{"id":"https://openalex.org/W2805619515","doi":"https://doi.org/10.1109/isbi.2018.8363667","title":"A deep learning framework for brain extraction in humans and animals with traumatic brain injury","display_name":"A deep learning framework for brain extraction in humans and animals with traumatic brain injury","publication_year":2018,"publication_date":"2018-04-01","ids":{"openalex":"https://openalex.org/W2805619515","doi":"https://doi.org/10.1109/isbi.2018.8363667","mag":"2805619515"},"language":"en","primary_location":{"id":"doi:10.1109/isbi.2018.8363667","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isbi.2018.8363667","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2018 IEEE 15th International Symposium on Biomedical Imaging (ISBI 2018)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5012909412","display_name":"Snehashis Roy","orcid":"https://orcid.org/0000-0002-7997-3993"},"institutions":[{"id":"https://openalex.org/I4210139040","display_name":"Center for Neuroscience and Regenerative Medicine","ror":"https://ror.org/04dmgsx60","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210139040"]},{"id":"https://openalex.org/I2802640032","display_name":"Foundation Center","ror":"https://ror.org/0377f6951","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2802640032"]},{"id":"https://openalex.org/I4210100506","display_name":"Jackson Foundation","ror":"https://ror.org/00jkq3860","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210100506"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Snehashis Roy","raw_affiliation_strings":["Henry Jackson Foundation, Center for Neuroscience and Regenerative Medicine"],"affiliations":[{"raw_affiliation_string":"Henry Jackson Foundation, Center for Neuroscience and Regenerative Medicine","institution_ids":["https://openalex.org/I4210139040","https://openalex.org/I4210100506","https://openalex.org/I2802640032"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004727533","display_name":"Andrew K. Knutsen","orcid":"https://orcid.org/0000-0002-1340-654X"},"institutions":[{"id":"https://openalex.org/I121374431","display_name":"Unifor","ror":"https://ror.org/02sybec58","country_code":"NO","type":"nonprofit","lineage":["https://openalex.org/I121374431"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Andrew Knutsen","raw_affiliation_strings":["Department of Radiology and Radiological Sciences, Uniformed Services Universitv of the Health Sciences"],"affiliations":[{"raw_affiliation_string":"Department of Radiology and Radiological Sciences, Uniformed Services Universitv of the Health Sciences","institution_ids":["https://openalex.org/I121374431"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070164801","display_name":"Alexandru Korotcov","orcid":null},"institutions":[{"id":"https://openalex.org/I121374431","display_name":"Unifor","ror":"https://ror.org/02sybec58","country_code":"NO","type":"nonprofit","lineage":["https://openalex.org/I121374431"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Alexandru Korotcov","raw_affiliation_strings":["Department of Radiology and Radiological Sciences, Uniformed Services Universitv of the Health Sciences"],"affiliations":[{"raw_affiliation_string":"Department of Radiology and Radiological Sciences, Uniformed Services Universitv of the Health Sciences","institution_ids":["https://openalex.org/I121374431"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068516694","display_name":"Asamoah Bosomtwi","orcid":null},"institutions":[{"id":"https://openalex.org/I121374431","display_name":"Unifor","ror":"https://ror.org/02sybec58","country_code":"NO","type":"nonprofit","lineage":["https://openalex.org/I121374431"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Asamoah Bosomtwi","raw_affiliation_strings":["Department of Radiology and Radiological Sciences, Uniformed Services Universitv of the Health Sciences"],"affiliations":[{"raw_affiliation_string":"Department of Radiology and Radiological Sciences, Uniformed Services Universitv of the Health Sciences","institution_ids":["https://openalex.org/I121374431"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015046378","display_name":"Bernard J. Dardzinski","orcid":"https://orcid.org/0000-0001-7098-9131"},"institutions":[{"id":"https://openalex.org/I121374431","display_name":"Unifor","ror":"https://ror.org/02sybec58","country_code":"NO","type":"nonprofit","lineage":["https://openalex.org/I121374431"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Bernard Dardzinski","raw_affiliation_strings":["Department of Radiology and Radiological Sciences, Uniformed Services Universitv of the Health Sciences"],"affiliations":[{"raw_affiliation_string":"Department of Radiology and Radiological Sciences, Uniformed Services Universitv of the Health Sciences","institution_ids":["https://openalex.org/I121374431"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026908064","display_name":"John A. Butman","orcid":"https://orcid.org/0000-0002-1547-9195"},"institutions":[{"id":"https://openalex.org/I4210155647","display_name":"National Institutes of Health Clinical