[{"intvolume":"        21","year":"2025","ddc":["540"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2025-07-28T00:00:00Z","OA_place":"publisher","_id":"20318","abstract":[{"lang":"eng","text":"Lipid membranes and membrane deformations are a long-standing area of research in soft matter and biophysics. Computer simulations have complemented analytical and experimental approaches as one of the pillars in the field. However, setting up and using membrane simulations can come with barriers due to the multidisciplinary effort involved and the vast choice of existing simulations models. In this review, we introduce the non-expert reader to coarse-grained membrane simulations at the mesoscale. Firstly, we give a concise overview of the modelling approaches to study fluid membranes, together with guidance to more specialized references. Secondly, we provide a conceptual guide on how to develop mesoscale membrane simulations. Lastly, we construct a hands-on tutorial on how to apply mesoscale membrane simulations, by providing a pedagogical examination of membrane tether pulling, shape and mechanics of membrane tubes, and membrane fluctuations with three different membrane models, and discussing them in terms of their scope and how resource-intensive they are. To ease the reader's venture into the field, we provide a repository with ready-to-run tutorials."}],"language":[{"iso":"eng"}],"external_id":{"isi":["001562846800001"],"arxiv":["2502.09798"]},"type":"journal_article","quality_controlled":"1","has_accepted_license":"1","day":"28","citation":{"chicago":"Muñoz Basagoiti, Maitane, Felix F Frey, Billie Meadowcroft, Miguel Santana de Freitas Amaral, Adam Prada, and Anđela Šarić. “A Tutorial for Mesoscale Computer Simulations of Lipid Membranes: Tether Pulling, Tubulation and Fluctuations.” <i>Soft Matter</i>. Royal Society of Chemistry, 2025. <a href=\"https://doi.org/10.1039/d5sm00148j\">https://doi.org/10.1039/d5sm00148j</a>.","ama":"Muñoz Basagoiti M, Frey FF, Meadowcroft B, Santana de Freitas Amaral M, Prada A, Šarić A. A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations. <i>Soft Matter</i>. 2025;21(40):7736-7756. doi:<a href=\"https://doi.org/10.1039/d5sm00148j\">10.1039/d5sm00148j</a>","ista":"Muñoz Basagoiti M, Frey FF, Meadowcroft B, Santana de Freitas Amaral M, Prada A, Šarić A. 2025. A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations. Soft Matter. 21(40), 7736–7756.","apa":"Muñoz Basagoiti, M., Frey, F. F., Meadowcroft, B., Santana de Freitas Amaral, M., Prada, A., &#38; Šarić, A. (2025). A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations. <i>Soft Matter</i>. Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/d5sm00148j\">https://doi.org/10.1039/d5sm00148j</a>","mla":"Muñoz Basagoiti, Maitane, et al. “A Tutorial for Mesoscale Computer Simulations of Lipid Membranes: Tether Pulling, Tubulation and Fluctuations.” <i>Soft Matter</i>, vol. 21, no. 40, Royal Society of Chemistry, 2025, pp. 7736–56, doi:<a href=\"https://doi.org/10.1039/d5sm00148j\">10.1039/d5sm00148j</a>.","ieee":"M. Muñoz Basagoiti, F. F. Frey, B. Meadowcroft, M. Santana de Freitas Amaral, A. Prada, and A. Šarić, “A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations,” <i>Soft Matter</i>, vol. 21, no. 40. Royal Society of Chemistry, pp. 7736–7756, 2025.","short":"M. Muñoz Basagoiti, F.F. Frey, B. Meadowcroft, M. Santana de Freitas Amaral, A. Prada, A. Šarić, Soft Matter 21 (2025) 7736–7756."},"status":"public","page":"7736-7756","issue":"40","ec_funded":1,"scopus_import":"1","file_date_updated":"2025-12-30T10:16:40Z","date_updated":"2025-12-30T10:16:52Z","publication":"Soft Matter","isi":1,"publication_identifier":{"eissn":["1744-6848"],"issn":["1744-683X"]},"arxiv":1,"date_created":"2025-09-10T05:34:36Z","title":"A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations","oa_version":"Published Version","OA_type":"hybrid","publication_status":"published","file":[{"file_name":"2025_SoftMatter_MunozBasagoiti.pdf","checksum":"590bedad19b6f6d40a7ee036a056a6d9","file_id":"20912","date_updated":"2025-12-30T10:16:40Z","relation":"main_file","creator":"dernst","access_level":"open_access","file_size":4841140,"date_created":"2025-12-30T10:16:40Z","content_type":"application/pdf","success":1}],"tmp":{"image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"corr_author":"1","article_processing_charge":"Yes (via OA deal)","publisher":"Royal Society of Chemistry","acknowledgement":"We thank Oded Farago, Angelo Cacciuto, Jeriann Beiter and Pietro Sillano for helpful discussions and a critical reading of the manuscript. MMB and AP acknowledge funding by the European Unions Horizon 2020 research and innovation programme under Marie Skłodowska-Curie Grant Agreement No. 101034413. FF acknowledges financial support by the NOMIS foundation. BM and AŠ acknowledge funding by ERC Starting Grant “NEPA” 802960. MA and AŠ acknowledge funding by the Volkswagen Foundation Grant Az 96727.","oa":1,"doi":"10.1039/d5sm00148j","volume":21,"author":[{"orcid":"0000-0003-1483-1457","first_name":"Maitane","id":"1a8a7950-82cd-11ed-bd4f-9624c913a607","last_name":"Muñoz Basagoiti","full_name":"Muñoz Basagoiti, Maitane"},{"last_name":"Frey","full_name":"Frey, Felix F","orcid":"0000-0001-8501-6017","first_name":"Felix F","id":"a0270b37-8f1a-11ec-95c7-8e710c59a4f3"},{"first_name":"Billie","id":"a4725fd6-932b-11ed-81e2-c098c7f37ae1","orcid":"0000-0003-3441-1337","full_name":"Meadowcroft, Billie","last_name":"Meadowcroft"},{"first_name":"Miguel","id":"4f2d02dd-47a9-11ec-ad10-82820ed3f501","last_name":"Santana de Freitas Amaral","full_name":"Santana de Freitas Amaral, Miguel"},{"id":"a43ed60a-dd22-11ed-9bf7-b34133792ea9","first_name":"Adam","full_name":"Prada, Adam","last_name":"Prada"},{"full_name":"Šarić, Anđela","last_name":"Šarić","first_name":"Anđela","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","orcid":"0000-0002-7854-2139"}],"article_type":"original","project":[{"name":"IST-BRIDGE: International postdoctoral program","grant_number":"101034413","call_identifier":"H2020","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c"},{"grant_number":"802960","call_identifier":"H2020","_id":"eba2549b-77a9-11ec-83b8-a81e493eae4e","name":"Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines"},{"_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A","name":"NOMIS Fellowship Program"},{"_id":"eba0f67c-77a9-11ec-83b8-cc8501b3e222","grant_number":"96752","name":"The evolution of trafficking: from archaea to eukaryotes"}],"month":"07","department":[{"_id":"AnSa"}]},{"publication_status":"published","title":"Deleterious mutations and selection for sex in spatially structured, diploid populations","date_created":"2025-10-26T23:01:34Z","oa_version":"Preprint","OA_type":"green","publication_identifier":{"eissn":["1558-5646"]},"volume":79,"author":[{"full_name":"Fouqueau, Louise","last_name":"Fouqueau","orcid":"0000-0003-0371-9339","first_name":"Louise","id":"1676e173-8143-11ed-8927-fe165216a93f"},{"last_name":"Roze","full_name":"Roze, Denis","first_name":"Denis"}],"project":[{"name":"NOMIS Fellowship Program","_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A"}],"article_type":"original","month":"10","department":[{"_id":"NiBa"}],"acknowledgement":"L.F. is funded by the NOMIS-ISTA Fellowship Program. We thank Colin Olito and two anonymous reviewers for helpful comments, and the bioinformatics and computing services at Roscoff’s Biological Station (Abims platform) and at Institute of Science and Technology Austria for computing time.","doi":"10.1093/evolut/qpaf143","oa":1,"pmid":1,"article_processing_charge":"No","publisher":"Oxford University Press","citation":{"ama":"Fouqueau L, Roze D. Deleterious mutations and selection for sex in spatially structured, diploid populations. <i>Evolution</i>. 