_created":"2023-07-18T09:28:30Z","access_level":"open_access"}],"type":"conference_abstract","oa_version":"Submitted Version","month":"07","title":"Cryo-EM software packages: A sys-admins point of view","date_created":"2023-06-23T11:03:18Z","file_date_updated":"2023-07-18T09:28:30Z","status":"public","conference":{"end_date":"2023-06-15","start_date":"2023-06-12","name":"ASHPC: Austrian-Slovenian HPC Meeting","location":"Maribor, Slovenia"},"language":[{"iso":"eng"}],"citation":{"ama":"Elefante S, Stadlbauer S, Alexander MF, Schlögl A. Cryo-EM software packages: A sys-admins point of view. In: <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>. EuroCC; :42-42.","apa":"Elefante, S., Stadlbauer, S., Alexander, M. F., &#38; Schlögl, A. (n.d.). Cryo-EM software packages: A sys-admins point of view. In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i> (pp. 42–42). Maribor, Slovenia: EuroCC.","mla":"Elefante, Stefano, et al. “Cryo-EM Software Packages: A Sys-Admins Point of View.” <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, EuroCC, pp. 42–42.","ista":"Elefante S, Stadlbauer S, Alexander MF, Schlögl A. Cryo-EM software packages: A sys-admins point of view. ASHPC23 - Austrian-Slovenian HPC Meeting 2023. ASHPC: Austrian-Slovenian HPC Meeting, 42–42.","chicago":"Elefante, Stefano, Stephan Stadlbauer, Michael F Alexander, and Alois Schlögl. “Cryo-EM Software Packages: A Sys-Admins Point of View.” In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, 42–42. EuroCC, n.d.","ieee":"S. Elefante, S. Stadlbauer, M. F. Alexander, and A. Schlögl, “Cryo-EM software packages: A sys-admins point of view,” in <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, Maribor, Slovenia, pp. 42–42.","short":"S. Elefante, S. Stadlbauer, M.F. Alexander, A. Schlögl, in:, ASHPC23 - Austrian-Slovenian HPC Meeting 2023, EuroCC, n.d., pp. 42–42."},"oa":1,"publication_status":"accepted","has_accepted_license":"1","ddc":["000"],"date_published":"2023-07-01T00:00:00Z","quality_controlled":"1"},{"doi":"10.25365/phaidra.337","publication_identifier":{"isbn":["978-3-200-08499-5"]},"language":[{"iso":"eng"}],"conference":{"start_date":"2022-05-31","name":"ASHPC: Austrian-Slovenian HPC Meeting","location":"Grundlsee, Austria","end_date":"2022-06-02"},"title":"Where is the sweet spot? A procurement story of general purpose compute nodes","day":"02","file":[{"checksum":"e3f8c240b85422ce2190e7b203cc2563","file_id":"12895","date_updated":"2023-05-05T09:06:00Z","access_level":"open_access","date_created":"2023-05-05T09:06:00Z","file_name":"BOOKLET_ASHPC22.pdf","success":1,"creator":"schloegl","file_size":7180531,"content_type":"application/pdf","relation":"main_file"}],"author":[{"last_name":"Schlögl","first_name":"Alois","full_name":"Schlögl, Alois","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Andrei","last_name":"Hornoiu","full_name":"Hornoiu, Andrei","id":"77129392-B450-11EA-8745-D4653DDC885E"},{"last_name":"Elefante","first_name":"Stefano","full_name":"Elefante, Stefano","id":"490F40CE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Stephan","last_name":"Stadlbauer","id":"4D0BC184-F248-11E8-B48F-1D18A9856A87","full_name":"Stadlbauer, Stephan"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"article_processing_charge":"No","publication":"ASHPC22 - Austrian-Slovenian HPC Meeting 2022","department":[{"_id":"ScienComp"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"EuroCC Austria c/o Universität Wien","ddc":["000"],"date_published":"2022-06-02T00:00:00Z","has_accepted_license":"1","publication_status":"published","oa":1,"citation":{"apa":"Schlögl, A., Hornoiu, A., Elefante, S., &#38; Stadlbauer, S. (2022). Where is the sweet spot? A procurement story of general purpose compute nodes. In <i>ASHPC22 - Austrian-Slovenian HPC Meeting 2022</i> (p. 7). Grundlsee, Austria: EuroCC Austria c/o Universität Wien. <a href=\"https://doi.org/10.25365/phaidra.337\">https://doi.org/10.25365/phaidra.337</a>","mla":"Schlögl, Alois, et al. “Where Is the Sweet Spot? A Procurement Story of General Purpose Compute Nodes.” <i>ASHPC22 - Austrian-Slovenian HPC Meeting 2022</i>, EuroCC Austria c/o Universität Wien, 2022, p. 7, doi:<a href=\"https://doi.org/10.25365/phaidra.337\">10.25365/phaidra.337</a>.","ista":"Schlögl A, Hornoiu A, Elefante S, Stadlbauer S. 2022. Where is the sweet spot? A procurement story of general purpose compute nodes. ASHPC22 - Austrian-Slovenian HPC Meeting 2022. ASHPC: Austrian-Slovenian HPC Meeting, 7.","ama":"Schlögl A, Hornoiu A, Elefante S, Stadlbauer S. Where is the sweet spot? A procurement story of general purpose compute nodes. In: <i>ASHPC22 - Austrian-Slovenian HPC Meeting 2022</i>. EuroCC Austria c/o Universität Wien; 2022:7. doi:<a href=\"https://doi.org/10.25365/phaidra.337\">10.25365/phaidra.337</a>","short":"A. Schlögl, A. Hornoiu, S. Elefante, S. Stadlbauer, in:, ASHPC22 - Austrian-Slovenian HPC Meeting 2022, EuroCC Austria c/o Universität Wien, 2022, p. 7.","chicago":"Schlögl, Alois, Andrei Hornoiu, Stefano Elefante, and Stephan Stadlbauer. “Where Is the Sweet Spot? A Procurement Story of General Purpose Compute Nodes.” In <i>ASHPC22 - Austrian-Slovenian HPC Meeting 2022</i>, 7. EuroCC Austria c/o Universität Wien, 2022. <a href=\"https://doi.org/10.25365/phaidra.337\">https://doi.org/10.25365/phaidra.337</a>.","ieee":"A. Schlögl, A. Hornoiu, S. Elefante, and S. Stadlbauer, “Where is the sweet spot? A procurement story of general purpose compute nodes,” in <i>ASHPC22 - Austrian-Slovenian HPC Meeting 2022</i>, Grundlsee, Austria, 2022, p. 7."},"status":"public","date_created":"2023-05-05T09:13:42Z","file_date_updated":"2023-05-05T09:06:00Z","oa_version":"Published Version","month":"06","type":"conference_abstract","date_updated":"2023-05-16T07:42:56Z","page":"7","_id":"12894","year":"2022","acknowledgement":"The abstracts in this booklet are licenced under a CC BY 4.0 licence (https://creativecommons.org/licenses/by/4.0/legalcode), except Markus Wallerberger’s contribution at page 21, licenced under a CC BY-SA 4.0 licence (https://creativecommons.org/licenses/by-sa/4.0/legalcode).\r\n"},{"ec_funded":1,"article_processing_charge":"No","scopus_import":"1","article_type":"original","publication":"Nature Computational Science","department":[{"_id":"PeJo"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Springer Nature","title":"How connectivity rules and synaptic properties shape the efficacy of pattern separation in the entorhinal cortex–dentate gyrus–CA3 network","file":[{"date_created":"2022-06-02T12:51:07Z","access_level":"open_access","date_updated":"2022-06-18T22:30:03Z","file_id":"11430","checksum":"9fec5b667909ef52be96d502e4f8c2ae","content_type":"application/pdf","embargo":"2022-06-17","relation":"main_file","file_size":1699466,"creator":"patrickd","file_name":"Guzmanetal2021.pdf"},{"file_size":3005651,"relation":"supplementary_material","content_type":"application/pdf","embargo":"2022-06-17","creator":"patrickd","file_name":"Guzmanetal2021Suppl.pdf","date_created":"2022-06-02T12:53:47Z","access_level":"open_access","title":"Supplementary Material","file_id":"11431","date_updated":"2022-06-18T22:30:03Z","checksum":"52a005b13a114e3c3a28fa6bbe8b1a8d"}],"day":"16","author":[{"first_name":"José","last_name":"Guzmán","full_name":"Guzmán, José","id":"30CC5506-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2209-5242"},{"first_name":"Alois","last_name":"Schlögl","full_name":"Schlögl, Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100"},{"first_name":"Claudia ","last_name":"Espinoza Martinez","full_name":"Espinoza Martinez, Claudia ","orcid":"0000-0003-4710-2082","id":"31FFEE2E-F248-11E8-B48F-1D18A9856A87"},{"id":"423EC9C2-F248-11E8-B48F-1D18A9856A87","full_name":"Zhang, Xiaomin","last_name":"Zhang","first_name":"Xiaomin"},{"first_name":"Benjamin","last_name":"Suter","full_name":"Suter, Benjamin","orcid":"0000-0002-9885-6936","id":"4952F31E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Jonas","first_name":"Peter M","full_name":"Jonas, Peter M","orcid":"0000-0001-5001-4804","id":"353C1B58-F248-11E8-B48F-1D18A9856A87"}],"language":[{"iso":"eng"}],"issue":"12","keyword":["general medicine"],"project":[{"call_identifier":"H2020","_id":"25B7EB9E-B435-11E9-9278-68D0E5697425","name":"Biophysics and circuit function of a giant cortical glumatergic synapse","grant_number":"692692"},{"name":"The Wittgenstein Prize","call_identifier":"FWF","_id":"25C5A090-B435-11E9-9278-68D0E5697425","grant_number":"Z00312"}],"quality_controlled":"1","doi":"10.1038/s43588-021-00157-1","publication_identifier":{"issn":["2662-8457"]},"_id":"10816","year":"2021","acknowledgement":"We thank A. Aertsen, N. Kopell, W. Maass, A. Roth, F. Stella and T. Vogels for critically reading earlier versions of the manuscript. We are grateful to F. Marr and C. Altmutter for excellent technical assistance, E. Kralli-Beller for manuscript editing, and the Scientific Service Units of IST Austria for efficient support. Finally, we thank T. Carnevale, L. Erdös, M. Hines, D. Nykamp and D. Schröder for useful discussions, and R. Friedrich and S. Wiechert for sharing unpublished data. This project received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement no. 692692, P.J.) and the Fond zur Förderung der Wissenschaftlichen Forschung (Z 312-B27, Wittgenstein award to P.J. and P 31815 to S.J.G.).","date_created":"2022-03-04T08:32:36Z","file_date_updated":"2022-06-18T22:30:03Z","volume":1,"abstract":[{"text":"Pattern separation is a fundamental brain computation that converts small differences in input patterns into large differences in output patterns. Several synaptic mechanisms of pattern separation have been proposed, including code expansion, inhibition and plasticity; however, which of these mechanisms play a role in the entorhinal cortex (EC)–dentate gyrus (DG)–CA3 circuit, a classical pattern separation circuit, remains unclear. Here we show that a biologically realistic, full-scale EC–DG–CA3 circuit model, including granule cells (GCs) and parvalbumin-positive inhibitory interneurons (PV+-INs) in the DG, is an efficient pattern separator. Both external gamma-modulated inhibition and internal lateral inhibition mediated by PV+-INs substantially contributed to pattern separation. Both local connectivity and fast signaling at GC–PV+-IN synapses were important for maximum effectiveness. Similarly, mossy fiber synapses with conditional detonator properties contributed to pattern separation. By contrast, perforant path synapses with Hebbian synaptic plasticity and direct EC–CA3 connection shifted the network towards pattern completion. Our results demonstrate that the specific properties of cells and synapses optimize higher-order computations in biological networks and might be useful to improve the deep learning capabilities of technical networks.","lang":"eng"}],"date_updated":"2023-08-10T22:30:10Z","oa_version":"Submitted Version","month":"12","type":"journal_article","page":"830-842","citation":{"ama":"Guzmán J, Schlögl A, Espinoza Martinez C, Zhang X, Suter B, Jonas PM. How connectivity rules and synaptic properties shape the efficacy of pattern separation in the entorhinal cortex–dentate gyrus–CA3 network. <i>Nature Computational Science</i>. 