Center","ror":"https://ror.org/04vfsmv21","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210155647"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"John A. Butman","raw_affiliation_strings":["Radiology and Imaging Sciences, Clinical Center, National Institute of Health"],"affiliations":[{"raw_affiliation_string":"Radiology and Imaging Sciences, Clinical Center, National Institute of Health","institution_ids":["https://openalex.org/I4210155647"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5005891853","display_name":"Dzung L. Pham","orcid":"https://orcid.org/0000-0003-0053-2034"},"institutions":[{"id":"https://openalex.org/I4210100506","display_name":"Jackson Foundation","ror":"https://ror.org/00jkq3860","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210100506"]},{"id":"https://openalex.org/I2802640032","display_name":"Foundation Center","ror":"https://ror.org/0377f6951","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2802640032"]},{"id":"https://openalex.org/I4210139040","display_name":"Center for Neuroscience and Regenerative Medicine","ror":"https://ror.org/04dmgsx60","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210139040"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dzung L. Pham","raw_affiliation_strings":["Henry Jackson Foundation, Center for Neuroscience and Regenerative Medicine"],"affiliations":[{"raw_affiliation_string":"Henry Jackson Foundation, Center for Neuroscience and Regenerative Medicine","institution_ids":["https://openalex.org/I4210139040","https://openalex.org/I4210100506","https://openalex.org/I2802640032"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5012909412"],"corresponding_institution_ids":["https://openalex.org/I2802640032","https://openalex.org/I4210100506","https://openalex.org/I4210139040"],"apc_list":null,"apc_paid":null,"fwci":2.8285,"has_fulltext":false,"cited_by_count":29,"citation_normalized_percentile":{"value":0.90083668,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10706","display_name":"Traumatic Brain Injury and Neurovascular Disturbances","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/2728","display_name":"Neurology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10706","display_name":"Traumatic Brain Injury and Neurovascular Disturbances","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/2728","display_name":"Neurology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10522","display_name":"Medical Imaging Techniques and Applications","score":0.9969000220298767,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11406","display_name":"Cerebrospinal fluid and hydrocephalus","score":0.9941999912261963,"subfield":{"id":"https://openalex.org/subfields/2804","display_name":"Cellular and Molecular Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.7135534286499023},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.6318876147270203},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6009680032730103},{"id":"https://openalex.org/keywords/traumatic-brain-injury","display_name":"Traumatic brain injury","score":0.5697051286697388},{"id":"https://openalex.org/keywords/skull","display_name":"Skull","score":0.5299968123435974},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.46290573477745056},{"id":"https://openalex.org/keywords/magnetic-resonance-imaging","display_name":"Magnetic resonance imaging","score":0.45767614245414734},{"id":"https://openalex.org/keywords/human-brain","display_name":"Human brain","score":0.43994826078414917},{"id":"https://openalex.org/keywords/feature-extraction","display_name":"Feature extraction","score":0.43599626421928406},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4174690842628479},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.34804052114486694},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.30932214856147766},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2795783281326294},{"id":"https://openalex.org/keywords/radiology","display_name":"Radiology","score":0.22178608179092407},{"id":"https://openalex.org/keywords/psychology","display_name":"Psychology","score":0.19205987453460693},{"id":"https://openalex.org/keywords/anatomy","display_name":"Anatomy","score":0.1548304557800293}],"concepts":[{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.7135534286499023},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.6318876147270203},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6009680032730103},{"id":"https://openalex.org/C2781017439","wikidata":"https://www.wikidata.org/wiki/Q1995526","display_name":"Traumatic brain injury","level":2,"score":0.5697051286697388},{"id":"https://openalex.org/C2779300802","wikidata":"https://www.wikidata.org/wiki/Q13147","display_name":"Skull","level":2,"score":0.5299968123435974},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.46290573477745056},{"id":"https://openalex.org/C143409427","wikidata":"https://www.wikidata.org/wiki/Q161238","display_name":"Magnetic resonance imaging","level":2,"score":0.45767614245414734},{"id":"https://openalex.org/C2777670902","wikidata":"https://www.wikidata.org/wiki/Q492038","display_name":"Human