{"id":"https://openalex.org/W4310009813","doi":"https://doi.org/10.1093/bib/bbac491","title":"Ultraliser: a framework for creating multiscale, high-fidelity and geometrically realistic 3D models for <i>in silico</i> neuroscience","display_name":"Ultraliser: a framework for creating multiscale, high-fidelity and geometrically realistic 3D models for <i>in silico</i> neuroscience","publication_year":2022,"publication_date":"2022-10-17","ids":{"openalex":"https://openalex.org/W4310009813","doi":"https://doi.org/10.1093/bib/bbac491","pmid":"https://pubmed.ncbi.nlm.nih.gov/36434788"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac491","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac491","pdf_url":"https://academic.oup.com/bib/article-pdf/24/1/bbac491/48782274/bbac491.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bib/article-pdf/24/1/bbac491/48782274/bbac491.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5020521236","display_name":"Marwan Abdellah","orcid":"https://orcid.org/0000-0002-7549-9657"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Marwan Abdellah","raw_affiliation_strings":["Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-7549-9657","affiliations":[{"raw_affiliation_string":"Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073776466","display_name":"Juan Jos\u00e9 Garc\u00eda Cantero","orcid":null},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Juan Jos\u00e9 Garc\u00eda Cantero","raw_affiliation_strings":["Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033440393","display_name":"Nadir Rom\u00e1n Guerrero","orcid":"https://orcid.org/0000-0001-7528-2549"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Nadir Rom\u00e1n Guerrero","raw_affiliation_strings":["Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014288688","display_name":"Alessandro Foni","orcid":null},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Alessandro Foni","raw_affiliation_strings":["Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026765183","display_name":"Jay S. Coggan","orcid":"https://orcid.org/0000-0002-2270-1989"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Jay S Coggan","raw_affiliation_strings":["Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025332800","display_name":"Corrado Cal\u00ec","orcid":"https://orcid.org/0000-0003-4856-0835"},"institutions":[{"id":"https://openalex.org/I4210113153","display_name":"Neuroscience Institute","ror":"https://ror.org/0240rwx68","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210113153","https://openalex.org/I4210155236"]},{"id":"https://openalex.org/I55143463","display_name":"University of Turin","ror":"https://ror.org/048tbm396","country_code":"IT","type":"education","lineage":["https://openalex.org/I55143463"]},{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["IT","SA"],"is_corresponding":false,"raw_author_name":"Corrado Cal\u00ec","raw_affiliation_strings":["Biological and Environmental Sciences and Engineering Division King Abdullah University of Science and Technology (KAUST) Thuwal , Saudi Arabia","Department of Neuroscience, University of Torino Torino , Italy","Neuroscience Institute Cavalieri Ottolenghi (NICO) Orbassano , Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biological and Environmental Sciences and Engineering Division King Abdullah University of Science and Technology (KAUST) Thuwal , Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"Department of Neuroscience, University of Torino Torino , Italy","institution_ids":["https://openalex.org/I55143463"]},{"raw_affiliation_string":"Neuroscience Institute Cavalieri Ottolenghi (NICO) Orbassano , Italy","institution_ids":["https://openalex.org/I4210113153"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013856888","display_name":"Marco Agus","orcid":"https://orcid.org/0000-0003-2752-3525"},"institutions":[{"id":"https://openalex.org/I4210144839","display_name":"Hamad bin Khalifa University","ror":"https://ror.org/03eyq4y97","country_code":"QA","type":"education","lineage":["https://openalex.org/I4210144839"]},{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["QA","SA"],"is_corresponding":false,"raw_author_name":"Marco Agus","raw_affiliation_strings":["College of Science and Engineering Hamad Bin Khalifa University Doha , Qatar","Visual Computing Center King Abdullah University of Science and Technology (KAUST) Thuwal , Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science and Engineering Hamad Bin Khalifa University Doha , Qatar","institution_ids":["https://openalex.org/I4210144839"]},{"raw_affiliation_string":"Visual Computing Center King Abdullah University of Science and Technology (KAUST) Thuwal , Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071132988","display_name":"Eleftherios Zisis","orcid":"https://orcid.org/0000-0003-4303-1678"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Eleftherios Zisis","raw_affiliation_strings":["Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064154590","display_name":"Daniel Keller","orcid":"https://orcid.org/0000-0003-3280-6255"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Daniel Keller","raw_affiliation_strings":["Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008754293","display_name":"Markus