2025;79(10):2167-2180. doi:<a href=\"https://doi.org/10.1093/evolut/qpaf143\">10.1093/evolut/qpaf143</a>","ista":"Fouqueau L, Roze D. 2025. Deleterious mutations and selection for sex in spatially structured, diploid populations. Evolution. 79(10), 2167–2180.","chicago":"Fouqueau, Louise, and Denis Roze. “Deleterious Mutations and Selection for Sex in Spatially Structured, Diploid Populations.” <i>Evolution</i>. Oxford University Press, 2025. <a href=\"https://doi.org/10.1093/evolut/qpaf143\">https://doi.org/10.1093/evolut/qpaf143</a>.","mla":"Fouqueau, Louise, and Denis Roze. “Deleterious Mutations and Selection for Sex in Spatially Structured, Diploid Populations.” <i>Evolution</i>, vol. 79, no. 10, Oxford University Press, 2025, pp. 2167–80, doi:<a href=\"https://doi.org/10.1093/evolut/qpaf143\">10.1093/evolut/qpaf143</a>.","short":"L. Fouqueau, D. Roze, Evolution 79 (2025) 2167–2180.","ieee":"L. Fouqueau and D. Roze, “Deleterious mutations and selection for sex in spatially structured, diploid populations,” <i>Evolution</i>, vol. 79, no. 10. Oxford University Press, pp. 2167–2180, 2025.","apa":"Fouqueau, L., &#38; Roze, D. (2025). Deleterious mutations and selection for sex in spatially structured, diploid populations. <i>Evolution</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/evolut/qpaf143\">https://doi.org/10.1093/evolut/qpaf143</a>"},"day":"17","language":[{"iso":"eng"}],"_id":"20531","abstract":[{"lang":"eng","text":"Genetic drift is potentially an important component of selection for sex, as it is a source of statistical associations between alleles at selected loci. By increasing local drift, population structure may thus amplify the evolutionary advantage of sex. However, most previous models have focused either on haploid populations or on diploid populations without spatial structure. In this article, we use two- and three-locus analytical models and multilocus simulations to explore selection for sex in a diploid population structured according to the island model, in the presence of recurrent deleterious mutations. Our results show that selection generally favors an intermediate rate of sex that decreases as the direct cost of sex increases and increases moderately as the degree of population structure increases. Selection for sex is generated by multiple effects involving genetic associations within and between loci. When selection occurs at many loci, it is generally dominated by interference effects involving deleterious alleles at different loci, captured by our three-locus model. In our multilocus simulations, we observed an irreversible spread of asexual mutants under strong costs of sex, and when deleterious mutations are partially recessive. However, population structure may prevent this spread of asexual mutants when dispersal rates are sufficiently small."}],"external_id":{"pmid":["40668071"],"isi":["001547542300001"]},"type":"journal_article","quality_controlled":"1","date_published":"2025-10-17T00:00:00Z","OA_place":"repository","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2025.01.22.634382"}],"intvolume":"        79","year":"2025","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Evolution","date_updated":"2025-12-01T15:03:54Z","isi":1,"issue":"10","scopus_import":"1","page":"2167-2180","status":"public"},{"pmid":1,"publisher":"Springer Nature","article_processing_charge":"Yes","tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"department":[{"_id":"PeJo"}],"month":"12","article_type":"original","project":[{"name":"NOMIS Fellowship Program","_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A"}],"volume":16,"author":[{"first_name":"Anna","full_name":"Maslarova, Anna","last_name":"Maslarova"},{"last_name":"Shin","full_name":"Shin, Jiyun N.","first_name":"Jiyun N."},{"full_name":"Navas Olivé, Andrea C","last_name":"Navas Olivé","id":"739d26c9-52e8-11ee-8d72-f14d3893b4ce","first_name":"Andrea C","orcid":"0000-0002-9280-8597"},{"first_name":"Mihály","full_name":"Vöröslakos, Mihály","last_name":"Vöröslakos"},{"full_name":"Hamer, Hajo","last_name":"Hamer","first_name":"Hajo"},{"first_name":"Arnd","last_name":"Doerfler","full_name":"Doerfler, Arnd"},{"first_name":"Simon","full_name":"Henin, Simon","last_name":"Henin"},{"full_name":"Buzsáki, György","last_name":"Buzsáki","first_name":"György"},{"last_name":"Liu","full_name":"Liu, Anli","first_name":"Anli"}],"oa":1,"doi":"10.1038/s41467-025-66562-6","acknowledgement":"We thank Karl Rössler and Sebastian Brandner for the human SEEG implantations; Katja Kobow for providing the histopathological findings of the patients; Jay Jeschke for help with human electrode localization; Esha Brahmbhatt and Deren Aykan for help with animal habituation; Mursel Karadas for the rodent treadmill design; Nicholas Paleologos, Noam Nitzan, Michael D Hadler and Samuel McKenzie for rating events in a human ripple survey included in a previous version of the manuscript; Nicholas Paleologos for sharing NYU iEEG data for validating UMAP parameters; Julio Esparza for help on the topological analysis through discussions; Thomas Hainmüller, Yiyao Zhang and Mursel Karadas for feedback on the manuscript. We would like to acknowledge Corticale SRL (Genoa, Italy) for providing the SiNAPS probes, and NeuroNexus (Ann Arbor, MI) for their contribution of the data acquisition system and Radiens software. We further acknowledge both Corticale and NeuroNexus for training and support making this research possible. This work was supported by the German Research Foundation (DFG; Walter Benjamin Fellowship MA 10301/1-1, A.M.), NYU Langone Health Finding a Cure for Epilepsy and Seizures (FACES, A.M.), the NOMIS Fellowship (A.N.