{"id":"https://openalex.org/W4362694529","doi":"https://doi.org/10.1117/12.2654943","title":"Identification of molecular cell type of breast cancer on digital histopathology images using deep learning and multiplexed fluorescence imaging","display_name":"Identification of molecular cell type of breast cancer on digital histopathology images using deep learning and multiplexed fluorescence imaging","publication_year":2023,"publication_date":"2023-04-07","ids":{"openalex":"https://openalex.org/W4362694529","doi":"https://doi.org/10.1117/12.2654943"},"language":"en","primary_location":{"id":"doi:10.1117/12.2654943","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1117/12.2654943","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Medical Imaging 2023: Digital and Computational Pathology","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/A5052986343","display_name":"Wenchao Han","orcid":null},"institutions":[{"id":"https://openalex.org/I4391768120","display_name":"Sunnybrook Research Institute","ror":"https://ror.org/05n0tzs53","country_code":null,"type":"facility","lineage":["https://openalex.org/I1323843004","https://openalex.org/I185261750","https://openalex.org/I4391768120"]},{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]},{"id":"https://openalex.org/I4210167439","display_name":"Sunnybrook Hospital","ror":"https://ror.org/008kn1a71","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1323843004","https://openalex.org/I4210167439"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Wenchao Han","raw_affiliation_strings":["Sunnybrook Research Institute (Canada)","Univ. of Toronto (Canada)"],"affiliations":[{"raw_affiliation_string":"Sunnybrook Research Institute (Canada)","institution_ids":["https://openalex.org/I4210167439","https://openalex.org/I4391768120"]},{"raw_affiliation_string":"Univ. of Toronto (Canada)","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091661391","display_name":"Alison Cheung","orcid":"https://orcid.org/0000-0003-3978-3121"},"institutions":[{"id":"https://openalex.org/I4391768120","display_name":"Sunnybrook Research Institute","ror":"https://ror.org/05n0tzs53","country_code":null,"type":"facility","lineage":["https://openalex.org/I1323843004","https://openalex.org/I185261750","https://openalex.org/I4391768120"]},{"id":"https://openalex.org/I4210167439","display_name":"Sunnybrook Hospital","ror":"https://ror.org/008kn1a71","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1323843004","https://openalex.org/I4210167439"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Alison M. Cheung","raw_affiliation_strings":["Sunnybrook Research Institute (Canada)"],"affiliations":[{"raw_affiliation_string":"Sunnybrook Research Institute (Canada)","institution_ids":["https://openalex.org/I4210167439","https://openalex.org/I4391768120"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015897825","display_name":"Vishwesh Ramanathan","orcid":null},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Vishwesh Ramanathan","raw_affiliation_strings":["Univ. of Toronto (Canada)"],"affiliations":[{"raw_affiliation_string":"Univ. of Toronto (Canada)","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100411808","display_name":"Dan Wang","orcid":"https://orcid.org/0000-0002-3272-9045"},"institutions":[{"id":"https://openalex.org/I4210167439","display_name":"Sunnybrook Hospital","ror":"https://ror.org/008kn1a71","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1323843004","https://openalex.org/I4210167439"]},{"id":"https://openalex.org/I4391768120","display_name":"Sunnybrook Research Institute","ror":"https://ror.org/05n0tzs53","country_code":null,"type":"facility","lineage":["https://openalex.org/I1323843004","https://openalex.org/I185261750","https://openalex.org/I4391768120"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Dan Wang","raw_affiliation_strings":["Sunnybrook Research Institute (Canada)"],"affiliations":[{"raw_affiliation_string":"Sunnybrook Research Institute (Canada)","institution_ids":["https://openalex.org/I4210167439","https://openalex.org/I4391768120"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071013907","display_name":"Kela Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I4391768120","display_name":"Sunnybrook Research Institute","ror":"https://ror.org/05n0tzs53","country_code":null,"type":"facility","lineage":["https://openalex.org/I1323843004","https://openalex.org/I185261750","https://openalex.org/I4391768120"]},{"id":"https://openalex.org/I4210167439","display_name":"Sunnybrook Hospital","ror":"https://ror.org/008kn1a71","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1323843004","https://openalex.org/I4210167439"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Kela Liu","raw_affiliation_strings":["Sunnybrook Research Institute (Canada)"],"affiliations":[{"raw_affiliation_string":"Sunnybrook Research Institute (Canada)","institution_ids":["https://openalex.org/I4210167439","https://openalex.org/I4391768120"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069586144","display_name":"Martin J. Yaffe","orcid":"https://orcid.org/0000-0002-7227-9915"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]},{"id":"https://openalex.org/I4210167439","display_name":"Sunnybrook Hospital","ror":"https://ror.org/008kn1a71","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1323843004","https://openalex.org/I4210167439"]},{"id":"https://openalex.org/I4391768120","display_name":"Sunnybrook Research Institute","ror":"https://ror.org/05n0tzs53","country_code":null,"type":"facility","lineage":["https://openalex.org/I1323843004","https://openalex.org/I185261750","https://openalex.org/I4391768120"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Martin