2021;1(12):830-842. doi:<a href=\"https://doi.org/10.1038/s43588-021-00157-1\">10.1038/s43588-021-00157-1</a>","mla":"Guzmán, José, et al. “How Connectivity Rules and Synaptic Properties Shape the Efficacy of Pattern Separation in the Entorhinal Cortex–Dentate Gyrus–CA3 Network.” <i>Nature Computational Science</i>, vol. 1, no. 12, Springer Nature, 2021, pp. 830–42, doi:<a href=\"https://doi.org/10.1038/s43588-021-00157-1\">10.1038/s43588-021-00157-1</a>.","ista":"Guzmán J, Schlögl A, Espinoza Martinez C, Zhang X, Suter B, Jonas PM. 2021. How connectivity rules and synaptic properties shape the efficacy of pattern separation in the entorhinal cortex–dentate gyrus–CA3 network. Nature Computational Science. 1(12), 830–842.","apa":"Guzmán, J., Schlögl, A., Espinoza Martinez, C., Zhang, X., Suter, B., &#38; Jonas, P. M. (2021). How connectivity rules and synaptic properties shape the efficacy of pattern separation in the entorhinal cortex–dentate gyrus–CA3 network. <i>Nature Computational Science</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s43588-021-00157-1\">https://doi.org/10.1038/s43588-021-00157-1</a>","ieee":"J. Guzmán, A. Schlögl, C. Espinoza Martinez, X. Zhang, B. Suter, and P. M. Jonas, “How connectivity rules and synaptic properties shape the efficacy of pattern separation in the entorhinal cortex–dentate gyrus–CA3 network,” <i>Nature Computational Science</i>, vol. 1, no. 12. Springer Nature, pp. 830–842, 2021.","chicago":"Guzmán, José, Alois Schlögl, Claudia  Espinoza Martinez, Xiaomin Zhang, Benjamin Suter, and Peter M Jonas. “How Connectivity Rules and Synaptic Properties Shape the Efficacy of Pattern Separation in the Entorhinal Cortex–Dentate Gyrus–CA3 Network.” <i>Nature Computational Science</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1038/s43588-021-00157-1\">https://doi.org/10.1038/s43588-021-00157-1</a>.","short":"J. Guzmán, A. Schlögl, C. Espinoza Martinez, X. Zhang, B. Suter, P.M. Jonas, Nature Computational Science 1 (2021) 830–842."},"related_material":{"record":[{"status":"public","id":"10110","relation":"software"}],"link":[{"relation":"press_release","url":"https://ista.ac.at/en/news/spot-the-difference/"}]},"intvolume":"         1","status":"public","main_file_link":[{"open_access":"1","url":"https://www.biorxiv.org/content/10.1101/647800"}],"acknowledged_ssus":[{"_id":"SSU"}],"date_published":"2021-12-16T00:00:00Z","ddc":["610"],"has_accepted_license":"1","oa":1,"publication_status":"published"},{"article_number":"109125","title":"MOD: A novel machine-learning optimal-filtering method for accurate and efficient detection of subthreshold synaptic events in vivo","author":[{"first_name":"Xiaomin","last_name":"Zhang","id":"423EC9C2-F248-11E8-B48F-1D18A9856A87","full_name":"Zhang, Xiaomin"},{"full_name":"Schlögl, Alois","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","last_name":"Schlögl","first_name":"Alois"},{"last_name":"Vandael","first_name":"David H","id":"3AE48E0A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7577-1676","full_name":"Vandael, David H"},{"id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804","full_name":"Jonas, Peter M","last_name":"Jonas","first_name":"Peter M"}],"day":"09","file":[{"creator":"dernst","relation":"main_file","content_type":"application/pdf","file_size":6924738,"success":1,"file_name":"2021_JourNeuroscienceMeth_Zhang.pdf","access_level":"open_access","date_created":"2021-04-19T08:30:22Z","checksum":"2a5800d91b96d08b525e17319dcd5e44","date_updated":"2021-04-19T08:30:22Z","file_id":"9339"}],"publication":"Journal of Neuroscience Methods","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","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"},"article_type":"original","ec_funded":1,"scopus_import":"1","article_processing_charge":"Yes (via OA deal)","publisher":"Elsevier","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"PeJo"},{"_id":"ScienComp"}],"doi":"10.1016/j.jneumeth.2021.109125","quality_controlled":"1","publication_identifier":{"eissn":["1872-678X"],"issn":["0165-0270"]},"isi":1,"issue":"6","language":[{"iso":"eng"}],"project":[{"grant_number":"692692","name":"Biophysics and circuit function of a giant cortical glumatergic synapse","call_identifier":"H2020","_id":"25B7EB9E-B435-11E9-9278-68D0E5697425"},{"grant_number":"Z00312","call_identifier":"FWF","_id":"25C5A090-B435-11E9-9278-68D0E5697425","name":"The Wittgenstein Prize"}],"volume":357,"date_created":"2021-04-18T22:01:39Z","file_date_updated":"2021-04-19T08:30:22Z","type":"journal_article","oa_version":"Published Version","month":"03","date_updated":"2023-08-07T14:36:14Z","abstract":[{"text":"Background: To understand information coding in single neurons, it is necessary to analyze subthreshold synaptic events, action potentials (APs), and their interrelation in different behavioral states. However, detecting excitatory postsynaptic potentials (EPSPs) or currents (EPSCs) in behaving animals remains challenging, because of unfavorable signal-to-noise ratio, high frequency, fluctuating amplitude, and variable time course of synaptic events.\r\nNew method: We developed a method for synaptic event detection, termed MOD (Machine-learning Optimal-filtering Detection-procedure), which combines concepts of supervised machine learning and optimal Wiener filtering. Experts were asked to manually score short epochs of data. The algorithm was trained to obtain the optimal filter coefficients of a Wiener filter and the optimal detection threshold. Scored and unscored data were then processed with the optimal filter, and events were detected as peaks above threshold.\r\nResults: We challenged MOD with EPSP traces in vivo in mice during spatial navigation and EPSC traces in vitro in slices under conditions of enhanced transmitter release. The area under the curve (AUC) of the receiver operating characteristics (ROC) curve was, on average, 0.894 for in vivo and 0.969 for in vitro data sets, indicating high detection accuracy and efficiency.\r\nComparison with existing methods: When benchmarked using a (1 − AUC)−1 metric, MOD outperformed previous methods (template-fit, deconvolution, and Bayesian methods) by an average factor of 3.13 for in vivo data sets, but showed comparable (template-fit, deconvolution) or higher (Bayesian) computational efficacy.\r\nConclusions: MOD may become an important new tool for large-scale, real-time analysis of synaptic activity.","lang":"eng"}],"_id":"9329","acknowledgement":"This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement number 692692 to P.J.) and the Fond zur Förderung der Wissenschaftlichen Forschung (Z 312-B27, Wittgenstein award to P.J.). We thank Drs. Jozsef Csicsvari, Christoph Lampert, and Federico Stella for critically reading previous manuscript versions. We are also grateful to Drs. Josh Merel and Ben Shababo for their help with applying the Bayesian detection method to our data. We also thank Florian Marr for technical assistance, Eleftheria Kralli-Beller for manuscript editing, and the Scientific Service Units of IST Austria for efficient support.","year":"2021","ddc":["570"],"date_published":"2021-03-09T00:00:00Z","acknowledged_ssus":[{"_id":"SSU"}],"oa":1,"publication_status":"published","has_accepted_license":"1","intvolume":"       357","citation":{"ama":"Zhang X, Schlögl A, Vandael DH, Jonas PM. MOD: A novel machine-learning optimal-filtering method for accurate and efficient detection of subthreshold synaptic events in vivo. <i>Journal of Neuroscience Methods</i>. 2021;357(6). doi:<a href=\"https://doi.org/10.1016/j.jneumeth.2021.109125\">10.1016/j.jneumeth.2021.109125</a>","apa":"Zhang, X., Schlögl, A., Vandael, D. H., &#38; Jonas, P. M. (2021). MOD: A novel machine-learning optimal-filtering method for accurate and efficient detection of subthreshold synaptic events in vivo. <i>Journal of Neuroscience Methods</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jneumeth.2021.109125\">https://doi.org/10.1016/j.jneumeth.2021.109125</a>","mla":"Zhang, Xiaomin, et al. “MOD: A Novel Machine-Learning Optimal-Filtering Method for Accurate and Efficient Detection of Subthreshold Synaptic Events in Vivo.” <i>Journal of Neuroscience Methods</i>, vol. 357, no. 6, 109125, Elsevier, 2021, doi:<a href=\"https://doi.org/10.1016/j.jneumeth.2021.109125\">10.1016/j.jneumeth.2021.109125</a>.","ista":"Zhang X, Schlögl A, Vandael DH, Jonas PM. 2021. MOD: A novel machine-learning optimal-filtering method for accurate and efficient detection of subthreshold synaptic events in vivo. Journal of Neuroscience Methods. 357(6), 109125.","chicago":"Zhang, Xiaomin, Alois Schlögl, David H Vandael, and Peter M Jonas. “MOD: A Novel Machine-Learning Optimal-Filtering Method for Accurate and Efficient Detection of Subthreshold Synaptic Events in Vivo.” <i>Journal of Neuroscience Methods</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.jneumeth.2021.109125\">https://doi.org/10.1016/j.jneumeth.2021.109125</a>.","ieee":"X. Zhang, A. Schlögl, D. H. Vandael, and P. M. Jonas, “MOD: A novel machine-learning optimal-filtering method for accurate and efficient detection of subthreshold synaptic events in vivo,” <i>Journal of Neuroscience Methods</i>, vol. 357, no. 6. Elsevier, 2021.","short":"X. Zhang, A. Schlögl, D.H. Vandael, P.M. Jonas, Journal of Neuroscience Methods 357 (2021)."