-O.), the National Institutes of Health (R01NS127954, K23NS104252, A.L.; MH122391, U19NS107616, R01MH139216 G.B.,), and the NYU Department of Neurology (A.L.).","OA_type":"gold","oa_version":"Published Version","title":"Spatiotemporal patterns differentiate hippocampal sharp-wave ripples from interictal epileptiform discharges in mice and humans","date_created":"2026-01-11T23:01:35Z","publication_identifier":{"eissn":["2041-1723"]},"file":[{"file_id":"20978","date_updated":"2026-01-12T09:30:15Z","relation":"main_file","creator":"dernst","file_name":"2025_NatureComm_Maslarova.pdf","checksum":"a8a1670e197484382e087be60f643945","date_created":"2026-01-12T09:30:15Z","file_size":7629997,"success":1,"content_type":"application/pdf","access_level":"open_access"}],"publication_status":"published","scopus_import":"1","DOAJ_listed":"1","status":"public","date_updated":"2026-01-12T09:31:56Z","publication":"Nature Communications","file_date_updated":"2026-01-12T09:30:15Z","OA_place":"publisher","date_published":"2025-12-30T00:00:00Z","ddc":["570"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2025","article_number":"11636","intvolume":"        16","citation":{"short":"A. Maslarova, J.N. Shin, A.C. Navas Olivé, M. Vöröslakos, H. Hamer, A. Doerfler, S. Henin, G. Buzsáki, A. Liu, Nature Communications 16 (2025).","ieee":"A. Maslarova <i>et al.</i>, “Spatiotemporal patterns differentiate hippocampal sharp-wave ripples from interictal epileptiform discharges in mice and humans,” <i>Nature Communications</i>, vol. 16. Springer Nature, 2025.","mla":"Maslarova, Anna, et al. “Spatiotemporal Patterns Differentiate Hippocampal Sharp-Wave Ripples from Interictal Epileptiform Discharges in Mice and Humans.” <i>Nature Communications</i>, vol. 16, 11636, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1038/s41467-025-66562-6\">10.1038/s41467-025-66562-6</a>.","apa":"Maslarova, A., Shin, J. N., Navas Olivé, A. C., Vöröslakos, M., Hamer, H., Doerfler, A., … Liu, A. (2025). Spatiotemporal patterns differentiate hippocampal sharp-wave ripples from interictal epileptiform discharges in mice and humans. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-025-66562-6\">https://doi.org/10.1038/s41467-025-66562-6</a>","ista":"Maslarova A, Shin JN, Navas Olivé AC, Vöröslakos M, Hamer H, Doerfler A, Henin S, Buzsáki G, Liu A. 2025. Spatiotemporal patterns differentiate hippocampal sharp-wave ripples from interictal epileptiform discharges in mice and humans. Nature Communications. 16, 11636.","ama":"Maslarova A, Shin JN, Navas Olivé AC, et al. Spatiotemporal patterns differentiate hippocampal sharp-wave ripples from interictal epileptiform discharges in mice and humans. <i>Nature Communications</i>. 2025;16. doi:<a href=\"https://doi.org/10.1038/s41467-025-66562-6\">10.1038/s41467-025-66562-6</a>","chicago":"Maslarova, Anna, Jiyun N. Shin, Andrea C Navas Olivé, Mihály Vöröslakos, Hajo Hamer, Arnd Doerfler, Simon Henin, György Buzsáki, and Anli Liu. “Spatiotemporal Patterns Differentiate Hippocampal Sharp-Wave Ripples from Interictal Epileptiform Discharges in Mice and Humans.” <i>Nature Communications</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41467-025-66562-6\">https://doi.org/10.1038/s41467-025-66562-6</a>."},"day":"30","has_accepted_license":"1","quality_controlled":"1","type":"journal_article","external_id":{"pmid":["39975118"]},"_id":"20977","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Hippocampal sharp-wave ripples (SPW-Rs) are high-frequency oscillations critical for memory consolidation. Despite extensive characterization in rodents, their detection in humans is limited by coarse spatial sampling, interictal epileptiform discharges (IEDs), and a lack of consensus on human ripple localization and morphology. Here, we demonstrate that mouse and human hippocampal ripples share spatial, spectral and temporal features, which are clearly distinct from IEDs. In recordings from male APP/PS1 mice, SPW-Rs were distinguishable from IEDs by multiple criteria. Hippocampal ripples recorded during NREM sleep in female and male surgical epilepsy patients exhibited similar narrowband frequency peaks and multiple ripple cycles in the CA1 and subiculum regions. Conversely, IEDs showed a broad spatial extent and wide-band frequency power. We developed a semi-automated, ripple curation toolbox (ripmap) to separate event waveforms by low-dimensional embedding to reduce false-positive rate in selected ripple channels. Our approach improves ripple detection and provides a firm foundation for future human memory research."}]},{"publication_identifier":{"issn":["0092-8674"],"eissn":["1097-4172"]},"oa_version":"Published Version","OA_type":"hybrid","title":"Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory","date_created":"2025-01-26T23:01:49Z","publication_status":"published","file":[{"access_level":"open_access","date_created":"2025-01-27T08:46:33Z","file_size":14082343,"success":1,"content_type":"application/pdf","file_name":"2025_Cell_Watson.pdf","checksum":"d5a818edc32d249cdf75e1bb5b70a4b7","creator":"dernst","relation":"main_file","file_id":"18884","date_updated":"2025-01-27T08:46:33Z"}],"publisher":"Elsevier","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"corr_author":"1","article_processing_charge":"Yes (via OA deal)","pmid":1,"related_material":{"record":[{"relation":"earlier_version","status":"public","id":"18688"}]},"acknowledgement":"We thank Florian Marr for excellent technical assistance, Christina Altmutter and Julia Flor for technical support, Alois Schlögl for programming, Todor Asenov for development of the transportation box for human brain tissue, Tim Vogels for guidance on simulations, Marcus Huber for mathematical advice, Walter Kaufmann for assistance with handling frozen tissue, and Eleftheria Kralli-Beller for manuscript editing. This research was supported by the Scientific Services Units (SSUs) of ISTA, and we are grateful for assistance from Christoph Sommer and the Imaging and Optics Facility, Preclinical Facility, Lab Support Facility, Miba Machine Shop, and Scientific Computing. We are particularly grateful to the patient donors for their support of this project and also acknowledge the excellent support of the Medical University of Vienna Department of Neurosurgery staff; Romana Hoeftberger and the Division of Neuropathology and Neurochemistry; Gregor Kasprian and the Division of Neuroradiology and Musculoskeletal Radiology; and Christoph Baumgartner, Martha Feucht, and Ekaterina Pataraia for their clinical care of the patients included in this study. We thank Laura Jonkman, the NABCA biobank, and postmortem brain sample donors for their support of this research. The project received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (advanced grant no. 692692 to P.J. and Marie Skłodowska-Curie Actions Individual Fellowship no. 101026635 to J.F.W.), the Austrian Science Fund (FWF; grant PAT 4178023 to P.J. and grant DK W1232 to M.R.T. and J.G.D.), the Austrian Academy of Sciences (DOC fellowship 26137 to M.R.T.), and a NOMIS-ISTA fellowship (to A.N.