brain","level":2,"score":0.43994826078414917},{"id":"https://openalex.org/C52622490","wikidata":"https://www.wikidata.org/wiki/Q1026626","display_name":"Feature extraction","level":2,"score":0.43599626421928406},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4174690842628479},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.34804052114486694},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.30932214856147766},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2795783281326294},{"id":"https://openalex.org/C126838900","wikidata":"https://www.wikidata.org/wiki/Q77604","display_name":"Radiology","level":1,"score":0.22178608179092407},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.19205987453460693},{"id":"https://openalex.org/C105702510","wikidata":"https://www.wikidata.org/wiki/Q514","display_name":"Anatomy","level":1,"score":0.1548304557800293},{"id":"https://openalex.org/C118552586","wikidata":"https://www.wikidata.org/wiki/Q7867","display_name":"Psychiatry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/isbi.2018.8363667","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isbi.2018.8363667","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2018 IEEE 15th International Symposium on Biomedical Imaging (ISBI 2018)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":25,"referenced_works":["https://openalex.org/W1522301498","https://openalex.org/W1594041518","https://openalex.org/W1970928383","https://openalex.org/W2004691878","https://openalex.org/W2019346246","https://openalex.org/W2066180616","https://openalex.org/W2097117768","https://openalex.org/W2111876935","https://openalex.org/W2117340355","https://openalex.org/W2131104747","https://openalex.org/W2136145485","https://openalex.org/W2138575170","https://openalex.org/W2145661921","https://openalex.org/W2148726987","https://openalex.org/W2151050383","https://openalex.org/W2157270343","https://openalex.org/W2163605009","https://openalex.org/W2166894022","https://openalex.org/W2284198383","https://openalex.org/W2554933181","https://openalex.org/W2742774307","https://openalex.org/W2919115771","https://openalex.org/W6631190155","https://openalex.org/W6684191040","https://openalex.org/W6742159400"],"related_works":["https://openalex.org/W2326314491","https://openalex.org/W4232204633","https://openalex.org/W3206692032","https://openalex.org/W4293226380","https://openalex.org/W2020061871","https://openalex.org/W1996993591","https://openalex.org/W2724674370","https://openalex.org/W2424073895","https://openalex.org/W4238132289","https://openalex.org/W4254672817"],"abstract_inverted_index":{"Automatic":[0],"brain":[1,67,182,197],"extraction":[2,183,198],"or":[3],"skull":[4,22],"stripping":[5,23,123],"from":[6,93,116],"magnetic":[7],"resonance":[8],"images":[9,96,120],"(MRI)":[10],"is":[11,59,104,135],"an":[12],"important":[13],"pre-processing":[14],"step":[15],"in":[16,62,97,196,200],"many":[17],"image":[18],"processing":[19],"pipelines.":[20],"Most":[21],"methods":[24],"are":[25],"optimized":[26],"for":[27],"normal":[28,161],"brains":[29,168],"and":[30,70,164,180,203,206],"applicable":[31],"to":[32,89,112,121,141,148,154],"single":[33],"T":[34,46],"<sub":[35,47],"xmlns:mml=\"http://www.w3.org/1998/Math/MathML\"":[36,48],"xmlns:xlink=\"http://www.w3.org/1999/xlink\">1</sub>":[37],"-w":[38],"MR":[39,95,119],"images.":[40,208],"However,":[41],"other":[42,71],"contrasts,":[43],"such":[44],"as":[45,157,159],"xmlns:xlink=\"http://www.w3.org/1999/xlink\">2</sub>":[49],",":[50],"can":[51,75,138],"provide":[52],"complementary":[53],"information":[54],"about":[55],"the":[56,63,98,173],"boundary.":[57],"This":[58],"especially":[60],"true":[61],"presence":[64,99],"of":[65,100,132],"traumatic":[66],"injury":[68],"(TBI)":[69],"diseases,":[72],"where":[73],"lesions":[74],"confound":[76],"boundary":[77],"definitions.":[78],"In":[79],"this":[80],"paper,":[81],"we":[82,192],"propose":[83],"a":[84,114,187],"deep":[85],"learning":[86],"based":[87,105],"framework":[88,134],"extract":[90],"intracranial":[91],"tissues":[92],"multi-contrast":[94,117],"TBI.":[101,170],"Our":[102],"approach":[103,147,174],"on":[106],"state-of-the-art":[107,178],"convolutional":[108],"neural":[109],"network":[110],"architecture":[111],"learn":[113],"transformation":[115],"atlas":[118],"their":[122],"masks":[124],"without":[125],"using":[126],"any":[127],"deformable":[128],"registration.":[129],"An":[130],"advantage":[131],"our":[133,146],"that":[136],"it":[137],"be":[139],"applied":[140,145],"different":[142],"species.":[143],"We":[144,171],"19":[149],"human":[150,179,205],"patients":[151],"with":[152,169,175],"mild":[153],"severe":[155],"TBI,":[156],"well":[158],"16":[160],"mice":[162,167],"images,":[163],"another":[165],"10":[166],"compared":[172],"3":[176],"separate":[177],"rodent":[181,207],"methods.":[184],"Using":[185],"only":[186],"few":[188],"manually":[189],"delineated":[190],"atlases,":[191],"showed":[193],"significant":[194],"improvement":[195],"accuracy":[199],"both":[201],"healthy":[202],"pathological":[204]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":4}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}