},"status":"public","external_id":{"isi":["000661088500005"]}},{"title":"How connectivity rules and synaptic properties shape the efficacy of pattern separation in the entorhinal cortex–dentate gyrus–CA3 network","date_created":"2021-10-08T06:44:22Z","file_date_updated":"2021-10-08T08:46:04Z","author":[{"full_name":"Guzmán, José","orcid":"0000-0003-2209-5242","id":"30CC5506-F248-11E8-B48F-1D18A9856A87","first_name":"José","last_name":"Guzmán"},{"orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","full_name":"Schlögl, Alois","last_name":"Schlögl","first_name":"Alois"},{"full_name":"Espinoza Martinez, Claudia ","id":"31FFEE2E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4710-2082","last_name":"Espinoza Martinez","first_name":"Claudia "},{"first_name":"Xiaomin","last_name":"Zhang","id":"423EC9C2-F248-11E8-B48F-1D18A9856A87","full_name":"Zhang, Xiaomin"},{"orcid":"0000-0002-9885-6936","id":"4952F31E-F248-11E8-B48F-1D18A9856A87","full_name":"Suter, Benjamin","last_name":"Suter","first_name":"Benjamin"},{"full_name":"Jonas, Peter M","orcid":"0000-0001-5001-4804","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","last_name":"Jonas","first_name":"Peter M"}],"month":"12","type":"software","abstract":[{"lang":"eng","text":"Pattern separation is a fundamental brain computation that converts small differences in input patterns into large differences in output patterns. Several synaptic mechanisms of pattern separation have been proposed, including code expansion, inhibition and plasticity; however, which of these mechanisms play a role in the entorhinal cortex (EC)–dentate gyrus (DG)–CA3 circuit, a classical pattern separation circuit, remains unclear. Here we show that a biologically realistic, full-scale EC–DG–CA3 circuit model, including granule cells (GCs) and parvalbumin-positive inhibitory interneurons (PV+-INs) in the DG, is an efficient pattern separator. Both external gamma-modulated inhibition and internal lateral inhibition mediated by PV+-INs substantially contributed to pattern separation. Both local connectivity and fast signaling at GC–PV+-IN synapses were important for maximum effectiveness. Similarly, mossy fiber synapses with conditional detonator properties contributed to pattern separation. By contrast, perforant path synapses with Hebbian synaptic plasticity and direct EC–CA3 connection shifted the network towards pattern completion. Our results demonstrate that the specific properties of cells and synapses optimize higher-order computations in biological networks and might be useful to improve the deep learning capabilities of technical networks."}],"file":[{"date_updated":"2021-10-08T08:46:04Z","file_id":"10114","checksum":"f92f8931cad0aa7e411c1715337bf408","date_created":"2021-10-08T08:46:04Z","access_level":"open_access","success":1,"file_name":"patternseparation-main (1).zip","relation":"main_file","content_type":"application/x-zip-compressed","file_size":332990101,"creator":"cchlebak"}],"day":"16","date_updated":"2024-03-25T23:30:07Z","_id":"10110","tmp":{"legal_code_url":"https://www.gnu.org/licenses/gpl-3.0.en.html","name":"GNU General Public License 3.0","short":"GPL 3.0"},"publisher":"IST Austria","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","year":"2021","department":[{"_id":"PeJo"},{"_id":"ScienComp"}],"date_published":"2021-12-16T00:00:00Z","ddc":["005"],"doi":"10.15479/AT:ISTA:10110","oa":1,"has_accepted_license":"1","related_material":{"link":[{"relation":"press_release","description":"News on IST Webpage","url":"https://ist.ac.at/en/news/spot-the-difference/"}],"record":[{"id":"10816","status":"public","relation":"used_for_analysis_in"}]},"citation":{"apa":"Guzmán, J., Schlögl, A., Espinoza Martinez, C., Zhang, X., Suter, B., &#38; Jonas, P. M. (2021). How connectivity rules and synaptic properties shape the efficacy of pattern separation in the entorhinal cortex–dentate gyrus–CA3 network. IST Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:10110\">https://doi.org/10.15479/AT:ISTA:10110</a>","ista":"Guzmán J, Schlögl A, Espinoza Martinez C, Zhang X, Suter B, Jonas PM. 2021. How connectivity rules and synaptic properties shape the efficacy of pattern separation in the entorhinal cortex–dentate gyrus–CA3 network, IST Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:10110\">10.15479/AT:ISTA:10110</a>.","mla":"Guzmán, José, et al. <i>How Connectivity Rules and Synaptic Properties Shape the Efficacy of Pattern Separation in the Entorhinal Cortex–Dentate Gyrus–CA3 Network</i>. IST Austria, 2021, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:10110\">10.15479/AT:ISTA:10110</a>.","ama":"Guzmán J, Schlögl A, Espinoza Martinez C, Zhang X, Suter B, Jonas PM. How connectivity rules and synaptic properties shape the efficacy of pattern separation in the entorhinal cortex–dentate gyrus–CA3 network. 2021. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:10110\">10.15479/AT:ISTA:10110</a>","short":"J. Guzmán, A. Schlögl, C. Espinoza Martinez, X. Zhang, B. Suter, P.M. Jonas, (2021).","chicago":"Guzmán, José, Alois Schlögl, Claudia  Espinoza Martinez, Xiaomin Zhang, Benjamin Suter, and Peter M Jonas. “How Connectivity Rules and Synaptic Properties Shape the Efficacy of Pattern Separation in the Entorhinal Cortex–Dentate Gyrus–CA3 Network.” IST Austria, 2021. <a href=\"https://doi.org/10.15479/AT:ISTA:10110\">https://doi.org/10.15479/AT:ISTA:10110</a>.","ieee":"J. Guzmán, A. Schlögl, C. Espinoza Martinez, X. Zhang, B. Suter, and P. M. Jonas, “How connectivity rules and synaptic properties shape the efficacy of pattern separation in the entorhinal cortex–dentate gyrus–CA3 network.” IST Austria, 2021."},"status":"public"},{"publication_identifier":{"isbn":["978-961-6980-77-7","978-961-6133-48-7"]},"publication_status":"published","oa":1,"has_accepted_license":"1","date_published":"2021-06-02T00:00:00Z","ddc":["000"],"doi":"10.3359/2021hpc","main_file_link":[{"open_access":"1","url":"https://vsc.ac.at/fileadmin/user_upload/vsc/conferences/ashpc21/BOOKLET_ASHPC21.pdf"}],"status":"public","conference":{"end_date":"2021-06-02","location":"Virtual","name":"ASHPC - Austrian-Slovenian HPC Meeting","start_date":"2021-05-31"},"citation":{"short":"A. Schlögl, S. Elefante, A. Hornoiu, S. Stadlbauer, in:, ASHPC21 – Austrian-Slovenian HPC Meeting 2021, University of Ljubljana, 2021, p. 5.","ieee":"A. Schlögl, S. Elefante, A. Hornoiu, and S. Stadlbauer, “Managing software on a heterogenous HPC cluster,” in <i>ASHPC21 – Austrian-Slovenian HPC Meeting 2021</i>, Virtual, 2021, p. 5.","chicago":"Schlögl, Alois, Stefano Elefante, Andrei Hornoiu, and Stephan Stadlbauer. “Managing Software on a Heterogenous HPC Cluster.” In <i>ASHPC21 – Austrian-Slovenian HPC Meeting 2021</i>, 5. University of Ljubljana, 2021. <a href=\"https://doi.org/10.3359/2021hpc\">https://doi.org/10.3359/2021hpc</a>.","ista":"Schlögl A, Elefante S, Hornoiu A, Stadlbauer S. 2021. Managing software on a heterogenous HPC cluster. ASHPC21 – Austrian-Slovenian HPC Meeting 2021. ASHPC - Austrian-Slovenian HPC Meeting, 5.","mla":"Schlögl, Alois, et al. “Managing Software on a Heterogenous HPC Cluster.” <i>ASHPC21 – Austrian-Slovenian HPC Meeting 2021</i>, University of Ljubljana, 2021, p. 5, doi:<a href=\"https://doi.org/10.3359/2021hpc\">10.3359/2021hpc</a>.","apa":"Schlögl, A., Elefante, S., Hornoiu, A., &#38; Stadlbauer, S. (2021). Managing software on a heterogenous HPC cluster. In <i>ASHPC21 – Austrian-Slovenian HPC Meeting 2021</i> (p. 5). Virtual: University of Ljubljana. <a href=\"https://doi.org/10.3359/2021hpc\">https://doi.org/10.3359/2021hpc</a>","ama":"Schlögl A, Elefante S, Hornoiu A, Stadlbauer S. Managing software on a heterogenous HPC cluster. In: <i>ASHPC21 – Austrian-Slovenian HPC Meeting 2021</i>. University of Ljubljana; 2021:5. doi:<a href=\"https://doi.org/10.3359/2021hpc\">10.3359/2021hpc</a>"},"language":[{"iso":"eng"}],"author":[{"full_name":"Schlögl, Alois","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","first_name":"Alois","last_name":"Schlögl"},{"id":"490F40CE-F248-11E8-B48F-1D18A9856A87","full_name":"Elefante, Stefano","first_name":"Stefano","last_name":"Elefante"},{"first_name":"Andrei","last_name":"Hornoiu","full_name":"Hornoiu, Andrei","id":"77129392-B450-11EA-8745-D4653DDC885E"},{"id":"4D0BC184-F248-11E8-B48F-1D18A9856A87","full_name":"Stadlbauer, Stephan","first_name":"Stephan","last_name":"Stadlbauer"}],"page":"5","type":"conference_abstract","oa_version":"Published Version","month":"06","date_updated":"2023-05-16T07:43:54Z","file":[{"checksum":"ba73f85858fb9d5737ebc7724646dd45","file_id":"12971","date_updated":"2023-05-16T07:36:34Z","access_level":"open_access","date_created":"2023-05-16T07:36:34Z","file_name":"2021_ASHPC_Schloegl.pdf","success":1,"creator":"dernst","file_size":422761,"relation":"main_file","content_type":"application/pdf"}],"day":"02","title":"Managing software on a heterogenous HPC cluster","file_date_updated":"2023-05-16T07:36:34Z","date_created":"2023-05-05T13:17:36Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"University of Ljubljana","department":[{"_id":"ScienComp"}],"year":"2021","_id":"12909","publication":"ASHPC21 – Austrian-Slovenian HPC Meeting 2021","article_processing_charge":"No"},{"article_processing_charge":"No","ec_funded":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","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"},"article_type":"original","publication":"Neuron","pmid":1,"department":[{"_id":"PeJo"},{"_id":"ScienComp"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"Elsevier","title":"Selective routing of spatial information flow from input to output in hippocampal granule cells","file":[{"content_type":"application/pdf","relation":"main_file","file_size":3011120,"creator":"dernst","success":1,"file_name":"2020_Neuron_Zhang.pdf","date_created":"2020-12-04T09:29:21Z","access_level":"open_access","date_updated":"2020-12-04T09:29:21Z","file_id":"8920","checksum":"44a5960fc083a4cb3488d22224859fdc"}],"day":"23","author":[{"id":"423EC9C2-F248-11E8-B48F-1D18A9856A87","full_name":"Zhang, Xiaomin","first_name":"Xiaomin","last_name":"Zhang"},{"first_name":"Alois","last_name":"Schlögl","full_name":"Schlögl, Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100"},{"full_name":"Jonas, Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804","last_name":"Jonas","first_name":"Peter