Hadwiger","orcid":"https://orcid.org/0000-0003-1239-4871"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Markus Hadwiger","raw_affiliation_strings":["Visual Computing Center King Abdullah University of Science and Technology (KAUST) Thuwal , Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Visual Computing Center King Abdullah University of Science and Technology (KAUST) Thuwal , Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037451153","display_name":"Pierre J. Magistretti","orcid":"https://orcid.org/0000-0002-6678-320X"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Pierre J Magistretti","raw_affiliation_strings":["Biological and Environmental Sciences and Engineering Division King Abdullah University of Science and Technology (KAUST) Thuwal , Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biological and Environmental Sciences and Engineering Division King Abdullah University of Science and Technology (KAUST) Thuwal , Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069964239","display_name":"Henry Markram","orcid":"https://orcid.org/0000-0001-6164-2590"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Henry Markram","raw_affiliation_strings":["Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088028124","display_name":"Felix Sch\u00fcrmann","orcid":null},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Felix Sch\u00fcrmann","raw_affiliation_strings":["Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Blue Brain Project (BBP) \u00c9cole Polytecnique F\u00e9d\u00e9rale de Lausanne (EPFL) Geneva , Switzerland","institution_ids":["https://openalex.org/I5124864"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":13,"corresponding_author_ids":["https://openalex.org/A5020521236","https://openalex.org/A5088028124"],"corresponding_institution_ids":["https://openalex.org/I5124864"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":2.1119,"has_fulltext":true,"cited_by_count":11,"citation_normalized_percentile":{"value":0.88489708,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":99},"biblio":{"volume":"24","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.5116000175476074,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.5116000175476074,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10052","display_name":"Medical Image Segmentation Techniques","score":0.09449999779462814,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.053700000047683716,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7379198670387268},{"id":"https://openalex.org/keywords/polygon-mesh","display_name":"Polygon mesh","score":0.7362684011459351},{"id":"https://openalex.org/keywords/computational-neuroscience","display_name":"Computational neuroscience","score":0.5737651586532593},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5308433771133423},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.5291612148284912},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.5286968946456909},{"id":"https://openalex.org/keywords/systems-neuroscience","display_name":"Systems neuroscience","score":0.4842243194580078},{"id":"https://openalex.org/keywords/neuroinformatics","display_name":"Neuroinformatics","score":0.4771399199962616},{"id":"https://openalex.org/keywords/computational-model","display_name":"Computational model","score":0.4353521764278412},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.3318437933921814},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.32037097215652466},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.31202268600463867},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.15623822808265686},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.14534339308738708},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.11424610018730164}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7379198670387268},{"id":"https://openalex.org/C31487907","wikidata":"https://www.wikidata.org/wiki/Q1154597","display_name":"Polygon mesh","level":2,"score":0.7362684011459351},{"id":"https://openalex.org/C15286952","wikidata":"https://www.wikidata.org/wiki/Q8037925","display_name":"Computational neuroscience","level":2,"score":0.5737651586532593},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5308433771133423},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.5291612148284912},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.5286968946456909},{"id":"https://openalex.org/C31288803","wikidata":"https://www.wikidata.org/wiki/Q2617516","display_name":"Systems neuroscience","level":5,"score":0.4842243194580078},{"id":"https://openalex.org/C205427263","wikidata":"https://www.wikidata.org/wiki/Q1931480","display_name":"Neuroinformatics","level":2,"score":0.4771399199962616},{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.4353521764278412},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.3318437933921814},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.32037097215652466},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.31202268600463867},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.15623822808265686},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.14534339308738708},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.11424610018730164},{"id":"https://openalex.org/C2776985911","wikidata":"https://www.wikidata.org/wiki/Q916698","display_name":"Oligodendrocyte","level":4,"score":0.0},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0},{"id":"https://openalex.org/C529278444","wikidata":"https://www.wikidata.org/wiki/Q47273","display_name":"Central nervous system","level":2,"score":0.0},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C2778609137","wikidata":"https://www.wikidata.org/wiki/Q105790271","display_name":"Myelin","level":3,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1093/bib/bbac491","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac491","pdf_url":"https://academic.oup.com/bib/article-pdf/24/1/bbac491/48782274/bbac491.