-O.).","doi":"10.1016/j.cell.2024.11.022","oa":1,"project":[{"name":"Biophysics and circuit function of a giant cortical glutamatergic synapse","grant_number":"692692","call_identifier":"H2020","_id":"25B7EB9E-B435-11E9-9278-68D0E5697425"},{"grant_number":"101026635","_id":"fc2be41b-9c52-11eb-aca3-faa90aa144e9","call_identifier":"H2020","name":"Synaptic computations of the hippocampal CA3 circuitry"},{"name":"Studying Organelle Structure and Function at Nanoscale Resolution with Expansion Microscopy","_id":"6285a163-2b32-11ec-9570-8e204ca2dba5","grant_number":"26137"},{"call_identifier":"FWF","_id":"2548AE96-B435-11E9-9278-68D0E5697425","grant_number":"W1232","name":"Molecular Drug Targets"},{"name":"Synaptic networks of human brain","grant_number":"PAT 4178023","_id":"8d9195e9-16d5-11f0-9cad-d075be887a1e"},{"_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A","name":"NOMIS Fellowship Program"}],"article_type":"original","department":[{"_id":"JoDa"},{"_id":"PeJo"},{"_id":"GradSch"}],"month":"01","author":[{"full_name":"Watson, Jake","last_name":"Watson","orcid":"0000-0002-8698-3823","first_name":"Jake","id":"63836096-4690-11EA-BD4E-32803DDC885E"},{"first_name":"Victor M","id":"2F55A9DE-F248-11E8-B48F-1D18A9856A87","last_name":"Vargas Barroso","full_name":"Vargas Barroso, Victor M"},{"last_name":"Morse","full_name":"Morse, Rebecca","id":"ceb89ae7-dc8d-11ea-abe3-da3301d0eab4","first_name":"Rebecca"},{"last_name":"Navas Olivé","full_name":"Navas Olivé, Andrea C","orcid":"0000-0002-9280-8597","id":"739d26c9-52e8-11ee-8d72-f14d3893b4ce","first_name":"Andrea C"},{"last_name":"Tavakoli","full_name":"Tavakoli, Mojtaba","id":"3A0A06F4-F248-11E8-B48F-1D18A9856A87","first_name":"Mojtaba","orcid":"0000-0002-7667-6854"},{"id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","first_name":"Johann G","orcid":"0000-0001-8559-3973","full_name":"Danzl, Johann G","last_name":"Danzl"},{"first_name":"Matthias","full_name":"Tomschik, Matthias","last_name":"Tomschik"},{"first_name":"Karl","last_name":"Rössler","full_name":"Rössler, Karl"},{"full_name":"Jonas, Peter M","last_name":"Jonas","orcid":"0000-0001-5001-4804","first_name":"Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87"}],"volume":188,"year":"2025","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["570"],"intvolume":"       188","date_published":"2025-01-23T00:00:00Z","OA_place":"publisher","type":"journal_article","quality_controlled":"1","_id":"18879","language":[{"iso":"eng"}],"abstract":[{"text":"Our brain has remarkable computational power, generating sophisticated behaviors, storing memories over an individual’s lifetime, and producing higher cognitive functions. However, little of our neuroscience knowledge covers the human brain. Is this organ truly unique, or is it a scaled version of the extensively studied rodent brain? Combining multicellular patch-clamp recording with expansion-based superresolution microscopy and full-scale modeling, we determined the cellular and microcircuit properties of the human hippocampal CA3 region, a fundamental circuit for memory storage. In contrast to neocortical networks, human hippocampal CA3 displayed sparse connectivity, providing a circuit architecture that maximizes associational power. Human synapses showed unique reliability, high precision, and long integration times, exhibiting both species- and circuit-specific properties. Together with expanded neuronal numbers, these circuit characteristics greatly enhanced the memory storage capacity of CA3. Our results reveal distinct microcircuit properties of the human hippocampus and begin to unravel the inner workings of our most complex organ. ","lang":"eng"}],"external_id":{"pmid":["39667938"],"isi":["001408395600001"]},"has_accepted_license":"1","citation":{"apa":"Watson, J., Vargas Barroso, V. M., Morse, R., Navas Olivé, A. C., Tavakoli, M., Danzl, J. G., … Jonas, P. M. (2025). Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2024.11.022\">https://doi.org/10.1016/j.cell.2024.11.022</a>","short":"J. Watson, V.M. Vargas Barroso, R. Morse, A.C. Navas Olivé, M. Tavakoli, J.G. Danzl, M. Tomschik, K. Rössler, P.M. Jonas, Cell 188 (2025) 501–514.e18.","ieee":"J. Watson <i>et al.</i>, “Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory,” <i>Cell</i>, vol. 188, no. 2. Elsevier, p. 501–514.e18, 2025.","mla":"Watson, Jake, et al. “Human Hippocampal CA3 Uses Specific Functional Connectivity Rules for Efficient Associative Memory.” <i>Cell</i>, vol. 188, no. 2, Elsevier, 2025, p. 501–514.e18, doi:<a href=\"https://doi.org/10.1016/j.cell.2024.11.022\">10.1016/j.cell.2024.11.022</a>.","chicago":"Watson, Jake, Victor M Vargas Barroso, Rebecca Morse, Andrea C Navas Olivé, Mojtaba Tavakoli, Johann G Danzl, Matthias Tomschik, Karl Rössler, and Peter M Jonas. “Human Hippocampal CA3 Uses Specific Functional Connectivity Rules for Efficient Associative Memory.” <i>Cell</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.cell.2024.11.022\">https://doi.org/10.1016/j.cell.2024.11.022</a>.","ista":"Watson J, Vargas Barroso VM, Morse R, Navas Olivé AC, Tavakoli M, Danzl JG, Tomschik M, Rössler K, Jonas PM. 2025. Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory. Cell. 188(2), 501–514.e18.","ama":"Watson J, Vargas Barroso VM, Morse R, et al. Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory. <i>Cell</i>. 2025;188(2):501-514.e18. doi:<a href=\"https://doi.org/10.1016/j.cell.2024.11.022\">10.1016/j.cell.2024.11.022</a>"},"day":"23","page":"501-514.e18","status":"public","scopus_import":"1","ec_funded":1,"issue":"2","file_date_updated":"2025-01-27T08:46:33Z","acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"},{"_id":"LifeSc"},{"_id":"M-Shop"},{"_id":"ScienComp"}],"isi":1,"date_updated":"2026-04-14T08:34:32Z","publication":"Cell"},{"isi":1,"date_updated":"2025-09-08T08:08:00Z","publication":"Journal of evolutionary biology","scopus_import":"1","issue":"6","page":"579-587","status":"public","day":"28","citation":{"ista":"Fouqueau L, Polechova J. 2024. Eco-evolutionary dynamics in changing environments: Integrating theory with data. Journal of evolutionary biology. 37(6), 579–587.","ama":"Fouqueau L, Polechova J. Eco-evolutionary dynamics in changing environments: Integrating theory with data. <i>Journal of evolutionary biology</i>. 