M"}],"language":[{"iso":"eng"}],"issue":"6","isi":1,"project":[{"grant_number":"692692","name":"Biophysics and circuit function of a giant cortical glumatergic synapse","call_identifier":"H2020","_id":"25B7EB9E-B435-11E9-9278-68D0E5697425"},{"grant_number":"Z00312","_id":"25C5A090-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"The Wittgenstein Prize"}],"quality_controlled":"1","doi":"10.1016/j.neuron.2020.07.006","publication_identifier":{"issn":["0896-6273"]},"_id":"8261","year":"2020","acknowledgement":"This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement 692692, P.J.) and the Fond zur Förderung der Wissenschaftlichen Forschung (Z 312-B27, Wittgenstein award, P.J.). We thank Gyorgy Buzsáki, Jozsef Csicsvari, Juan Ramirez Villegas, and Federico Stella for commenting on earlier versions of this manuscript. We also thank Katie Bittner, Michael Brecht, Albert Lee, Jeffery Magee, and Alejandro Pernía-Andrade for sharing expertise in in vivo patch-clamp recording. We are grateful to Florian Marr for cell labeling, cell reconstruction, and technical assistance; Ben Suter for helpful discussions; Christina Altmutter for technical support; Eleftheria Kralli-Beller for manuscript editing; and Todor Asenov (Machine Shop) for device construction. We also thank the Scientific Service Units (SSUs) of IST Austria (Machine Shop, Scientific Computing, and Preclinical Facility) for efficient support.","date_created":"2020-08-14T09:36:05Z","file_date_updated":"2020-12-04T09:29:21Z","volume":107,"date_updated":"2023-08-22T08:30:55Z","abstract":[{"lang":"eng","text":"Dentate gyrus granule cells (GCs) connect the entorhinal cortex to the hippocampal CA3 region, but how they process spatial information remains enigmatic. To examine the role of GCs in spatial coding, we measured excitatory postsynaptic potentials (EPSPs) and action potentials (APs) in head-fixed mice running on a linear belt. Intracellular recording from morphologically identified GCs revealed that most cells were active, but activity level varied over a wide range. Whereas only ∼5% of GCs showed spatially tuned spiking, ∼50% received spatially tuned input. Thus, the GC population broadly encodes spatial information, but only a subset relays this information to the CA3 network. Fourier analysis indicated that GCs received conjunctive place-grid-like synaptic input, suggesting code conversion in single neurons. GC firing was correlated with dendritic complexity and intrinsic excitability, but not extrinsic excitatory input or dendritic cable properties. Thus, functional maturation may control input-output transformation and spatial code conversion."}],"oa_version":"Published Version","month":"09","type":"journal_article","page":"1212-1225","citation":{"ama":"Zhang X, Schlögl A, Jonas PM. Selective routing of spatial information flow from input to output in hippocampal granule cells. <i>Neuron</i>. 2020;107(6):1212-1225. doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.07.006\">10.1016/j.neuron.2020.07.006</a>","apa":"Zhang, X., Schlögl, A., &#38; Jonas, P. M. (2020). Selective routing of spatial information flow from input to output in hippocampal granule cells. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2020.07.006\">https://doi.org/10.1016/j.neuron.2020.07.006</a>","ista":"Zhang X, Schlögl A, Jonas PM. 2020. Selective routing of spatial information flow from input to output in hippocampal granule cells. Neuron. 107(6), 1212–1225.","mla":"Zhang, Xiaomin, et al. “Selective Routing of Spatial Information Flow from Input to Output in Hippocampal Granule Cells.” <i>Neuron</i>, vol. 107, no. 6, Elsevier, 2020, pp. 1212–25, doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.07.006\">10.1016/j.neuron.2020.07.006</a>.","chicago":"Zhang, Xiaomin, Alois Schlögl, and Peter M Jonas. “Selective Routing of Spatial Information Flow from Input to Output in Hippocampal Granule Cells.” <i>Neuron</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.neuron.2020.07.006\">https://doi.org/10.1016/j.neuron.2020.07.006</a>.","ieee":"X. Zhang, A. Schlögl, and P. M. Jonas, “Selective routing of spatial information flow from input to output in hippocampal granule cells,” <i>Neuron</i>, vol. 107, no. 6. Elsevier, pp. 1212–1225, 2020.","short":"X. Zhang, A. Schlögl, P.M. Jonas, Neuron 107 (2020) 1212–1225."},"intvolume":"       107","related_material":{"link":[{"url":"https://ist.ac.at/en/news/the-bouncer-in-the-brain/","description":"News on IST Website","relation":"press_release"}]},"status":"public","external_id":{"isi":["000579698700009"],"pmid":["32763145"]},"acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"ScienComp"},{"_id":"PreCl"}],"date_published":"2020-09-23T00:00:00Z","ddc":["570"],"has_accepted_license":"1","oa":1,"publication_status":"published"},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"article_processing_charge":"No","department":[{"_id":"ScienComp"}],"place":"Klosterneuburg, Austria","publisher":"IST Austria","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Austrian High-Performance-Computing meeting (AHPC2020)","day":"19","file":[{"date_updated":"2020-07-14T12:47:59Z","file_id":"7504","checksum":"49798edb9e57bbd6be18362d1d7b18a9","date_created":"2020-02-19T06:53:38Z","access_level":"open_access","file_name":"BOOKLET_AHPC2020.final.pdf","relation":"main_file","content_type":"application/pdf","file_size":90899507,"creator":"schloegl"}],"language":[{"iso":"eng"}],"conference":{"end_date":"2020-02-21","start_date":"2020-02-19","location":"Klosterneuburg, Austria","name":"AHPC: Austrian High-Performance-Computing Meeting"},"quality_controlled":"1","doi":"10.15479/AT:ISTA:7474","publication_identifier":{"isbn":["978-3-99078-004-6"]},"_id":"7474","year":"2020","file_date_updated":"2020-07-14T12:47:59Z","date_created":"2020-02-11T07:59:04Z","oa_version":"Published Version","month":"02","type":"book_editor","abstract":[{"lang":"eng","text":"This booklet is a collection of abstracts presented at the AHPC conference."}],"date_updated":"2023-05-16T07:48:28Z","page":"72","citation":{"ama":"Schlögl A, Kiss J, Elefante S, eds. <i>Austrian High-Performance-Computing Meeting (AHPC2020)</i>. Klosterneuburg, Austria: IST Austria; 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7474\">10.15479/AT:ISTA:7474</a>","mla":"Schlögl, Alois, et al., editors. <i>Austrian High-Performance-Computing Meeting (AHPC2020)</i>. IST Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7474\">10.15479/AT:ISTA:7474</a>.","ista":"Schlögl A, Kiss J, Elefante S eds. 2020. Austrian High-Performance-Computing meeting (AHPC2020), Klosterneuburg, Austria: IST Austria, 72p.","apa":"Schlögl, A., Kiss, J., &#38; Elefante, S. (Eds.). (2020). <i>Austrian High-Performance-Computing meeting (AHPC2020)</i>. Presented at the AHPC: Austrian High-Performance-Computing Meeting, Klosterneuburg, Austria: IST Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:7474\">https://doi.org/10.15479/AT:ISTA:7474</a>","ieee":"A. Schlögl, J. Kiss, and S. Elefante, Eds., <i>Austrian High-Performance-Computing meeting (AHPC2020)</i>. Klosterneuburg, Austria: IST Austria, 2020.","chicago":"Schlögl, Alois, Janos Kiss, and Stefano Elefante, eds. <i>Austrian High-Performance-Computing Meeting (AHPC2020)</i>. Klosterneuburg, Austria: IST Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:7474\">https://doi.org/10.15479/AT:ISTA:7474</a>.","short":"A. Schlögl, J. Kiss, S. Elefante, eds., Austrian High-Performance-Computing Meeting (AHPC2020), IST Austria, Klosterneuburg, Austria, 2020."},"status":"public","editor":[{"last_name":"Schlögl","first_name":"Alois","full_name":"Schlögl, Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100"},{"id":"3D3A06F8-F248-11E8-B48F-1D18A9856A87","full_name":"Kiss, Janos","last_name":"Kiss","first_name":"Janos"},{"last_name":"Elefante","first_name":"Stefano","id":"490F40CE-F248-11E8-B48F-1D18A9856A87","full_name":"Elefante, Stefano"}],"date_published":"2020-02-19T00:00:00Z","ddc":["000"],"has_accepted_license":"1","publication_status":"published","oa":1},{"_id":"12901","publication":"AHPC19 - Austrian HPC Meeting 2019 ","article_processing_charge":"No","publisher":"Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"ScienComp"}],"year":"2019","title":"Is Debian suitable for running an HPC Cluster?","file_date_updated":"2023-05-16T07:27:09Z","date_created":"2023-05-05T12:48:48Z","author":[{"orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","full_name":"Schlögl, Alois","first_name":"Alois","last_name":"Schlögl"},{"id":"3D3A06F8-F248-11E8-B48F-1D18A9856A87","full_name":"Kiss, Janos","first_name":"Janos","last_name":"Kiss"},{"full_name":"Elefante, Stefano","id":"490F40CE-F248-11E8-B48F-1D18A9856A87","last_name":"Elefante","first_name":"Stefano"}],"page":"25","month":"02","oa_version":"Published Version","type":"conference_abstract","day":"27","file":[{"success":1,"file_name":"2019_AHPC_Schloegl.pdf","relation":"main_file","content_type":"application/pdf","file_size":1097603,"creator":"dernst","date_updated":"2023-05-16T07:27:09Z","file_id":"12970","checksum":"acc8272027faaf30709c51ac5c58ffa4","date_created":"2023-05-16T07:27:09Z","access_level":"open_access"}],"date_updated":"2023-05-16T07:29:32Z","conference":{"start_date":"2019-02-25","location":"Grundlsee, Austria","name":"AHPC: Austrian HPC Meeting","end_date":"2019-02-27"},"language":[{"iso":"eng"}],"citation":{"ieee":"A. Schlögl, J. Kiss, and S. Elefante, “Is Debian suitable for running an HPC Cluster?,” in <i>AHPC19 - Austrian HPC Meeting 2019 </i>, Grundlsee, Austria, 2019, p. 25.","chicago":"Schlögl, Alois, Janos Kiss, and Stefano Elefante. “Is Debian Suitable for Running an HPC Cluster?” In <i>AHPC19 - Austrian HPC Meeting 2019 </i>, 25. Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz, 2019.","short":"A. Schlögl, J. Kiss, S. Elefante, in:, AHPC19 - Austrian HPC Meeting 2019 , Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz, 2019, p. 25.","ama":"Schlögl A, Kiss J, Elefante S. Is Debian suitable for running an HPC Cluster? In: <i>AHPC19 - Austrian HPC Meeting 2019 </i>. Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz; 2019:25.","ista":"Schlögl A, Kiss J, Elefante S. 2019. Is Debian suitable for running an HPC Cluster? AHPC19 - Austrian HPC Meeting 2019 . AHPC: Austrian HPC Meeting, 25.","mla":"Schlögl, Alois, et al. “Is Debian Suitable for Running an HPC Cluster?” <i>AHPC19 - Austrian HPC Meeting 2019 </i>, Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz, 2019, p. 25.","apa":"Schlögl, A., Kiss, J., &#38; Elefante, S. (2019). Is Debian suitable for running an HPC Cluster? In <i>AHPC19 - Austrian HPC Meeting 2019 </i> (p. 25). Grundlsee, Austria: Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz."},"status":"public","date_published":"2019-02-27T00:00:00Z","ddc":["000"],"main_file_link":[{"open_access":"1","url":"https://vsc.ac.at/fileadmin/user_upload/vsc/conferences/ahpc19/BOOKLET_AHPC19.pdf"}],"publication_status":"published","oa":1,"has_accepted_license":"1"},{"intvolume":"       236","citation":{"short":"S. Sauermann, V. David, A. Schlögl, R. Egelkraut, M. Frohner, B. Pohn, P. Urbauer, A. Mense, in:, IOS Press, 2017, pp. 356–362.","chicago":"Sauermann, Stefan, Veronika David, Alois Schlögl, Reinhard Egelkraut, Matthias Frohner, Birgit Pohn, Philipp Urbauer, and Alexander Mense. “Biosignals Standards and FHIR: The Way to Go,” 236:356–62. IOS Press, 2017. <a href=\"https://doi.org/10.3233/978-1-61499-759-7-356\">https://doi.org/10.3233/978-1-61499-759-7-356</a>.","ieee":"S. Sauermann <i>et al.</i>, “Biosignals standards and FHIR: The way to go,” presented at the eHealth: Health Informatics Meets eHealth, Vienna, Austria, 2017, vol. 236, pp. 356–362.","apa":"Sauermann, S., David, V., Schlögl, A., Egelkraut, R., Frohner, M., Pohn, B., … Mense, A. (2017). Biosignals standards and FHIR: The way to go (Vol. 236, pp. 356–362). Presented at the eHealth: Health Informatics Meets eHealth, Vienna, Austria: IOS Press. <a href=\"https://doi.org/10.3233/978-1-61499-759-7-356\">https://doi.org/10.3233/978-1-61499-759-7-356</a>","ista":"Sauermann S, David V, Schlögl A, Egelkraut R, Frohner M, Pohn B, Urbauer P, Mense A. 2017. Biosignals standards and FHIR: The way to go. eHealth: Health Informatics Meets eHealth, Studies in Health Technology and Informatics, vol. 236, 356–362.","mla":"Sauermann, Stefan, et al. <i>Biosignals Standards and FHIR: The Way to Go</i>. Vol. 236, IOS Press, 2017, pp. 356–62, doi:<a href=\"https://doi.org/10.3233/978-1-61499-759-7-356\">10.3233/978-1-61499-759-7-356</a>.","ama":"Sauermann S, David V, Schlögl A, et al. Biosignals standards and FHIR: The way to go. In: Vol 236. IOS Press; 2017:356-362. doi:<a href=\"https://doi.org/10.3233/978-1-61499-759-7-356\">10.3233/978-1-61499-759-7-356</a>"},"alternative_title":["Studies in Health Technology and Informatics"],"status":"public","ddc":["005"],"date_published":"2017-01-01T00:00:00Z","oa":1,"publication_status":"published","has_accepted_license":"1","_id":"630","year":"2017","volume":236,"date_created":"2018-12-11T11:47:36Z","file_date_updated":"2020-07-14T12:47:27Z","page":"356 - 362","date_updated":"2021-01-12T08:06:59Z","abstract":[{"lang":"eng","text":"Background: Standards have become available to share semantically encoded vital parameters from medical devices, as required for example by personal healthcare records. Standardised sharing of biosignal data largely remains open. Objectives: The goal of this work is to explore available biosignal file format and data exchange standards and profiles, and to conceptualise end-To-end solutions. Methods: The authors reviewed and discussed available biosignal file format standards with other members of international standards development organisations (SDOs). Results: A raw concept for standards based acquisition, storage, archiving and sharing of biosignals was developed. The GDF format may serve for storing biosignals. Signals can then be shared using FHIR resources and may be stored on FHIR servers or in DICOM archives, with DICOM waveforms as one possible format. Conclusion: Currently a group of international SDOs (e.g. HL7, IHE, DICOM, IEEE) is engaged in intensive discussions. This discussion extends existing work that already was adopted by large implementer communities. The concept presented here only reports the current status of the discussion in Austria. The discussion will continue internationally, with results to be expected over the coming years."}],"type":"conference","oa_version":"Published Version","month":"01","conference":{"location":"Vienna, Austria","name":"eHealth: Health Informatics Meets eHealth","start_date":"2017-05-23","end_date":"2017-05-24"},"language":[{"iso":"eng"}],"doi":"10.3233/978-1-61499-759-7-356","quality_controlled":"1","publication_identifier":{"isbn":["978-161499758-0"]},"pubrep_id":"906","scopus_import":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"publisher":"IOS Press","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"ScienComp"},{"_id":"PeJo"}],"title":"Biosignals standards and FHIR: The way to go","publist_id":"7164","author":[{"full_name":"Sauermann, Stefan","last_name":"Sauermann","first_name":"Stefan"},{"first_name":"Veronika","last_name":"David","full_name":"David, Veronika"},{"last_name":"Schlögl","first_name":"Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100","full_name":"Schlögl, Alois"},{"full_name":"Egelkraut, Reinhard","last_name":"Egelkraut","first_name":"Reinhard"},{"last_name":"Frohner","first_name":"Matthias","full_name":"Frohner, Matthias"},{"first_name":"Birgit","last_name":"Pohn","full_name":"Pohn, Birgit"},{"full_name":"Urbauer, Philipp","last_name":"Urbauer","first_name":"Philipp"},{"last_name":"Mense","first_name":"Alexander","full_name":"Mense, Alexander"}],"file":[{"file_size":443635,"content_type":"application/pdf","relation":"main_file","creator":"system","file_name":"IST-2017-906-v1+1_SHTI236-0356.pdf","date_created":"2018-12-12T10:11:56Z","access_level":"open_access","file_id":"4913","date_updated":"2020-07-14T12:47:27Z","checksum":"1254dcc5b04a996d97fad9a726b42727"}],"day":"01"},{"file_date_updated":"2023-05-16T07:20:50Z","date_created":"2023-05-05T12:58:53Z","title":"Scientific Computing at IST Austria","oa_version":"Published Version","type":"conference_abstract","month":"03","file":[{"relation":"main_file","content_type":"application/pdf","file_size":1005486,"creator":"dernst","success":1,"file_name":"2017_AHPC_Schloegl.pdf","date_created":"2023-05-16T07:20:50Z","access_level":"open_access","date_updated":"2023-05-16T07:20:50Z","file_id":"12969","checksum":"7bcc499479d4f4c5ce6c0071c24ca6c6"}],"date_updated":"2023-05-16T07:22:23Z","day":"03","page":"28","author":[{"first_name":"Alois","last_name":"Schlögl","full_name":"Schlögl, Alois","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87"},{"id":"3D3A06F8-F248-11E8-B48F-1D18A9856A87","full_name":"Kiss, Janos","last_name":"Kiss","first_name":"Janos"}],"article_processing_charge":"No","_id":"12905","publication":"AHPC17 – Austrian HPC Meeting 2017","department":[{"_id":"ScienComp"}],"year":"2017","publisher":"FSP Scientific Computing","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"open_access":"1","url":"https://vsc.ac.at/fileadmin/user_upload/vsc/conferences/ahpc17/BOOKLET_AHPC17.pdf"}],"ddc":["000"],"date_published":"2017-03-03T00:00:00Z","has_accepted_license":"1","oa":1,"publication_status":"published","citation":{"short":"A. Schlögl, J. Kiss, in:, AHPC17 – Austrian HPC Meeting 2017, FSP Scientific Computing, 2017, p. 28.","chicago":"Schlögl, Alois, and Janos Kiss. “Scientific Computing at IST Austria.” In <i>AHPC17 – Austrian HPC Meeting 2017</i>, 28. FSP Scientific Computing, 2017.","ieee":"A. Schlögl and J. Kiss, “Scientific Computing at IST Austria,” in <i>AHPC17 – Austrian HPC Meeting 2017</i>, Grundlsee, Austria, 2017, p. 28.","apa":"Schlögl, A., &#38; Kiss, J. (2017). Scientific Computing at IST Austria. In <i>AHPC17 – Austrian HPC Meeting 2017</i> (p. 28). Grundlsee, Austria: FSP Scientific Computing.","ista":"Schlögl A, Kiss J. 2017. Scientific Computing at IST Austria. AHPC17 – Austrian HPC Meeting 2017. AHPC: Austrian HPC Meeting, 28.","mla":"Schlögl, Alois, and Janos Kiss. “Scientific Computing at IST Austria.” <i>AHPC17 – Austrian HPC Meeting 2017</i>, FSP Scientific Computing, 2017, p. 28.","ama":"Schlögl A, Kiss J. Scientific Computing at IST Austria. In: <i>AHPC17 – Austrian HPC Meeting 2017</i>. FSP Scientific Computing; 2017:28."},"language":[{"iso":"eng"}],"conference":{"location":"Grundlsee, Austria","name":"AHPC: Austrian HPC Meeting","start_date":"2017-03-01","end_date":"2017-03-03"},"status":"public"},{"oa":1,"publication_status":"published","main_file_link":[{"open_access":"1","url":"https://doi.org/10.22489/cinc.2016.090-500"}],"date_published":"2016-03-01T00:00:00Z","status":"public","citation":{"short":"P. Rubel, D. Pani, A. Schlögl, J. Fayn, F. Badilini, P. Macfarlane, A. Varri, in:, 2016 Computing in Cardiology Conference, Computing in Cardiology, 2016, pp. 309–312.","chicago":"Rubel, Paul, Danilo Pani, Alois Schlögl, Jocelyne Fayn, Fabio Badilini, Peter Macfarlane, and Alpo Varri. “SCP-ECG V3.0: An Enhanced Standard Communication Protocol for Computer-Assisted Electrocardiography.” In <i>2016 Computing in Cardiology Conference</i>, 43:309–12. Computing in Cardiology, 2016. <a href=\"https://doi.org/10.22489/cinc.2016.090-500\">https://doi.org/10.22489/cinc.2016.090-500</a>.","ieee":"P. Rubel <i>et al.</i>, “SCP-ECG V3.0: An enhanced standard communication protocol for computer-assisted electrocardiography,” in <i>2016 Computing in Cardiology Conference</i>, Vancouver, Canada, 2016, vol. 43, pp. 309–312.","apa":"Rubel, P., Pani, D., Schlögl, A., Fayn, J., Badilini, F., Macfarlane, P., &#38; Varri, A. (2016). SCP-ECG V3.0: An enhanced standard communication protocol for computer-assisted electrocardiography. In <i>2016 Computing in Cardiology Conference</i> (Vol. 43, pp. 309–312). Vancouver, Canada: Computing in Cardiology. <a href=\"https://doi.org/10.22489/cinc.2016.090-500\">https://doi.org/10.22489/cinc.2016.090-500</a>","ista":"Rubel P, Pani D, Schlögl A, Fayn J, Badilini F, Macfarlane P, Varri A. 2016. SCP-ECG V3.0: An enhanced standard communication protocol for computer-assisted electrocardiography. 