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:36434788","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36434788","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:infoscience.epfl.ch:299130","is_oa":true,"landing_page_url":"https://infoscience.epfl.ch/handle/20.500.14299/193586","pdf_url":"https://infoscience.epfl.ch/bitstreams/5c30df80-1b5b-46d8-8f43-46c780a0eaa4/download","source":{"id":"https://openalex.org/S4306400487","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"research article"},{"id":"pmh:oai:figshare.com:article/26830141","is_oa":true,"landing_page_url":"https://figshare.com/articles/journal_contribution/Ultraliser_a_framework_for_creating_multiscale_high-fidelity_and_geometrically_realistic_3D_models_for_i_in_silico_i_neuroscience/26830141","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:9851302","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9851302","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"},{"id":"pmh:oai:repository.kaust.edu.sa:10754/685939","is_oa":true,"landing_page_url":"http://hdl.handle.net/10754/685939","pdf_url":null,"source":{"id":"https://openalex.org/S4306401596","display_name":"King Abdullah University of Science and Technology Repository (King Abdullah University of Science and Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I71920554","host_organization_name":"King Abdullah University of Science and Technology","host_organization_lineage":["https://openalex.org/I71920554"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/bib/bbac491","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac491","pdf_url":"https://academic.oup.com/bib/article-pdf/24/1/bbac491/48782274/bbac491.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3513099125","display_name":null,"funder_award_id":"OSR-2017-CRG6","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G8341339239","display_name":null,"funder_award_id":"OSR-2017-CRG6-3438","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"}],"funders":[{"id":"https://openalex.org/F4320320915","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052"},{"id":"https://openalex.org/F4320322320","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38"},{"id":"https://openalex.org/F4320331149","display_name":"Board of the Swiss Federal Institutes of Technology","ror":"https://ror.org/01rvn4p91"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4310009813.pdf","grobid_xml":"https://content.openalex.org/works/W4310009813.grobid-xml"},"referenced_works_count":101,"referenced_works":["https://openalex.org/W27728773","https://openalex.org/W635058499","https://openalex.org/W1513082520","https://openalex.org/W1556859836","https://openalex.org/W1564611446","https://openalex.org/W1567564717","https://openalex.org/W1587492535","https://openalex.org/W1798731418","https://openalex.org/W1843983222","https://openalex.org/W1921182138","https://openalex.org/W1965210407","https://openalex.org/W1968495411","https://openalex.org/W1974974415","https://openalex.org/W1986482900","https://openalex.org/W1987927468","https://openalex.org/W1993556615","https://openalex.org/W2001144576","https://openalex.org/W2002386777","https://openalex.org/W2008566763","https://openalex.org/W2010575732","https://openalex.org/W2029532682","https://openalex.org/W2031973565","https://openalex.org/W2032756564","https://openalex.org/W2038431766","https://openalex.org/W2049890302","https://openalex.org/W2050851932","https://openalex.org/W2051036306","https://openalex.org/W2057001609","https://openalex.org/W2061186544","https://openalex.org/W2061628168","https://openalex.org/W2064886678","https://openalex.org/W2067982358","https://openalex.org/W2077346271","https://openalex.org/W2078261317","https://openalex.org/W2078905747","https://openalex.org/W2080805673","https://openalex.org/W2087058693","https://openalex.org/W2106280788","https://openalex.org/W2107373448","https://openalex.org/W2109991971","https://openalex.org/W2111983243","https://openalex.org/W2112311198","https://openalex.org/W2114240651","https://openalex.org/W2117120818","https://openalex.org/W2119823590","https://openalex.org/W2119848151","https://openalex.org/W2130399884","https://openalex.org/W2139528660","https://openalex.org/W2144707317","https://openalex.org/W2150136360","https://openalex.org/W2210900609","https://openalex.org/W2232480453","https://openalex.org/W2531236954","https://openalex.org/W2583596256","https://openalex.org/W2592