2024;37(6):579-587. doi:<a href=\"https://doi.org/10.1093/jeb/voae067\">10.1093/jeb/voae067</a>","chicago":"Fouqueau, Louise, and Jitka Polechova. “Eco-Evolutionary Dynamics in Changing Environments: Integrating Theory with Data.” <i>Journal of Evolutionary Biology</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/jeb/voae067\">https://doi.org/10.1093/jeb/voae067</a>.","ieee":"L. Fouqueau and J. Polechova, “Eco-evolutionary dynamics in changing environments: Integrating theory with data,” <i>Journal of evolutionary biology</i>, vol. 37, no. 6. Oxford University Press, pp. 579–587, 2024.","short":"L. Fouqueau, J. Polechova, Journal of Evolutionary Biology 37 (2024) 579–587.","mla":"Fouqueau, Louise, and Jitka Polechova. “Eco-Evolutionary Dynamics in Changing Environments: Integrating Theory with Data.” <i>Journal of Evolutionary Biology</i>, vol. 37, no. 6, Oxford University Press, 2024, pp. 579–87, doi:<a href=\"https://doi.org/10.1093/jeb/voae067\">10.1093/jeb/voae067</a>.","apa":"Fouqueau, L., &#38; Polechova, J. (2024). Eco-evolutionary dynamics in changing environments: Integrating theory with data. <i>Journal of Evolutionary Biology</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/jeb/voae067\">https://doi.org/10.1093/jeb/voae067</a>"},"quality_controlled":"1","type":"journal_article","external_id":{"pmid":["38941551"],"isi":["001258359900001"]},"_id":"17207","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://doi.org/10.1093/jeb/voae067","open_access":"1"}],"date_published":"2024-06-28T00:00:00Z","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2024","intvolume":"        37","month":"06","department":[{"_id":"NiBa"}],"article_type":"letter_note","project":[{"_id":"c08d3278-5a5b-11eb-8a69-fdb09b55f4b8","grant_number":"P32896","name":"Causes and consequences of population fragmentation"},{"_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A","name":"NOMIS Fellowship Program"}],"volume":37,"author":[{"first_name":"Louise","id":"1676e173-8143-11ed-8927-fe165216a93f","orcid":"0000-0003-0371-9339","full_name":"Fouqueau, Louise","last_name":"Fouqueau"},{"id":"3BBFB084-F248-11E8-B48F-1D18A9856A87","first_name":"Jitka","orcid":"0000-0003-0951-3112","full_name":"Polechova, Jitka","last_name":"Polechova"}],"doi":"10.1093/jeb/voae067","oa":1,"acknowledgement":"This research was funded by the Austrian Science Fund (FWF), project doi: 10.55776/P32896, Institutional Identifier: 501100002428, grant number: P32896 and L.F. acknowledges the support of the NOMIS-ISTA Fellowship Program.\r\nWe would like to thank Nick Barton, Roger Butlin, Stuart Baird, Patrik Nosil, and Jason Sexton for their insightful comments on the earlier drafts, and to John Carchrae for his valuable contribution in refining phrasing and enhancing clarity. For open access purposes, the author has applied a CC BY public copyright license to any author-accepted manuscript version arising from this submission.","pmid":1,"publisher":"Oxford University Press","article_processing_charge":"No","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","oa_version":"Published Version","title":"Eco-evolutionary dynamics in changing environments: Integrating theory with data","date_created":"2024-07-07T22:01:04Z","publication_identifier":{"eissn":["1420-9101"]}},{"degree_awarded":"PhD","doi":"10.15479/at:ista:17133","oa":1,"project":[{"_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A","name":"NOMIS Fellowship Program"},{"_id":"bdb108fd-d553-11ed-ba76-83dc74a9864f","grant_number":"F07105","name":"QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration of Superconducting Quantum Circuits"}],"month":"06","department":[{"_id":"GradSch"},{"_id":"JoFi"}],"author":[{"first_name":"Farid","id":"2AED110C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6937-5773","full_name":"Hassani, Farid","last_name":"Hassani"}],"publisher":"Institute of Science and Technology Austria","corr_author":"1","tmp":{"short":"CC BY-NC-SA (4.0)","image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)"},"article_processing_charge":"No","related_material":{"record":[{"relation":"part_of_dissertation","id":"13227","status":"public"},{"id":"9928","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"8755"}]},"publication_status":"published","supervisor":[{"full_name":"Fink, Johannes M","last_name":"Fink","orcid":"0000-0001-8112-028X","first_name":"Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87"}],"file":[{"access_level":"open_access","content_type":"application/pdf","date_created":"2024-06-12T07:53:19Z","file_size":28370759,"checksum":"258c353d47fa37ea63ea43b1e10a34a0","file_name":"Thesis_main_final.pdf","creator":"fhassani","date_updated":"2024-06-20T11:52:22Z","relation":"main_file","file_id":"17137"},{"relation":"source_file","creator":"fhassani","date_updated":"2024-06-12T07:54:27Z","file_id":"17138","file_name":"Thesis_main.tex","checksum":"deffa5d0db88093f74812fa71520d5e1","date_created":"2024-06-12T07:54:27Z","file_size":445735,"content_type":"text/x-tex","access_level":"closed"}],"publication_identifier":{"isbn":["978-3-99078-040-4"],"issn":["2663-337X"]},"keyword":["Quantum information","Qubits","Superconducting devices"],"oa_version":"Published Version","title":"Superconducting qubits capable of dynamic switching between protected and high-speed control regimes","alternative_title":["ISTA Thesis"],"date_created":"2024-06-11T18:20:05Z","file_date_updated":"2024-06-20T11:52:22Z","acknowledged_ssus":[{"_id":"NanoFab"},{"_id":"M-Shop"}],"date_updated":"2026-04-15T06:43:02Z","page":"161","status":"public","type":"dissertation","_id":"17133","abstract":[{"text":"An ideal quantum computer relies on qubits capable of performing fast gate operations and\r\nmaintaining strong interconnections while preserving their quantum coherence. Since the\r\ninception of experimental eforts toward building a quantum computer, the community has\r\nfaced challenges in engineering such a system. Among the various methods of implementing a\r\nquantum computer, superconducting qubits have shown fast gates close to tens of nanoseconds,\r\nwith the state-of-the-art reaching a coherence of a few milliseconds. However, achieving\r\nsimultaneously long lifetimes with fast qubit operations poses an inherent paradox. Qubits\r\nwith high coherence require isolation from the environment, while fast operation necessitates\r\nstrong coupling of the qubit. This thesis approaches this issue by proposing the idea of\r\nengineering superconducting qubits capable of transitioning between operating in a protected\r\nregime, where the qubit is completely isolated from the environment, and coupling to the\r\ncommunication channels as needed. In this direction, we use the geometric superinductor to\r\nscan the parameter space of rf-SQUID devices, searching for a regime where we can take the\r\nqubit protection to its extreme.\r\n\r\nThis leads us to the inductively shunted transmon (IST) regime, characterized by EJ /EC ≫ 1\r\nand EJ /EL ≫ 1, where the circuit potential exhibits a double well with a large barrier\r\nseparating the local ground states of each quantum well. In this regime, although it is\r\nanticipated that the two quantum wells would be isolated from each other, we observe single\r\nfuxon tunneling between them. The interplay of the cavity photons and the fuxon transition\r\nforms a rich physical system, containing resonance conditions that allow the preparation of the\r\nfuxon ground or excited states. This enables us to study the relaxation rate of such transition\r\nand show that it can be as large as 3.6 hours. Dynamically controlling the barrier height\r\nbetween the two quantum wells allows for controllable coupling, which scales exponentially,\r\nfor a qubit encoded in two fuxon states.