2016 Computing in Cardiology Conference. CinC: Computing in Cardiology vol. 43, 309–312.","mla":"Rubel, Paul, et al. “SCP-ECG V3.0: An Enhanced Standard Communication Protocol for Computer-Assisted Electrocardiography.” <i>2016 Computing in Cardiology Conference</i>, vol. 43, Computing in Cardiology, 2016, pp. 309–12, doi:<a href=\"https://doi.org/10.22489/cinc.2016.090-500\">10.22489/cinc.2016.090-500</a>.","ama":"Rubel P, Pani D, Schlögl A, et al. SCP-ECG V3.0: An enhanced standard communication protocol for computer-assisted electrocardiography. In: <i>2016 Computing in Cardiology Conference</i>. Vol 43. Computing in Cardiology; 2016:309-312. doi:<a href=\"https://doi.org/10.22489/cinc.2016.090-500\">10.22489/cinc.2016.090-500</a>"},"intvolume":"        43","date_updated":"2022-03-04T07:34:45Z","abstract":[{"text":"The main goal of the SCP-ECG standard is to address ECG data and related metadata structuring, semantics and syntax, with the objective of facilitating interoperability and thus supporting and promoting the exchange of the relevant information for unary and serial ECG diagnosis. Starting with version V3.0, the standard now also provides support for the storage of continuous, long-term ECG recordings and affords a repository for selected ECG sequences and the related metadata to accommodate stress tests, drug trials and protocol-based ECG recordings. The global and per-lead measurements sections have been extended and three new sections have been introduced for storing beat-by-beat and/or spike-by-spike measurements\r\nand annotations. The used terminology and the provided measurements and annotations have been harmonized with the ISO/IEEE 11073-10102 Annotated ECG standard. Emphasis has also been put on harmonizing the Universal Statement Codes with the CDISC and the categorized AHA statement codes and similarly the drug and implanted devices codes with the ATC and NASPE/BPEG codes. ","lang":"eng"}],"type":"conference","oa_version":"Published Version","month":"03","page":"309-312","date_created":"2022-03-03T10:43:10Z","volume":43,"year":"2016","acknowledgement":"The authors are thankful to Drs. Roger Abaecherli, Nikus Kjell, Paul Kligfield, Jay Mason, Patrice Nony, Vito Starc, Anders Thurin and the late Galen Wagner for their in depth review and constructive comments.","_id":"10810","publication_identifier":{"issn":["2325-887X"]},"quality_controlled":"1","doi":"10.22489/cinc.2016.090-500","language":[{"iso":"eng"}],"conference":{"end_date":"2016-09-14","start_date":"2016-09-11","name":"CinC: Computing in Cardiology","location":"Vancouver, Canada"},"day":"01","author":[{"first_name":"Paul","last_name":"Rubel","full_name":"Rubel, Paul"},{"last_name":"Pani","first_name":"Danilo","full_name":"Pani, Danilo"},{"first_name":"Alois","last_name":"Schlögl","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100","full_name":"Schlögl, Alois"},{"full_name":"Fayn, Jocelyne","first_name":"Jocelyne","last_name":"Fayn"},{"first_name":"Fabio","last_name":"Badilini","full_name":"Badilini, Fabio"},{"first_name":"Peter","last_name":"Macfarlane","full_name":"Macfarlane, Peter"},{"first_name":"Alpo","last_name":"Varri","full_name":"Varri, Alpo"}],"title":"SCP-ECG V3.0: An enhanced standard communication protocol for computer-assisted electrocardiography","department":[{"_id":"CampIT"}],"publisher":"Computing in Cardiology","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","scopus_import":"1","publication":"2016 Computing in Cardiology Conference"},{"year":"2016","_id":"1350","page":"1117 - 1123","month":"09","oa_version":"Preprint","type":"journal_article","date_updated":"2021-01-12T06:50:04Z","abstract":[{"text":"The hippocampal CA3 region plays a key role in learning and memory. Recurrent CA3–CA3\r\nsynapses are thought to be the subcellular substrate of pattern completion. However, the\r\nsynaptic mechanisms of this network computation remain enigmatic. To investigate these mechanisms, we combined functional connectivity analysis with network modeling.\r\nSimultaneous recording fromup to eight CA3 pyramidal neurons revealed that connectivity was sparse, spatially uniform, and highly enriched in disynaptic motifs (reciprocal, convergence,divergence, and chain motifs). Unitary connections were composed of one or two synaptic contacts, suggesting efficient use of postsynaptic space. Real-size modeling indicated that CA3 networks with sparse connectivity, disynaptic motifs, and single-contact connections robustly generated pattern completion.Thus, macro- and microconnectivity contribute to efficient\r\nmemory storage and retrieval in hippocampal networks.","lang":"eng"}],"volume":353,"date_created":"2018-12-11T11:51:31Z","file_date_updated":"2020-07-14T12:44:46Z","status":"public","intvolume":"       353","citation":{"ama":"Guzmán J, Schlögl A, Frotscher M, Jonas PM. Synaptic mechanisms of pattern completion in the hippocampal CA3 network. <i>Science</i>. 2016;353(6304):1117-1123. doi:<a href=\"https://doi.org/10.1126/science.aaf1836\">10.1126/science.aaf1836</a>","mla":"Guzmán, José, et al. “Synaptic Mechanisms of Pattern Completion in the Hippocampal CA3 Network.” <i>Science</i>, vol. 353, no. 6304, American Association for the Advancement of Science, 2016, pp. 1117–23, doi:<a href=\"https://doi.org/10.1126/science.aaf1836\">10.1126/science.aaf1836</a>.","ista":"Guzmán J, Schlögl A, Frotscher M, Jonas PM. 2016. Synaptic mechanisms of pattern completion in the hippocampal CA3 network. Science. 353(6304), 1117–1123.","apa":"Guzmán, J., Schlögl, A., Frotscher, M., &#38; Jonas, P. M. (2016). Synaptic mechanisms of pattern completion in the hippocampal CA3 network. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.aaf1836\">https://doi.org/10.1126/science.aaf1836</a>","ieee":"J. Guzmán, A. Schlögl, M. Frotscher, and P. M. Jonas, “Synaptic mechanisms of pattern completion in the hippocampal CA3 network,” <i>Science</i>, vol. 353, no. 6304. American Association for the Advancement of Science, pp. 1117–1123, 2016.","chicago":"Guzmán, José, Alois Schlögl, Michael Frotscher, and Peter M Jonas. “Synaptic Mechanisms of Pattern Completion in the Hippocampal CA3 Network.” <i>Science</i>. American Association for the Advancement of Science, 2016. <a href=\"https://doi.org/10.1126/science.aaf1836\">https://doi.org/10.1126/science.aaf1836</a>.","short":"J. Guzmán, A. Schlögl, M. Frotscher, P.M. Jonas, Science 353 (2016) 1117–1123."},"oa":1,"publication_status":"published","has_accepted_license":"1","date_published":"2016-09-09T00:00:00Z","ddc":["570"],"acknowledged_ssus":[{"_id":"ScienComp"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"American Association for the Advancement of Science","department":[{"_id":"ScienComp"},{"_id":"PeJo"}],"publication":"Science","ec_funded":1,"scopus_import":1,"author":[{"full_name":"Guzmán, José","id":"30CC5506-F248-11E8-B48F-1D18A9856A87","first_name":"José","last_name":"Guzmán"},{"id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100","full_name":"Schlögl, Alois","first_name":"Alois","last_name":"Schlögl"},{"first_name":"Michael","last_name":"Frotscher","full_name":"Frotscher, Michael"},{"orcid":"0000-0001-5001-4804","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","full_name":"Jonas, Peter M","last_name":"Jonas","first_name":"Peter M"}],"file":[{"file_name":"IST-2017-823-v1+1_aaf1836_CombinedPDF_v2-1.pdf","creator":"system","content_type":"application/pdf","relation":"main_file","file_size":19408143,"checksum":"89caefa4e181424cbf0aecc835fcc5ec","date_updated":"2020-07-14T12:44:46Z","file_id":"4945","access_level":"open_access","date_created":"2018-12-12T10:12:27Z"}],"day":"09","title":"Synaptic mechanisms of pattern completion in the hippocampal CA3 network","publist_id":"5899","project":[{"name":"Nanophysiology of fast-spiking, parvalbumin-expressing GABAergic interneurons","_id":"25C0F108-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"268548"},{"call_identifier":"FWF","_id":"25C26B1E-B435-11E9-9278-68D0E5697425","name":"Mechanisms of transmitter release at GABAergic synapses","grant_number":"P24909-B24"}],"issue":"6304","language":[{"iso":"eng"}],"pubrep_id":"823","doi":"10.1126/science.aaf1836","quality_controlled":"1"},{"publication_status":"published","oa":1,"has_accepted_license":"1","ddc":["000"],"date_published":"2016-02-24T00:00:00Z","quality_controlled":"1","main_file_link":[{"url":"https://vsc.ac.at/fileadmin/user_upload/vsc/conferences/ahpc16/BOOKLET_AHPC16.pdf","open_access":"1"}],"status":"public","conference":{"start_date":"2016-02-22","location":"Grundlsee, Austria","name":"AHPC: Austrian HPC Meeting","end_date":"2016-02-24"},"citation":{"ista":"Schlögl A, Stadlbauer S. 2016. High performance computing at IST Austria: Modelling the human hippocampus. AHPC16 - Austrian HPC Meeting 2016. AHPC: Austrian HPC Meeting, 37.","mla":"Schlögl, Alois, and Stephan Stadlbauer. “High Performance Computing at IST Austria: Modelling the Human Hippocampus.” <i>AHPC16 - Austrian HPC Meeting 2016</i>, VSC - Vienna Scientific Cluster, 2016, p. 37.","apa":"Schlögl, A., &#38; Stadlbauer, S. (2016). High performance computing at IST Austria: Modelling the human hippocampus. In <i>AHPC16 - Austrian HPC Meeting 2016</i> (p. 37). Grundlsee, Austria: VSC - Vienna Scientific Cluster.","ama":"Schlögl A, Stadlbauer S. High performance computing at IST Austria: Modelling the human hippocampus. In: <i>AHPC16 - Austrian HPC Meeting 2016</i>. VSC - Vienna Scientific Cluster; 2016:37.","short":"A. Schlögl, S. Stadlbauer, in:, AHPC16 - Austrian HPC Meeting 2016, VSC - Vienna Scientific Cluster, 2016, p. 37.","ieee":"A. Schlögl and S. Stadlbauer, “High performance computing at IST Austria: Modelling the human hippocampus,” in <i>AHPC16 - Austrian HPC Meeting 2016</i>, Grundlsee, Austria, 2016, p. 37.","chicago":"Schlögl, Alois, and Stephan Stadlbauer. “High Performance Computing at IST Austria: Modelling the Human Hippocampus.” In <i>AHPC16 - Austrian HPC Meeting 2016</i>, 37. VSC - Vienna Scientific Cluster, 2016."