023542","https://openalex.org/W2600753645","https://openalex.org/W2608086886","https://openalex.org/W2681183998","https://openalex.org/W2733945808","https://openalex.org/W2756343653","https://openalex.org/W2760861884","https://openalex.org/W2769200737","https://openalex.org/W2800556882","https://openalex.org/W2809944305","https://openalex.org/W2810701990","https://openalex.org/W2892622821","https://openalex.org/W2899457322","https://openalex.org/W2903564834","https://openalex.org/W2928056234","https://openalex.org/W2945811260","https://openalex.org/W2949808130","https://openalex.org/W2971430069","https://openalex.org/W2973537857","https://openalex.org/W2997451131","https://openalex.org/W3001573117","https://openalex.org/W3009553771","https://openalex.org/W3009833365","https://openalex.org/W3014396133","https://openalex.org/W3016007634","https://openalex.org/W3042793130","https://openalex.org/W3048473624","https://openalex.org/W3092082948","https://openalex.org/W3170914969","https://openalex.org/W3178088103","https://openalex.org/W3186956811","https://openalex.org/W3192633652","https://openalex.org/W3201353661","https://openalex.org/W4206755867","https://openalex.org/W4225358232","https://openalex.org/W4233857083","https://openalex.org/W4235375376","https://openalex.org/W4246652336","https://openalex.org/W4283575111","https://openalex.org/W4309161063","https://openalex.org/W6601143984","https://openalex.org/W6735226261","https://openalex.org/W6772648861","https://openalex.org/W6796777449","https://openalex.org/W6800172567","https://openalex.org/W6999330942","https://openalex.org/W7055686756"],"related_works":["https://openalex.org/W4390782210","https://openalex.org/W4385769909","https://openalex.org/W2887972576","https://openalex.org/W4366993056","https://openalex.org/W2313316694","https://openalex.org/W3203356073","https://openalex.org/W4240701545","https://openalex.org/W4288006310","https://openalex.org/W2795001953","https://openalex.org/W2996411176"],"abstract_inverted_index":{"Ultraliser":[0,71,143,165],"is":[1,144,166,179,225],"a":[2,73,106,237],"neuroscience-specific":[3],"software":[4],"framework":[5,104,239],"capable":[6,240],"of":[7,15,35,124,131,142,153,163,186,241],"creating":[8],"accurate":[9],"and":[10,23,29,31,40,50,75,87,127,137,248],"biologically":[11],"realistic":[12,205,219,247],"3D":[13,119],"models":[14,43,121,154,194,221,245],"complex":[16],"neuroscientific":[17],"structures":[18],"at":[19],"intracellular":[20],"(e.g.":[21,27,37],"mitochondria":[22],"endoplasmic":[24],"reticula),":[25],"cellular":[26,68,136,250],"neurons":[28],"glia)":[30],"even":[32],"multicellular":[33],"scales":[34],"resolution":[36],"cerebral":[38],"vasculature":[39],"minicolumns).":[41],"Resulting":[42],"are":[44,130,155],"exported":[45],"as":[46],"triangulated":[47],"surface":[48,85,125],"meshes":[49,86],"annotated":[51,88],"volumes":[52],"for":[53,122,135,157,230,256],"multiple":[54],"applications":[55],"in":[56,57,110,150,160],"silico":[58],"neuroscience,":[59,112],"allowing":[60],"scalable":[61],"supercomputer":[62],"simulations":[63],"that":[64,252],"can":[65,195,208,253],"unravel":[66],"intricate":[67],"structure-function":[69],"relationships.":[70],"implements":[72],"high-performance":[74],"unconditionally":[76],"robust":[77],"voxelization":[78],"engine":[79],"adapted":[80],"to":[81,116,199],"create":[82],"optimized":[83],"watertight":[84],"voxel":[89],"grids":[90],"from":[91,222],"arbitrary":[92],"non-watertight":[93],"triangular":[94],"soups,":[95],"digitized":[96],"morphological":[97],"skeletons":[98],"or":[99],"binary":[100],"volumetric":[101],"masks.":[102],"The":[103,140],"represents":[105],"major":[107],"leap":[108],"forward":[109],"simulation-based":[111],"making":[113],"it":[114],"possible":[115],"employ":[117],"high-resolution":[118],"structural":[120,220,244],"quantification":[123],"areas":[126],"volumes,":[128],"which":[129,151],"the":[132,170,184,201,203,206,210,216],"utmost":[133],"importance":[134],"system":[138],"simulations.":[139,164,233,257],"power":[141],"demonstrated":[145],"with":[146,246],"several":[147],"use":[148],"cases":[149],"hundreds":[152],"created":[156],"potential":[158],"application":[159],"diverse":[161],"types":[162],"publicly":[167],"released":[168],"under":[169],"GNU":[171],"GPL3":[172],"license":[173],"on":[174,183,189],"GitHub":[175],"(BlueBrain/Ultraliser).":[176],"SIGNIFICANCE:":[177],"There":[178],"crystal":[180],"clear":[181],"evidence":[182],"impact":[185],"cell":[187],"shape":[188],"its":[190],"signaling":[191],"mechanisms.":[192],"Structural":[193],"therefore":[196],"be":[197,254],"insightful":[198],"realize":[200],"function;":[202],"more":[204],"structure":[207],"be,":[209],"further":[211],"we":[212],"get":[213],"insights":[214],"into":[215],"function.":[217],"Creating":[218],"existing":[223],"ones":[224],"challenging,":[226],"particularly":[227],"when":[228],"needed":[229],"detailed":[231,249],"subcellular":[232],"We":[234],"present":[235],"Ultraliser,":[236],"neuroscience-dedicated":[238],"building":[242],"these":[243],"geometries":[251],"used":[255]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":4}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2022-11-30T00:00:00"}