\r\nThe 0-π qubit is one of the very few known superconducting circuit types that ofers exponential\r\nprotection from both relaxation and dephasing simultaneously. However, this qubit is not\r\nexempt from the fact that such protection comes at the expense of complex readout and\r\ncontrol. In this thesis, we propose a way to controllably break the circuit symmetry, the\r\nkey reason for the protection, to momentarily restore the ability to control and manipulate\r\nthe qubit. An asymmetry in capacitances and inductances in the 0-π circuit is detrimental\r\nsince they lead to coupling of the protected state to the thermally occupied parasitic mode\r\nof the circuit. However, here we try to exploit a controlled asymmetry in Josephson energies\r\nand show that this can be used as a tunable coupler between the protected states. In the\r\nfuture, this should allow to perform gate operations by dynamically controlling the asymmetry\r\ninstead of driving the protected transition with microwave pulses. Therefore, we believe that\r\nthe proposed method can make the use of protected qubits more practical in experimental\r\nrealizations of quantum computing.","lang":"eng"}],"language":[{"iso":"eng"}],"has_accepted_license":"1","citation":{"chicago":"Hassani, Farid. “Superconducting Qubits Capable of Dynamic Switching between Protected and High-Speed Control Regimes.” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/at:ista:17133\">https://doi.org/10.15479/at:ista:17133</a>.","ama":"Hassani F. Superconducting qubits capable of dynamic switching between protected and high-speed control regimes. 2024. doi:<a href=\"https://doi.org/10.15479/at:ista:17133\">10.15479/at:ista:17133</a>","ista":"Hassani F. 2024. Superconducting qubits capable of dynamic switching between protected and high-speed control regimes. Institute of Science and Technology Austria.","apa":"Hassani, F. (2024). <i>Superconducting qubits capable of dynamic switching between protected and high-speed control regimes</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:17133\">https://doi.org/10.15479/at:ista:17133</a>","mla":"Hassani, Farid. <i>Superconducting Qubits Capable of Dynamic Switching between Protected and High-Speed Control Regimes</i>. Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/at:ista:17133\">10.15479/at:ista:17133</a>.","short":"F. Hassani, Superconducting Qubits Capable of Dynamic Switching between Protected and High-Speed Control Regimes, Institute of Science and Technology Austria, 2024.","ieee":"F. Hassani, “Superconducting qubits capable of dynamic switching between protected and high-speed control regimes,” Institute of Science and Technology Austria, 2024."},"day":"11","year":"2024","ddc":["530"],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_published":"2024-06-11T00:00:00Z","OA_place":"publisher"},{"acknowledgement":"BC thanks Daan Frenkel for stimulating discussions. We thank Aleks Reinhardt, Daan Frenkel, Marius Millot, Federica Coppari, Rhys Bunting, and Chris J. Pickard for critically reading the manuscript and providing useful suggestions. BC acknowledges resources provided by the Cambridge Tier-2 system operated by the University of Cambridge Research Computing Service funded by EPSRC Tier-2 capital grant EP/P020259/1. SH acknowledges support from LDRD 19-ERD-031 and computing support from the Lawrence Livermore National Laboratory (LLNL) Institutional Computing Grand Challenge program. Lawrence Livermore National Laboratory is operated by Lawrence Livermore National Security, LLC, for the U.S. Department of Energy, National Nuclear Security Administration under Contract DE-AC52-07NA27344. MB acknowledges support by the European Horizon 2020 program within the Marie Skłodowska-Curie actions (xICE grant number 894725), funding from the NOMIS foundation and computational resources at the North-German Supercomputing Alliance (HLRN) facilities.","oa":1,"doi":"10.1038/s41467-023-36841-1","volume":14,"author":[{"full_name":"Cheng, Bingqing","last_name":"Cheng","first_name":"Bingqing","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","orcid":"0000-0002-3584-9632"},{"first_name":"Sebastien","full_name":"Hamel, Sebastien","last_name":"Hamel"},{"orcid":"0000-0002-1838-2129","id":"201939f4-803f-11ed-ab7e-d8da4bd1517f","first_name":"Mandy","full_name":"Bethkenhagen, Mandy","last_name":"Bethkenhagen"}],"article_type":"original","project":[{"name":"NOMIS Fellowship Program","_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A"}],"month":"02","department":[{"_id":"BiCh"}],"corr_author":"1","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"No","publisher":"Springer Nature","pmid":1,"publication_status":"published","file":[{"file_id":"12713","date_updated":"2023-03-07T10:58:00Z","relation":"main_file","creator":"cchlebak","checksum":"5ff61ad21511950c15abb73b18613883","file_name":"2023_NatComm_Cheng.pdf","content_type":"application/pdf","success":1,"file_size":1946443,"date_created":"2023-03-07T10:58:00Z","access_level":"open_access"}],"publication_identifier":{"eissn":["2041-1723"]},"title":"Thermodynamics of diamond formation from hydrocarbon mixtures in planets","date_created":"2023-03-05T23:01:04Z","oa_version":"Published Version","file_date_updated":"2023-03-07T10:58:00Z","date_updated":"2025-04-15T07:39:24Z","publication":"Nature Communications","isi":1,"status":"public","scopus_import":"1","_id":"12702","abstract":[{"lang":"eng","text":"Hydrocarbon mixtures are extremely abundant in the Universe, and diamond formation from them can play a crucial role in shaping the interior structure and evolution of planets. With first-principles accuracy, we first estimate the melting line of diamond, and then reveal the nature of chemical bonding in hydrocarbons at extreme conditions. We finally establish the pressure-temperature phase boundary where it is thermodynamically possible for diamond to form from hydrocarbon mixtures with different atomic fractions of carbon. Notably, here we show a depletion zone at pressures above 200 GPa and temperatures below 3000 K-3500 K where diamond formation is thermodynamically favorable regardless of the carbon atomic fraction, due to a phase separation mechanism. The cooler condition of the interior of Neptune compared to Uranus means that the former is much more likely to contain the depletion zone. Our findings can help explain the dichotomy of the two ice giants manifested by the low luminosity of Uranus, and lead to a better understanding of (exo-)planetary formation and evolution."