},"language":[{"iso":"eng"}],"author":[{"last_name":"Schlögl","first_name":"Alois","full_name":"Schlögl, Alois","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Stadlbauer","first_name":"Stephan","id":"4D0BC184-F248-11E8-B48F-1D18A9856A87","full_name":"Stadlbauer, Stephan"}],"page":"37","month":"02","type":"conference_abstract","oa_version":"Published Version","date_updated":"2023-05-16T07:15:14Z","file":[{"creator":"dernst","file_size":1073523,"content_type":"application/pdf","relation":"main_file","file_name":"2016_AHPC_Schloegl.pdf","success":1,"access_level":"open_access","date_created":"2023-05-16T07:03:56Z","checksum":"4a7b00362e81358d568f5e216fa03c3e","file_id":"12968","date_updated":"2023-05-16T07:03:56Z"}],"day":"24","title":"High performance computing at IST Austria: Modelling the human hippocampus","date_created":"2023-05-05T12:54:47Z","file_date_updated":"2023-05-16T07:03:56Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"VSC - Vienna Scientific Cluster","year":"2016","department":[{"_id":"ScienComp"},{"_id":"PeJo"}],"_id":"12903","publication":"AHPC16 - Austrian HPC Meeting 2016","article_processing_charge":"No"},{"doi":"10.1111/psyp.12062","pubrep_id":"442","language":[{"iso":"eng"}],"issue":"4","publist_id":"5205","title":"Sequential effects in continued visual search: Using fixation-related potentials to compare distractor processing before and after target detection","file":[{"file_size":543243,"content_type":"application/pdf","relation":"main_file","creator":"system","file_name":"IST-2016-442-v1+1_K-rner_et_al-2014-Psychophysiology.pdf","date_created":"2018-12-12T10:16:44Z","access_level":"open_access","file_id":"5233","date_updated":"2020-07-14T12:45:20Z","checksum":"4255b6185e774acce1d99f8e195c564d"}],"day":"11","author":[{"full_name":"Körner, Christof","first_name":"Christof","last_name":"Körner"},{"full_name":"Braunstein, Verena","first_name":"Verena","last_name":"Braunstein"},{"first_name":"Matthias","last_name":"Stangl","full_name":"Stangl, Matthias"},{"full_name":"Schlögl, Alois","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","last_name":"Schlögl","first_name":"Alois"},{"full_name":"Neuper, Christa","last_name":"Neuper","first_name":"Christa"},{"full_name":"Ischebeck, Anja","first_name":"Anja","last_name":"Ischebeck"}],"scopus_import":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"publication":"Psychophysiology","department":[{"_id":"ScienComp"},{"_id":"PeJo"}],"user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","publisher":"Wiley-Blackwell","date_published":"2014-02-11T00:00:00Z","ddc":["000"],"has_accepted_license":"1","publication_status":"published","oa":1,"citation":{"ista":"Körner C, Braunstein V, Stangl M, Schlögl A, Neuper C, Ischebeck A. 2014. Sequential effects in continued visual search: Using fixation-related potentials to compare distractor processing before and after target detection. Psychophysiology. 51(4), 385–395.","mla":"Körner, Christof, et al. “Sequential Effects in Continued Visual Search: Using Fixation-Related Potentials to Compare Distractor Processing before and after Target Detection.” <i>Psychophysiology</i>, vol. 51, no. 4, Wiley-Blackwell, 2014, pp. 385–95, doi:<a href=\"https://doi.org/10.1111/psyp.12062\">10.1111/psyp.12062</a>.","apa":"Körner, C., Braunstein, V., Stangl, M., Schlögl, A., Neuper, C., &#38; Ischebeck, A. (2014). Sequential effects in continued visual search: Using fixation-related potentials to compare distractor processing before and after target detection. <i>Psychophysiology</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1111/psyp.12062\">https://doi.org/10.1111/psyp.12062</a>","ama":"Körner C, Braunstein V, Stangl M, Schlögl A, Neuper C, Ischebeck A. Sequential effects in continued visual search: Using fixation-related potentials to compare distractor processing before and after target detection. <i>Psychophysiology</i>. 2014;51(4):385-395. doi:<a href=\"https://doi.org/10.1111/psyp.12062\">10.1111/psyp.12062</a>","short":"C. Körner, V. Braunstein, M. Stangl, A. Schlögl, C. Neuper, A. Ischebeck, Psychophysiology 51 (2014) 385–395.","ieee":"C. Körner, V. Braunstein, M. Stangl, A. Schlögl, C. Neuper, and A. Ischebeck, “Sequential effects in continued visual search: Using fixation-related potentials to compare distractor processing before and after target detection,” <i>Psychophysiology</i>, vol. 51, no. 4. Wiley-Blackwell, pp. 385–395, 2014.","chicago":"Körner, Christof, Verena Braunstein, Matthias Stangl, Alois Schlögl, Christa Neuper, and Anja Ischebeck. “Sequential Effects in Continued Visual Search: Using Fixation-Related Potentials to Compare Distractor Processing before and after Target Detection.” <i>Psychophysiology</i>. Wiley-Blackwell, 2014. <a href=\"https://doi.org/10.1111/psyp.12062\">https://doi.org/10.1111/psyp.12062</a>."},"intvolume":"        51","status":"public","file_date_updated":"2020-07-14T12:45:20Z","date_created":"2018-12-11T11:54:34Z","volume":51,"date_updated":"2021-01-12T06:53:52Z","abstract":[{"lang":"eng","text":"To search for a target in a complex environment is an everyday behavior that ends with finding the target. When we search for two identical targets, however, we must continue the search after finding the first target and memorize its location. We used fixation-related potentials to investigate the neural correlates of different stages of the search, that is, before and after finding the first target. Having found the first target influenced subsequent distractor processing. Compared to distractor fixations before the first target fixation, a negative shift was observed for three subsequent distractor fixations. These results suggest that processing a target in continued search modulates the brain's response, either transiently by reflecting temporary working memory processes or permanently by reflecting working memory retention."}],"month":"02","type":"journal_article","oa_version":"Published Version","page":"385 - 395","_id":"1890","year":"2014","acknowledgement":"Funded by Austrian Science Fund (FWF) Grant Number: P 22189-B18; European Union within the 6th Framework Programme Grant Number: 517590; State government of Styria Grant Number: PN 4055"},{"issue":"FEB","language":[{"iso":"eng"}],"pubrep_id":"425","publication_identifier":{"issn":["16625196"]},"quality_controlled":"1","doi":"10.3389/fninf.2014.00016","department":[{"_id":"ScienComp"},{"_id":"PeJo"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Frontiers Research Foundation","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"scopus_import":1,"publication":"Frontiers in Neuroinformatics","day":"21","file":[{"date_created":"2018-12-12T10:12:17Z","access_level":"open_access","date_updated":"2020-07-14T12:45:34Z","file_id":"4935","checksum":"eeca00bba7232ff7d27db83321f6ea30","content_type":"application/pdf","relation":"main_file","file_size":2883372,"creator":"system","file_name":"IST-2016-425-v1+1_fninf-08-00016.pdf"}],"author":[{"id":"30CC5506-F248-11E8-B48F-1D18A9856A87","full_name":"Guzmán, José","last_name":"Guzmán","first_name":"José"},{"last_name":"Schlögl","first_name":"Alois","full_name":"Schlögl, Alois","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Christoph","last_name":"Schmidt Hieber","full_name":"Schmidt Hieber, Christoph"}],"publist_id":"4731","article_number":"16","title":"Stimfit: Quantifying electrophysiological data with Python","status":"public","citation":{"apa":"Guzmán, J., Schlögl, A., &#38; Schmidt Hieber, C. (2014). Stimfit: Quantifying electrophysiological data with Python. <i>Frontiers in Neuroinformatics</i>. Frontiers Research Foundation. <a href=\"https://doi.org/10.3389/fninf.2014.00016\">https://doi.org/10.3389/fninf.2014.00016</a>","mla":"Guzmán, José, et al. “Stimfit: Quantifying Electrophysiological Data with Python.” <i>Frontiers in Neuroinformatics</i>, vol. 8, no. FEB, 16, Frontiers Research Foundation, 2014, doi:<a href=\"https://doi.org/10.3389/fninf.2014.00016\">10.3389/fninf.2014.00016</a>.","ista":"Guzmán J, Schlögl A, Schmidt Hieber C. 2014. Stimfit: Quantifying electrophysiological data with Python. Frontiers in Neuroinformatics. 8(FEB), 16.","ama":"Guzmán J, Schlögl A, Schmidt Hieber C. Stimfit: Quantifying electrophysiological data with Python. <i>Frontiers in Neuroinformatics</i>. 2014;8(FEB). doi:<a href=\"https://doi.org/10.3389/fninf.2014.00016\">10.3389/fninf.2014.00016</a>","short":"J. Guzmán, A. Schlögl, C. Schmidt Hieber, Frontiers in Neuroinformatics 8 (2014).","chicago":"Guzmán, José, Alois Schlögl, and Christoph Schmidt Hieber. “Stimfit: Quantifying Electrophysiological Data with Python.” <i>Frontiers in Neuroinformatics</i>. Frontiers Research Foundation, 2014. <a href=\"https://doi.org/10.3389/fninf.2014.00016\">https://doi.org/10.3389/fninf.2014.00016</a>.","ieee":"J. Guzmán, A. Schlögl, and C. Schmidt Hieber, “Stimfit: Quantifying electrophysiological data with Python,” <i>Frontiers in Neuroinformatics</i>, vol. 8, no. FEB. Frontiers Research Foundation, 2014."},"intvolume":"         8","has_accepted_license":"1","publication_status":"published","oa":1,"ddc":["570"],"date_published":"2014-02-21T00:00:00Z","year":"2014","_id":"2230","month":"02","type":"journal_article","oa_version":"Published Version","date_updated":"2021-01-12T06:56:09Z","abstract":[{"lang":"eng","text":"Intracellular electrophysiological recordings provide crucial insights into elementary neuronal signals such as action potentials and synaptic currents. Analyzing and interpreting these signals is essential for a quantitative understanding of neuronal information processing, and requires both fast data visualization and ready access to complex analysis routines. To achieve this goal, we have developed Stimfit, a free software package for cellular neurophysiology with a Python scripting interface and a built-in Python shell. The program supports most standard file formats for cellular neurophysiology and other biomedical signals through the Biosig library. To quantify and interpret the activity of single neurons and communication between neurons, the program includes algorithms to characterize the kinetics of presynaptic action potentials and postsynaptic currents, estimate latencies between pre- and postsynaptic events, and detect spontaneously occurring events. We validate and benchmark these algorithms, give estimation errors, and provide sample use cases, showing that Stimfit represents an efficient, accessible and extensible way to accurately analyze and interpret neuronal signals."