{"id":"https://openalex.org/W2331683462","doi":"https://doi.org/10.1117/12.2217425","title":"Computerized segmentation algorithm with personalized atlases of murine MRIs in a SV40 large T-antigen mouse mammary cancer model","display_name":"Computerized segmentation algorithm with personalized atlases of murine MRIs in a SV40 large T-antigen mouse mammary cancer model","publication_year":2016,"publication_date":"2016-03-29","ids":{"openalex":"https://openalex.org/W2331683462","doi":"https://doi.org/10.1117/12.2217425","mag":"2331683462"},"language":"en","primary_location":{"id":"doi:10.1117/12.2217425","is_oa":false,"landing_page_url":"https://doi.org/10.1117/12.2217425","pdf_url":null,"source":{"id":"https://openalex.org/S183492911","display_name":"Proceedings of SPIE, the International Society for Optical Engineering/Proceedings of SPIE","issn_l":"0277-786X","issn":["0277-786X","1996-756X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310315543","host_organization_name":"SPIE","host_organization_lineage":["https://openalex.org/P4310315543"],"host_organization_lineage_names":["SPIE"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"SPIE Proceedings","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/A5085108911","display_name":"Adam Sibley","orcid":null},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Adam R. Sibley","raw_affiliation_strings":["The Univ. of Chicago (United States)"],"affiliations":[{"raw_affiliation_string":"The Univ. of Chicago (United States)","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085739244","display_name":"Erica Markiewicz","orcid":"https://orcid.org/0000-0002-4247-8948"},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Erica Markiewicz","raw_affiliation_strings":["The Univ. of Chicago (United States)"],"affiliations":[{"raw_affiliation_string":"The Univ. of Chicago (United States)","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019716346","display_name":"Devkumar Mustafi","orcid":"https://orcid.org/0000-0001-7826-4485"},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Devkumar Mustafi","raw_affiliation_strings":["The Univ. of Chicago (United States)"],"affiliations":[{"raw_affiliation_string":"The Univ. of Chicago (United States)","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089826782","display_name":"Xiaobing Fan","orcid":"https://orcid.org/0000-0001-9004-029X"},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiaobing Fan","raw_affiliation_strings":["The Univ. of Chicago (United States)"],"affiliations":[{"raw_affiliation_string":"The Univ. of Chicago (United States)","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006194387","display_name":"Suzanne D. Conzen","orcid":"https://orcid.org/0000-0003-1750-5868"},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Suzanne Conzen","raw_affiliation_strings":["The Univ. of Chicago (United States)"],"affiliations":[{"raw_affiliation_string":"The Univ. of Chicago (United States)","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110484707","display_name":"Greg S. Karczmar","orcid":null},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Greg Karczmar","raw_affiliation_strings":["The Univ. of Chicago (United States)"],"affiliations":[{"raw_affiliation_string":"The Univ. of Chicago (United States)","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049042648","display_name":"Maryellen L. Giger","orcid":"https://orcid.org/0000-0001-5482-9728"},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Maryellen L. Giger","raw_affiliation_strings":["The Univ. of Chicago (United States)"],"affiliations":[{"raw_affiliation_string":"The Univ. of Chicago (United States)","institution_ids":["https://openalex.org/I40347166"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5085108911"],"corresponding_institution_ids":["https://openalex.org/I40347166"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.03330655,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"9788","issue":null,"first_page":"97882M","last_page":"97882M"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12422","display_name":"Radiomics and Machine Learning in Medical Imaging","score":0.9997000098228455,"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"}},"topics":[{"id":"https://openalex.org/T12422","display_name":"Radiomics and Machine Learning in Medical Imaging","score":0.9997000098228455,"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/T10862","display_name":"AI in cancer detection","score":0.9976999759674072,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/T10052","display_name":"Medical Image Segmentation Techniques","score":0.991100013256073,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.6681227684020996},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.574556291103363},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5382689237594604},{"id":"https://openalex.org/keywords/image-segmentation","display_name":"Image segmentation","score":0.45159173011779785},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.42851245403289795},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4243977665901184},{"id":"https://openalex.org/keywords/data-set","display_name":"Data set","score":0.4214460253715515},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.3941602110862732},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3271647095680237},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.25006628036499023},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.08757928013801575}],"concepts":[{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.6681227684020996},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.574556291103363},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5382689237594604},{"id":"https://openalex.org/C124504099","wikidata":"https://www.wikidata.org/wiki/Q56933","display_name":"Image