{"id":"https://openalex.org/W2337129827","doi":"https://doi.org/10.1007/s40708-016-0041-7","title":"Reconstructing the brain: from image stacks to neuron synthesis","display_name":"Reconstructing the brain: from image stacks to neuron synthesis","publication_year":2016,"publication_date":"2016-02-24","ids":{"openalex":"https://openalex.org/W2337129827","doi":"https://doi.org/10.1007/s40708-016-0041-7","mag":"2337129827","pmid":"https://pubmed.ncbi.nlm.nih.gov/27747813"},"language":"en","primary_location":{"id":"doi:10.1007/s40708-016-0041-7","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s40708-016-0041-7","pdf_url":"https://braininformatics.springeropen.com/counter/pdf/10.1007/s40708-016-0041-7","source":{"id":"https://openalex.org/S2498492389","display_name":"Brain Informatics","issn_l":"2198-4018","issn":["2198-4018","2198-4026"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Brain Informatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://braininformatics.springeropen.com/counter/pdf/10.1007/s40708-016-0041-7","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5049541847","display_name":"Julian C. Shillcock","orcid":"https://orcid.org/0000-0002-7885-735X"},"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":"Julian C. Shillcock","raw_affiliation_strings":["Blue Brain Project, EPFL, 1211, Geneva, Switzerland. julian.shillcock@epfl.ch","Blue Brain Project, EPFL, 1211, Geneva, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-7885-735X","affiliations":[{"raw_affiliation_string":"Blue Brain Project, EPFL, 1211, Geneva, Switzerland. julian.shillcock@epfl.ch","institution_ids":["https://openalex.org/I5124864"]},{"raw_affiliation_string":"Blue Brain Project, EPFL, 1211, Geneva, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090586758","display_name":"Michael Hawrylycz","orcid":"https://orcid.org/0000-0002-5741-8024"},"institutions":[{"id":"https://openalex.org/I1314596251","display_name":"Allen Institute for Brain Science","ror":"https://ror.org/00dcv1019","country_code":"US","type":"facility","lineage":["https://openalex.org/I1314596251","https://openalex.org/I4210140341"]},{"id":"https://openalex.org/I4210140341","display_name":"Allen Institute","ror":"https://ror.org/03cpe7c52","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210140341"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Hawrylycz","raw_affiliation_strings":["Allen Institute for Brain Science, Seattle, WA, 98109, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Allen Institute for Brain Science, Seattle, WA, 98109, USA","institution_ids":["https://openalex.org/I1314596251","https://openalex.org/I4210140341"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048268124","display_name":"Sean Hill","orcid":"https://orcid.org/0000-0001-8055-860X"},"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":"Sean Hill","raw_affiliation_strings":["Blue Brain Project, EPFL, 1211, Geneva, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Blue Brain Project, EPFL, 1211, Geneva, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"last","author":{"id":null,"display_name":"Hanchuan Peng","orcid":null},"institutions":[{"id":"https://openalex.org/I1314596251","display_name":"Allen Institute for Brain Science","ror":"https://ror.org/00dcv1019","country_code":"US","type":"facility","lineage":["https://openalex.org/I1314596251","https://openalex.org/I4210140341"]},{"id":"https://openalex.org/I4210140341","display_name":"Allen Institute","ror":"https://ror.org/03cpe7c52","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210140341"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hanchuan Peng","raw_affiliation_strings":["Allen Institute for Brain Science, Seattle, WA, 98109, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Allen Institute for Brain Science, Seattle, WA, 98109, USA","institution_ids":["https://openalex.org/I1314596251","https://openalex.org/I4210140341"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5049541847"],"corresponding_institution_ids":["https://openalex.org/I5124864"],"apc_list":{"value":790,"currency":"GBP","value_usd":990},"apc_paid":{"value":790,"currency":"GBP","value_usd":990},"fwci":2.1604,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.89445279,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"3","issue":"4","first_page":"205","last_page":"209"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9998999834060669,"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":0.9998999834060669,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9889000058174133,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular 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"}},{"id":"https://openalex.org/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.9742000102996826,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.8448928594589233},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6967989206314087},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.47248950600624084},{"id":"https://openalex.org/keywords/brain-atlas","display_name":"Brain atlas","score":0.4724234342575073},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.44827744364738464},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.41657134890556335},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3831259310245514},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13885027170181274},{"id":"https://openalex.org/keywords/cartography","display_name":"Cartography","score":0.11566618084907532},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.10247141122817993}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.8448928594589233},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6967989206314087},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.47248950600624084},{"id":"https://openalex.org/C2780972224","wikidata":"https://www.wikidata.org/wiki/Q17047956","display_name":"Brain