}],"date_created":"2018-12-11T11:56:27Z","file_date_updated":"2020-07-14T12:45:34Z","volume":8},{"article_number":"000010151520134181","title":"Stimfit: A fast visualization and analysis environment for cellular neurophysiology","day":"01","file":[{"relation":"main_file","content_type":"application/pdf","file_size":149825,"creator":"schloegl","success":1,"file_name":"Schloegl_Abstract-BMT2013.pdf","date_created":"2021-12-01T14:38:08Z","access_level":"open_access","date_updated":"2021-12-01T14:38:08Z","file_id":"10397","checksum":"cdfc5339b530a25d6079f7223f0b1f16"}],"author":[{"last_name":"Schlögl","first_name":"Alois","full_name":"Schlögl, Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100"},{"first_name":"Peter M","last_name":"Jonas","full_name":"Jonas, Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804"},{"full_name":"Schmidt-Hieber, C.","first_name":"C.","last_name":"Schmidt-Hieber"},{"first_name":"S. J.","last_name":"Guzman","full_name":"Guzman, S. J."}],"article_type":"original","article_processing_charge":"No","publication":"Biomedical Engineering / Biomedizinische Technik","department":[{"_id":"PeJo"}],"pmid":1,"publisher":"De Gruyter","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","quality_controlled":"1","doi":"10.1515/bmt-2013-4181","publication_identifier":{"eissn":["1862-278X"],"issn":["0013-5585"]},"issue":"SI-1-Track-G","language":[{"iso":"eng"}],"keyword":["biomedical engineering","data analysis","free software"],"conference":{"start_date":"2013-09-19","name":"BMT: Biomedizinische Technik ","location":"Graz, Austria","end_date":"2013-09-21"},"date_created":"2021-12-01T14:35:35Z","file_date_updated":"2021-12-01T14:38:08Z","volume":58,"oa_version":"Submitted Version","month":"08","type":"journal_article","date_updated":"2021-12-02T12:51:12Z","abstract":[{"lang":"eng","text":"Stimfit is a free cross-platform software package for viewing and analyzing electrophysiological data. It supports most standard file types for cellular neurophysiology and other biomedical formats. Its analysis algorithms have been used and validated in several experimental laboratories. Its embedded Python scripting interface makes Stimfit highly extensible and customizable."}],"_id":"10396","year":"2013","ddc":["005","610"],"date_published":"2013-08-01T00:00:00Z","has_accepted_license":"1","oa":1,"publication_status":"published","citation":{"apa":"Schlögl, A., Jonas, P. M., Schmidt-Hieber, C., &#38; Guzman, S. J. (2013). Stimfit: A fast visualization and analysis environment for cellular neurophysiology. <i>Biomedical Engineering / Biomedizinische Technik</i>. Graz, Austria: De Gruyter. <a href=\"https://doi.org/10.1515/bmt-2013-4181\">https://doi.org/10.1515/bmt-2013-4181</a>","mla":"Schlögl, Alois, et al. “Stimfit: A Fast Visualization and Analysis Environment for Cellular Neurophysiology.” <i>Biomedical Engineering / Biomedizinische Technik</i>, vol. 58, no. SI-1-Track-G, 000010151520134181, De Gruyter, 2013, doi:<a href=\"https://doi.org/10.1515/bmt-2013-4181\">10.1515/bmt-2013-4181</a>.","ista":"Schlögl A, Jonas PM, Schmidt-Hieber C, Guzman SJ. 2013. Stimfit: A fast visualization and analysis environment for cellular neurophysiology. Biomedical Engineering / Biomedizinische Technik. 58(SI-1-Track-G), 000010151520134181.","ama":"Schlögl A, Jonas PM, Schmidt-Hieber C, Guzman SJ. Stimfit: A fast visualization and analysis environment for cellular neurophysiology. <i>Biomedical Engineering / Biomedizinische Technik</i>. 2013;58(SI-1-Track-G). doi:<a href=\"https://doi.org/10.1515/bmt-2013-4181\">10.1515/bmt-2013-4181</a>","short":"A. Schlögl, P.M. Jonas, C. Schmidt-Hieber, S.J. Guzman, Biomedical Engineering / Biomedizinische Technik 58 (2013).","chicago":"Schlögl, Alois, Peter M Jonas, C. Schmidt-Hieber, and S. J. Guzman. “Stimfit: A Fast Visualization and Analysis Environment for Cellular Neurophysiology.” <i>Biomedical Engineering / Biomedizinische Technik</i>. De Gruyter, 2013. <a href=\"https://doi.org/10.1515/bmt-2013-4181\">https://doi.org/10.1515/bmt-2013-4181</a>.","ieee":"A. Schlögl, P. M. Jonas, C. Schmidt-Hieber, and S. J. Guzman, “Stimfit: A fast visualization and analysis environment for cellular neurophysiology,” <i>Biomedical Engineering / Biomedizinische Technik</i>, vol. 58, no. SI-1-Track-G. De Gruyter, 2013."},"intvolume":"        58","external_id":{"pmid":["24042795"]},"status":"public"},{"main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3471482/","open_access":"1"}],"date_published":"2012-10-03T00:00:00Z","publication_status":"published","oa":1,"citation":{"chicago":"Pernia-Andrade, Alejandro, Sarit Goswami, Yvonne Stickler, Ulrich Fröbe, Alois Schlögl, and Peter M Jonas. “A Deconvolution Based Method with High Sensitivity and Temporal Resolution for Detection of Spontaneous Synaptic Currents in Vitro and in Vivo.” <i>Biophysical Journal</i>. Biophysical, 2012. <a href=\"https://doi.org/10.1016/j.bpj.2012.08.039\">https://doi.org/10.1016/j.bpj.2012.08.039</a>.","ieee":"A. Pernia-Andrade, S. Goswami, Y. Stickler, U. Fröbe, A. Schlögl, and P. M. Jonas, “A deconvolution based method with high sensitivity and temporal resolution for detection of spontaneous synaptic currents in vitro and in vivo,” <i>Biophysical Journal</i>, vol. 103, no. 7. Biophysical, pp. 1429–1439, 2012.","short":"A. Pernia-Andrade, S. Goswami, Y. Stickler, U. Fröbe, A. Schlögl, P.M. Jonas, Biophysical Journal 103 (2012) 1429–1439.","ama":"Pernia-Andrade A, Goswami S, Stickler Y, Fröbe U, Schlögl A, Jonas PM. A deconvolution based method with high sensitivity and temporal resolution for detection of spontaneous synaptic currents in vitro and in vivo. <i>Biophysical Journal</i>. 2012;103(7):1429-1439. doi:<a href=\"https://doi.org/10.1016/j.bpj.2012.08.039\">10.1016/j.bpj.2012.08.039</a>","apa":"Pernia-Andrade, A., Goswami, S., Stickler, Y., Fröbe, U., Schlögl, A., &#38; Jonas, P. M. (2012). A deconvolution based method with high sensitivity and temporal resolution for detection of spontaneous synaptic currents in vitro and in vivo. <i>Biophysical Journal</i>. Biophysical. <a href=\"https://doi.org/10.1016/j.bpj.2012.08.039\">https://doi.org/10.1016/j.bpj.2012.08.039</a>","mla":"Pernia-Andrade, Alejandro, et al. “A Deconvolution Based Method with High Sensitivity and Temporal Resolution for Detection of Spontaneous Synaptic Currents in Vitro and in Vivo.” <i>Biophysical Journal</i>, vol. 103, no. 7, Biophysical, 2012, pp. 1429–39, doi:<a href=\"https://doi.org/10.1016/j.bpj.2012.08.039\">10.1016/j.bpj.2012.08.039</a>.","ista":"Pernia-Andrade A, Goswami S, Stickler Y, Fröbe U, Schlögl A, Jonas PM. 2012. A deconvolution based method with high sensitivity and temporal resolution for detection of spontaneous synaptic currents in vitro and in vivo. Biophysical Journal. 103(7), 1429–1439."},"intvolume":"       103","status":"public","external_id":{"pmid":["23062335"]},"date_created":"2018-12-11T12:00:32Z","volume":103,"month":"10","type":"journal_article","oa_version":"Submitted Version","abstract":[{"lang":"eng","text":"Spontaneous postsynaptic currents (PSCs) provide key information about the mechanisms of synaptic transmission and the activity modes of neuronal networks. However, detecting spontaneous PSCs in vitro and in vivo has been challenging, because of the small amplitude, the variable kinetics, and the undefined time of generation of these events. Here, we describe a, to our knowledge, new method for detecting spontaneous synaptic events by deconvolution, using a template that approximates the average time course of spontaneous PSCs. A recorded PSC trace is deconvolved from the template, resulting in a series of delta-like functions. The maxima of these delta-like events are reliably detected, revealing the precise onset times of the spontaneous PSCs. Among all detection methods, the deconvolution-based method has a unique temporal resolution, allowing the detection of individual events in high-frequency bursts. Furthermore, the deconvolution-based method has a high amplitude resolution, because deconvolution can substantially increase the signal/noise ratio. When tested against previously published methods using experimental data, the deconvolution-based method was superior for spontaneous PSCs recorded in vivo. Using the high-resolution deconvolution-based detection algorithm, we show that the frequency of spontaneous excitatory postsynaptic currents in dentate gyrus granule cells is 4.5 times higher in vivo than in vitro."}],"date_updated":"2021-01-12T07:40:01Z","page":"1429 - 1439","_id":"2954","year":"2012","acknowledgement":"This work was supported by the Deutsche Forschungsgemeinschaft (TR3/B10) and a European Research Council Advanced grant to P.J.\r\nWe thank H. Hu, S. J. Guzman, and C. Schmidt-Hieber for critically reading the manuscript, I. Koeva and F. Marr for technical support, and E. Kramberger for editorial assistance.\r\n","quality_controlled":"1","doi":"10.1016/j.bpj.2012.08.039","issue":"7","language":[{"iso":"eng"}],"project":[{"_id":"25BDE9A4-B435-11E9-9278-68D0E5697425","name":"Glutamaterge synaptische Übertragung und Plastizität in hippocampalen Mikroschaltkreisen","grant_number":"SFB-TR3-TP10B"}],"publist_id":"3774","title":"A deconvolution based method with high sensitivity and temporal resolution for detection of spontaneous synaptic currents in vitro and in vivo","day":"03","author":[{"id":"36963E98-F248-11E8-B48F-1D18A9856A87","full_name":"Pernia-Andrade, Alejandro","first_name":"Alejandro","last_name":"Pernia-Andrade"},{"id":"3A578F32-F248-11E8-B48F-1D18A9856A87","full_name":"Goswami, Sarit","first_name":"Sarit","last_name":"Goswami"},{"last_name":"Stickler","first_name":"Yvonne","id":"63B76600-E9CC-11E9-9B5F-82450873F7A1","full_name":"Stickler, Yvonne"},{"full_name":"Fröbe, Ulrich","last_name":"Fröbe","first_name":"Ulrich"},{"full_name":"Schlögl, Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100","first_name":"Alois","last_name":"Schlögl"},{"last_name":"Jonas","first_name":"Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804","full_name":"Jonas, Peter M"}],"scopus_import":1,"publication":"Biophysical Journal","department":[{"_id":"PeJo"},{"_id":"ScienComp"}],"pmid":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Biophysical"}]