}],"language":[{"iso":"eng"}],"external_id":{"pmid":["36843123"],"isi":["000939678300002"]},"type":"journal_article","quality_controlled":"1","has_accepted_license":"1","day":"27","citation":{"ista":"Cheng B, Hamel S, Bethkenhagen M. 2023. Thermodynamics of diamond formation from hydrocarbon mixtures in planets. Nature Communications. 14, 1104.","ama":"Cheng B, Hamel S, Bethkenhagen M. Thermodynamics of diamond formation from hydrocarbon mixtures in planets. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-36841-1\">10.1038/s41467-023-36841-1</a>","chicago":"Cheng, Bingqing, Sebastien Hamel, and Mandy Bethkenhagen. “Thermodynamics of Diamond Formation from Hydrocarbon Mixtures in Planets.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-36841-1\">https://doi.org/10.1038/s41467-023-36841-1</a>.","short":"B. Cheng, S. Hamel, M. Bethkenhagen, Nature Communications 14 (2023).","ieee":"B. Cheng, S. Hamel, and M. Bethkenhagen, “Thermodynamics of diamond formation from hydrocarbon mixtures in planets,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","mla":"Cheng, Bingqing, et al. “Thermodynamics of Diamond Formation from Hydrocarbon Mixtures in Planets.” <i>Nature Communications</i>, vol. 14, 1104, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-36841-1\">10.1038/s41467-023-36841-1</a>.","apa":"Cheng, B., Hamel, S., &#38; Bethkenhagen, M. (2023). Thermodynamics of diamond formation from hydrocarbon mixtures in planets. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-36841-1\">https://doi.org/10.1038/s41467-023-36841-1</a>"},"intvolume":"        14","article_number":"1104","year":"2023","ddc":["540"],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_published":"2023-02-27T00:00:00Z"},{"publication_identifier":{"eissn":["2211-1247"]},"oa_version":"Published Version","date_created":"2022-04-10T22:01:39Z","title":"Developmentally regulated impairment of parvalbumin interneuron synaptic transmission in an experimental model of Dravet syndrome","publication_status":"published","file":[{"access_level":"open_access","success":1,"content_type":"application/pdf","file_size":4774216,"date_created":"2022-04-15T11:00:58Z","checksum":"49105c6c27c9af0f37f50a8bbb4d380d","file_name":"2022_CellReports_Kaneko.pdf","relation":"main_file","date_updated":"2022-04-15T11:00:58Z","creator":"dernst","file_id":"11172"}],"publisher":"Elsevier","tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"article_processing_charge":"No","pmid":1,"acknowledgement":"We would like to thank Bernardo Rudy, Joanna Mattis, and Laura Mcgarry for comments on a previous version of the manuscript; Xiaohong Zhang for expert technical support and mouse colony maintenance; Melody Cheng for assistance with generation of the graphical abstract; and Jennifer Kearney for the gift of Scn1a+/− mice. This work was supported by the National Institute of Neurological Disorders and Stroke of the National Institutes of Health under F31NS111803 (to K.M.G.) and K08NS097633 and R01NS110869 (to E.M.G.), the Dravet Syndrome Foundation (to A.S.), an ERC Consolidator Grant (SYNAPSEEK) (to T.P.V.), and the NOMIS Foundation through the NOMIS Fellowships program at IST Austria (to C.C.). The graphical abstract was prepared using BioRender software (BioRender.com).","oa":1,"doi":"10.1016/j.celrep.2022.110580","article_type":"original","project":[{"call_identifier":"H2020","_id":"0aacfa84-070f-11eb-9043-d7eb2c709234","grant_number":"819603","name":"Learning the shape of synaptic plasticity rules for neuronal architectures and function through machine learning."},{"_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A","name":"NOMIS Fellowship Program"}],"month":"03","department":[{"_id":"TiVo"}],"volume":38,"author":[{"first_name":"Keisuke","full_name":"Kaneko, Keisuke","last_name":"Kaneko"},{"last_name":"Currin","full_name":"Currin, Christopher","first_name":"Christopher","id":"e8321fc5-3091-11eb-8a53-83f309a11ac9","orcid":"0000-0002-4809-5059"},{"first_name":"Kevin M.","last_name":"Goff","full_name":"Goff, Kevin M."},{"first_name":"Eric R.","full_name":"Wengert, Eric R.","last_name":"Wengert"},{"last_name":"Somarowthu","full_name":"Somarowthu, Ala","first_name":"Ala"},{"orcid":"0000-0003-3295-6181","first_name":"Tim P","id":"CB6FF8D2-008F-11EA-8E08-2637E6697425","full_name":"Vogels, Tim P","last_name":"Vogels"},{"first_name":"Ethan M.","last_name":"Goldberg","full_name":"Goldberg, Ethan M."}],"year":"2022","ddc":["570"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_number":"110580","intvolume":"        38","date_published":"2022-03-29T00:00:00Z","type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"_id":"11143","abstract":[{"lang":"eng","text":"Dravet syndrome is a neurodevelopmental disorder characterized by epilepsy, intellectual disability, and sudden death due to pathogenic variants in SCN1A with loss of function of the sodium channel subunit Nav1.1. Nav1.1-expressing parvalbumin GABAergic interneurons (PV-INs) from young Scn1a+/− mice show impaired action potential generation. An approach assessing PV-IN function in the same mice at two time points shows impaired spike generation in all Scn1a+/− mice at postnatal days (P) 16–21, whether deceased prior or surviving to P35, with normalization by P35 in surviving mice. However, PV-IN synaptic transmission is dysfunctional in young Scn1a+/− mice that did not survive and in Scn1a+/− mice ≥ P35. Modeling confirms that PV-IN axonal propagation is more sensitive to decreased sodium conductance than spike generation. These results demonstrate dynamic dysfunction in Dravet syndrome: combined abnormalities of PV-IN spike generation and propagation drives early disease severity, while ongoing dysfunction of synaptic transmission contributes to chronic pathology."}],"external_id":{"pmid":["35354025"],"isi":["000779794000001"]},"has_accepted_license":"1","day":"29","citation":{"ieee":"K. Kaneko <i>et al.</i>, “Developmentally regulated impairment of parvalbumin interneuron synaptic transmission in an experimental model of Dravet syndrome,” <i>Cell Reports</i>, vol. 38, no. 13. Elsevier, 2022.","short":"K. Kaneko, C. Currin, K.M. Goff, E.R. Wengert, A. Somarowthu, T.P. Vogels, E.M. Goldberg, Cell Reports 38 (2022).","mla":"Kaneko, Keisuke, et al. “Developmentally Regulated Impairment of Parvalbumin Interneuron Synaptic Transmission in an Experimental Model of Dravet Syndrome.” <i>Cell Reports</i>, vol. 38, no. 13, 110580, Elsevier, 2022, doi:<a href=\"https://doi.org/10.1016/j.celrep.2022.110580\">10.1016/j.celrep.2022.110580</a>.","apa":"Kaneko, K., Currin, C., Goff, K. M., Wengert, E. R., Somarowthu, A., Vogels, T. P., &#38; Goldberg, E. M. (2022). Developmentally regulated impairment of parvalbumin interneuron synaptic transmission in an experimental model of Dravet syndrome. <i>Cell Reports</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.celrep.2022.110580\">https://doi.org/10.1016/j.celrep.2022.110580</a>","ista":"Kaneko K, Currin C, Goff KM, Wengert ER, Somarowthu A, Vogels TP, Goldberg EM. 2022. Developmentally regulated impairment of parvalbumin interneuron synaptic transmission in an experimental model of Dravet syndrome. Cell Reports. 