segmentation","level":3,"score":0.45159173011779785},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.42851245403289795},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4243977665901184},{"id":"https://openalex.org/C58489278","wikidata":"https://www.wikidata.org/wiki/Q1172284","display_name":"Data set","level":2,"score":0.4214460253715515},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.3941602110862732},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3271647095680237},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.25006628036499023},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.08757928013801575}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1117/12.2217425","is_oa":false,"landing_page_url":"https://doi.org/10.1117/12.2217425","pdf_url":null,"source":{"id":"https://openalex.org/S183492911","display_name":"Proceedings of SPIE, the International Society for Optical Engineering/Proceedings of SPIE","issn_l":"0277-786X","issn":["0277-786X","1996-756X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310315543","host_organization_name":"SPIE","host_organization_lineage":["https://openalex.org/P4310315543"],"host_organization_lineage_names":["SPIE"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"SPIE Proceedings","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/12","score":0.5799999833106995,"display_name":"Responsible consumption and production"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":18,"referenced_works":["https://openalex.org/W1558633536","https://openalex.org/W1980097377","https://openalex.org/W2020065643","https://openalex.org/W2026616100","https://openalex.org/W2052479847","https://openalex.org/W2074996049","https://openalex.org/W2090389914","https://openalex.org/W2096744455","https://openalex.org/W2099842512","https://openalex.org/W2109550643","https://openalex.org/W2141055911","https://openalex.org/W2289061117","https://openalex.org/W4213251304","https://openalex.org/W4235959342","https://openalex.org/W4247752117","https://openalex.org/W6633458381","https://openalex.org/W6655337290","https://openalex.org/W6676504540"],"related_works":["https://openalex.org/W4379231730","https://openalex.org/W4389858081","https://openalex.org/W2501551404","https://openalex.org/W4385583601","https://openalex.org/W4298131179","https://openalex.org/W2113201962","https://openalex.org/W4395685956","https://openalex.org/W2799953226","https://openalex.org/W4398146871","https://openalex.org/W1522196789"],"abstract_inverted_index":{"Quantities":[0],"of":[1,35,63,73,83,107,112,147,209,213,231,244],"MRI":[2,45,76],"data,":[3],"much":[4],"larger":[5],"than":[6],"can":[7],"be":[8,124],"objectively":[9],"and":[10,28,94,109,175,195,199,219,228,234,241],"efficiently":[11],"analyzed":[12],"manually,":[13],"are":[14],"routinely":[15],"generated":[16],"in":[17,33,89,120,129,132,161,180,237],"preclinical":[18],"research.":[19],"We":[20],"aim":[21],"to":[22,31,58,60,117,123,126,225],"develop":[23],"an":[24],"automated":[25],"image":[26,36,100],"segmentation":[27,135],"registration":[29,222],"pipeline":[30],"aid":[32],"analysis":[34],"data":[37],"from":[38,163],"our":[39],"high-throughput":[40],"9.4":[41],"Tesla":[42],"small":[43],"animal":[44],"imaging":[46],"center.":[47],"T2-weighted,":[48],"fat-suppressed":[49],"MRIs":[50],"were":[51,102,193],"acquired":[52,103],"over":[53,203],"4":[54,149,205],"life-cycle":[55,206],"time-points":[56],"[up":[57],"12":[59],"18":[61],"weeks]":[62],"twelve":[64],"C3(1)":[65],"SV40":[66],"Large":[67],"T-antigen":[68],"mice":[69],"for":[70,201],"a":[71,80,176,181],"total":[72],"46":[74],"T2-weighted":[75],"volumes;":[77],"each":[78,154],"with":[79,104,153,190,217],"matrix":[81],"size":[82],"192":[84],"x":[85],"256,":[86],"62":[87],"slices,":[88],"plane":[90],"resolution":[91],"0.1":[92],"mm,":[93],"slice":[95],"thickness":[96],"0.5":[97],"mm.":[98],"These":[99],"sets":[101],"the":[105,142,145,148,188,204,210,232,238],"goal":[106],"tracking":[108,230],"quantifying":[110],"progression":[111],"mammary":[113,239],"intraepithelial":[114],"neoplasia":[115],"(MIN)":[116],"invasive":[118],"cancer":[119],"mice,":[121],"believed":[122],"similar":[125],"ductal":[127],"carcinoma":[128],"situ":[130],"(DCIS)":[131],"humans.":[133],"Our":[134],"algorithm":[136],"takes":[137],"2D":[138,165],"seed-points":[139],"drawn":[140],"by":[141],"user":[143],"at":[144],"center":[146],"co-registered":[150],"volumes":[151],"associated":[152,242],"mouse.":[155],"The":[156,167],"level":[157],"set":[158],"then":[159],"evolves":[160],"3D":[162],"these":[164,214,245],"seeds.":[166],"contour":[168],"evolution":[169],"incorporates":[170],"texture":[171],"information,":[172,174],"edge":[173],"statistical":[177],"shape":[178],"model":[179],"two-step":[182],"process.":[183],"Volumetric":[184],"DICE":[185],"coefficients":[186],"comparing":[187],"automatic":[189],"manual":[191],"segmentations":[192],"computed":[194],"ranged":[196],"between":[197],"0.75":[198],"0.58":[200],"averages":[202],"time":[207],"points":[208],"mice.":[211,246],"Incorporation":[212],"personalized":[215],"atlases":[216],"intra":[218],"inter":[220],"mouse":[221],"is":[223],"expected":[224],"enable":[226],"locally":[227],"globally":[229],"morphological":[233],"textural":[235],"changes":[236],"tissue":[240],"lesions":[243]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