atlas","level":2,"score":0.4724234342575073},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.44827744364738464},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.41657134890556335},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3831259310245514},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13885027170181274},{"id":"https://openalex.org/C58640448","wikidata":"https://www.wikidata.org/wiki/Q42515","display_name":"Cartography","level":1,"score":0.11566618084907532},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.10247141122817993},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1007/s40708-016-0041-7","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s40708-016-0041-7","pdf_url":"https://braininformatics.springeropen.com/counter/pdf/10.1007/s40708-016-0041-7","source":{"id":"https://openalex.org/S2498492389","display_name":"Brain Informatics","issn_l":"2198-4018","issn":["2198-4018","2198-4026"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Brain Informatics","raw_type":"journal-article"},{"id":"pmid:27747813","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27747813","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":"Brain informatics","raw_type":null},{"id":"pmh:oai:europepmc.org:4072791","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5106405","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"},{"id":"pmh:oai:infoscience.epfl.ch:218765","is_oa":false,"landing_page_url":"http://infoscience.epfl.ch/record/218765","pdf_url":null,"source":{"id":"https://openalex.org/S4306400488","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:infoscience.tind.io:218765","is_oa":true,"landing_page_url":"https://infoscience.epfl.ch/handle/20.500.14299/126615","pdf_url":null,"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":"","raw_type":"research article"}],"best_oa_location":{"id":"doi:10.1007/s40708-016-0041-7","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s40708-016-0041-7","pdf_url":"https://braininformatics.springeropen.com/counter/pdf/10.1007/s40708-016-0041-7","source":{"id":"https://openalex.org/S2498492389","display_name":"Brain Informatics","issn_l":"2198-4018","issn":["2198-4018","2198-4026"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Brain Informatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/8","display_name":"Decent work and economic growth","score":0.4399999976158142}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2337129827.pdf","grobid_xml":"https://content.openalex.org/works/W2337129827.grobid-xml"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W1508135620","https://openalex.org/W1921182138","https://openalex.org/W1965210407","https://openalex.org/W1971689790","https://openalex.org/W1974049455","https://openalex.org/W1989396876","https://openalex.org/W1995031373","https://openalex.org/W2018227909","https://openalex.org/W2019305522","https://openalex.org/W2025603247","https://openalex.org/W2066381178","https://openalex.org/W2074633779","https://openalex.org/W2102667107","https://openalex.org/W2112745564","https://openalex.org/W2171895829","https://openalex.org/W2178605380"],"related_works":["https://openalex.org/W1981780420","https://openalex.org/W2182707996","https://openalex.org/W45233828","https://openalex.org/W2964988449","https://openalex.org/W188202134","https://openalex.org/W2397952901","https://openalex.org/W2029380707","https://openalex.org/W4255934811","https://openalex.org/W2465382974","https://openalex.org/W2010229520"],"abstract_inverted_index":{"Large-scale":[0],"brain":[1],"initiatives":[2],"such":[3],"as":[4],"the":[5,10,26,52,134],"US":[6],"BRAIN":[7],"initiative":[8,73],"and":[9,23,46,85,138],"European":[11],"Human":[12],"Brain":[13],"Project":[14],"aim":[15],"to":[16,35,51,60,88,105,110,133],"marshall":[17],"a":[18,99,140],"vast":[19],"amount":[20],"of":[21,28,32,65,93,102,115,127,142],"data":[22,108],"tools":[24],"for":[25],"purpose":[27],"furthering":[29],"our":[30],"understanding":[31],"brains.":[33],"Fundamental":[34],"this":[36,63,103,107],"goal":[37],"is":[38,68,74,86],"that":[39],"neuronal":[40],"morphologies":[41,67],"must":[42],"be":[43],"seamlessly":[44],"reconstructed":[45,95,128],"aggregated":[47],"on":[48],"scales":[49],"up":[50],"whole":[53],"rodent":[54],"brain.":[55],"The":[56,71],"experimental":[57],"labor":[58],"needed":[59],"manually":[61],"produce":[62],"number":[64,114],"digital":[66,120,131],"prohibitively":[69],"large.":[70],"BigNeuron":[72],"assembling":[75],"community-generated,":[76],"open-source,":[77],"automated":[78,125],"reconstruction":[79],"algorithms":[80],"into":[81,130],"an":[82,90,112],"open":[83],"platform,":[84],"beginning":[87],"generate":[89,111],"increasing":[91],"flow":[92],"high-quality":[94],"neurons.":[96],"We":[97],"propose":[98],"novel":[100],"extension":[101],"workflow":[104],"use":[106],"stream":[109],"unlimited":[113],"statistically":[116],"equivalent,":[117],"yet":[118],"distinct,":[119],"morphologies.":[121],"This":[122],"will":[123],"bring":[124],"processing":[126],"cells":[129],"neurons":[132],"wider":[135],"neuroscience":[136],"community,":[137],"enable":[139],"range":[141],"morphologically":[143],"accurate":[144],"computational":[145],"models.":[146]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":1}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