38(13), 110580.","ama":"Kaneko K, Currin C, Goff KM, et al. Developmentally regulated impairment of parvalbumin interneuron synaptic transmission in an experimental model of Dravet syndrome. <i>Cell Reports</i>. 2022;38(13). doi:<a href=\"https://doi.org/10.1016/j.celrep.2022.110580\">10.1016/j.celrep.2022.110580</a>","chicago":"Kaneko, Keisuke, Christopher Currin, Kevin M. Goff, Eric R. Wengert, Ala Somarowthu, Tim P Vogels, and Ethan M. Goldberg. “Developmentally Regulated Impairment of Parvalbumin Interneuron Synaptic Transmission in an Experimental Model of Dravet Syndrome.” <i>Cell Reports</i>. Elsevier, 2022. <a href=\"https://doi.org/10.1016/j.celrep.2022.110580\">https://doi.org/10.1016/j.celrep.2022.110580</a>."},"status":"public","scopus_import":"1","ec_funded":1,"issue":"13","file_date_updated":"2022-04-15T11:00:58Z","isi":1,"date_updated":"2025-06-11T14:00:11Z","publication":"Cell Reports"},{"file_date_updated":"2022-07-29T10:17:10Z","isi":1,"publication":"Biophysical Journal","date_updated":"2025-06-11T13:59:29Z","status":"public","page":"P44-60","scopus_import":"1","issue":"1","quality_controlled":"1","type":"journal_article","external_id":{"isi":["000740815400007"],"pmid":["34890578"]},"_id":"10530","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Cell dispersion from a confined area is fundamental in a number of biological processes,\r\nincluding cancer metastasis. To date, a quantitative understanding of the interplay of single\r\ncell motility, cell proliferation, and intercellular contacts remains elusive. In particular, the role\r\nof E- and N-Cadherin junctions, central components of intercellular contacts, is still\r\ncontroversial. Combining theoretical modeling with in vitro observations, we investigate the\r\ncollective spreading behavior of colonies of human cancer cells (T24). The spreading of these\r\ncolonies is driven by stochastic single-cell migration with frequent transient cell-cell contacts.\r\nWe find that inhibition of E- and N-Cadherin junctions decreases colony spreading and average\r\nspreading velocities, without affecting the strength of correlations in spreading velocities of\r\nneighboring cells. Based on a biophysical simulation model for cell migration, we show that the\r\nbehavioral changes upon disruption of these junctions can be explained by reduced repulsive\r\nexcluded volume interactions between cells. This suggests that in cancer cell migration,\r\ncadherin-based intercellular contacts sharpen cell boundaries leading to repulsive rather than\r\ncohesive interactions between cells, thereby promoting efficient cell spreading during collective\r\nmigration.\r\n"}],"day":"04","citation":{"mla":"Zisis, Themistoklis, et al. “Disentangling Cadherin-Mediated Cell-Cell Interactions in Collective Cancer Cell Migration.” <i>Biophysical Journal</i>, vol. 121, no. 1, Elsevier, 2022, pp. P44-60, doi:<a href=\"https://doi.org/10.1016/j.bpj.2021.12.006\">10.1016/j.bpj.2021.12.006</a>.","short":"T. Zisis, D. Brückner, T. Brandstätter, W.X. Siow, J. d’Alessandro, A.M. Vollmar, C.P. Broedersz, S. Zahler, Biophysical Journal 121 (2022) P44-60.","ieee":"T. Zisis <i>et al.</i>, “Disentangling cadherin-mediated cell-cell interactions in collective cancer cell migration,” <i>Biophysical Journal</i>, vol. 121, no. 1. Elsevier, pp. P44-60, 2022.","apa":"Zisis, T., Brückner, D., Brandstätter, T., Siow, W. X., d’Alessandro, J., Vollmar, A. M., … Zahler, S. (2022). Disentangling cadherin-mediated cell-cell interactions in collective cancer cell migration. <i>Biophysical Journal</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.bpj.2021.12.006\">https://doi.org/10.1016/j.bpj.2021.12.006</a>","ama":"Zisis T, Brückner D, Brandstätter T, et al. Disentangling cadherin-mediated cell-cell interactions in collective cancer cell migration. <i>Biophysical Journal</i>. 2022;121(1):P44-60. doi:<a href=\"https://doi.org/10.1016/j.bpj.2021.12.006\">10.1016/j.bpj.2021.12.006</a>","ista":"Zisis T, Brückner D, Brandstätter T, Siow WX, d’Alessandro J, Vollmar AM, Broedersz CP, Zahler S. 2022. Disentangling cadherin-mediated cell-cell interactions in collective cancer cell migration. Biophysical Journal. 121(1), P44-60.","chicago":"Zisis, Themistoklis, David Brückner, Tom Brandstätter, Wei Xiong Siow, Joseph d’Alessandro, Angelika M. Vollmar, Chase P. Broedersz, and Stefan Zahler. “Disentangling Cadherin-Mediated Cell-Cell Interactions in Collective Cancer Cell Migration.” <i>Biophysical Journal</i>. Elsevier, 2022. <a href=\"https://doi.org/10.1016/j.bpj.2021.12.006\">https://doi.org/10.1016/j.bpj.2021.12.006</a>."},"has_accepted_license":"1","ddc":["570"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2022","intvolume":"       121","date_published":"2022-01-04T00:00:00Z","doi":"10.1016/j.bpj.2021.12.006","oa":1,"acknowledgement":"Funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) - Project-ID 201269156 - SFB 1032 (Projects B8 and B12). D.B.B. is supported in part by a DFG fellowship within the Graduate School of Quantitative Biosciences Munich (QBM) and by the Joachim Herz Stiftung.","department":[{"_id":"EdHa"},{"_id":"GaTk"}],"month":"01","article_type":"original","project":[{"_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A","name":"NOMIS Fellowship Program"}],"volume":121,"author":[{"full_name":"Zisis, Themistoklis","last_name":"Zisis","first_name":"Themistoklis"},{"full_name":"Brückner, David","last_name":"Brückner","first_name":"David","id":"e1e86031-6537-11eb-953a-f7ab92be508d","orcid":"0000-0001-7205-2975"},{"first_name":"Tom","full_name":"Brandstätter, Tom","last_name":"Brandstätter"},{"full_name":"Siow, Wei Xiong","last_name":"Siow","first_name":"Wei Xiong"},{"first_name":"Joseph","full_name":"d’Alessandro, Joseph","last_name":"d’Alessandro"},{"full_name":"Vollmar, Angelika M.","last_name":"Vollmar","first_name":"Angelika M."},{"last_name":"Broedersz","full_name":"Broedersz, Chase P.","first_name":"Chase P."},{"first_name":"Stefan","last_name":"Zahler","full_name":"Zahler, Stefan"}],"publisher":"Elsevier","article_processing_charge":"No","tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"pmid":1,"publication_status":"published","file":[{"file_size":4475504,"date_created":"2022-07-29T10:17:10Z","content_type":"application/pdf","success":1,"access_level":"open_access","date_updated":"2022-07-29T10:17:10Z","relation":"main_file","creator":"dernst","file_id":"11697","file_name":"2022_BiophysicalJour_Zisis.pdf","checksum":"1aa7c3478e0c8256b973b632efd1f6b4"}],"keyword":["Biophysics"],"publication_identifier":{"issn":["0006-3495"]},"oa_version":"Published Version","date_created":"2021-12-10T09:48:19Z","title":"Disentangling cadherin-mediated cell-cell interactions in collective cancer cell migration"}]