J. Yaffe","raw_affiliation_strings":["Sunnybrook Research Institute (Canada)","Univ. of Toronto (Canada)"],"affiliations":[{"raw_affiliation_string":"Sunnybrook Research Institute (Canada)","institution_ids":["https://openalex.org/I4210167439","https://openalex.org/I4391768120"]},{"raw_affiliation_string":"Univ. of Toronto (Canada)","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029260213","display_name":"Anne L. Martel","orcid":"https://orcid.org/0000-0003-1375-5501"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]},{"id":"https://openalex.org/I4391768120","display_name":"Sunnybrook Research Institute","ror":"https://ror.org/05n0tzs53","country_code":null,"type":"facility","lineage":["https://openalex.org/I1323843004","https://openalex.org/I185261750","https://openalex.org/I4391768120"]},{"id":"https://openalex.org/I4210167439","display_name":"Sunnybrook Hospital","ror":"https://ror.org/008kn1a71","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1323843004","https://openalex.org/I4210167439"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Anne L. Martel","raw_affiliation_strings":["Sunnybrook Research Institute (Canada)","Univ. of Toronto (Canada)"],"affiliations":[{"raw_affiliation_string":"Sunnybrook Research Institute (Canada)","institution_ids":["https://openalex.org/I4210167439","https://openalex.org/I4391768120"]},{"raw_affiliation_string":"Univ. of Toronto (Canada)","institution_ids":["https://openalex.org/I185261750"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5052986343"],"corresponding_institution_ids":["https://openalex.org/I185261750","https://openalex.org/I4210167439","https://openalex.org/I4391768120"],"apc_list":null,"apc_paid":null,"fwci":0.5237,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.69457033,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":97},"biblio":{"volume":null,"issue":null,"first_page":"5","last_page":"5"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10862","display_name":"AI in cancer detection","score":0.9991000294685364,"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"}},"topics":[{"id":"https://openalex.org/T10862","display_name":"AI in cancer detection","score":0.9991000294685364,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9932000041007996,"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/T12422","display_name":"Radiomics and Machine Learning in Medical Imaging","score":0.9825000166893005,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/breast-cancer","display_name":"Breast cancer","score":0.6001002192497253},{"id":"https://openalex.org/keywords/estrogen-receptor","display_name":"Estrogen receptor","score":0.5114978551864624},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.500262975692749},{"id":"https://openalex.org/keywords/immunohistochemistry","display_name":"Immunohistochemistry","score":0.484928160905838},{"id":"https://openalex.org/keywords/stain","display_name":"Stain","score":0.46051254868507385},{"id":"https://openalex.org/keywords/histopathology","display_name":"Histopathology","score":0.4353176951408386},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.4340522289276123},{"id":"https://openalex.org/keywords/progesterone-receptor","display_name":"Progesterone receptor","score":0.4268660843372345},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.42650842666625977},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.348967045545578},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.320285439491272},{"id":"https://openalex.org/keywords/staining","display_name":"Staining","score":0.24255043268203735},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.2061634361743927}],"concepts":[{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.6001002192497253},{"id":"https://openalex.org/C84606932","wikidata":"https://www.wikidata.org/wiki/Q416496","display_name":"Estrogen receptor","level":4,"score":0.5114978551864624},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.500262975692749},{"id":"https://openalex.org/C204232928","wikidata":"https://www.wikidata.org/wiki/Q899285","display_name":"Immunohistochemistry","level":2,"score":0.484928160905838},{"id":"https://openalex.org/C2781294515","wikidata":"https://www.wikidata.org/wiki/Q2733470","display_name":"Stain","level":3,"score":0.46051254868507385},{"id":"https://openalex.org/C544855455","wikidata":"https://www.wikidata.org/wiki/Q1070952","display_name":"Histopathology","level":2,"score":0.4353176951408386},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.4340522289276123},{"id":"https://openalex.org/C98717036","wikidata":"https://www.wikidata.org/wiki/Q14872994","display_name":"Progesterone receptor","level":5,"score":0.4268660843372345},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.42650842666625977},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.348967045545578},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.320285439491272},{"id":"https://openalex.org/C74864618","wikidata":"https://www.wikidata.org/wiki/Q2332446","display_name":"Staining","level":2,"score":0.24255043268203735},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.2061634361743927}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1117/12.2654943","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1117/12.2654943","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Medical Imaging 2023: Digital and Computational Pathology","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W197812291","https://openalex.org/W2228116816","https://openalex.org/W2414141389","https://openalex.org/W2349640933","https://openalex.org/W2514299822","https://openalex.org/W2499263060","https://openalex.org/W2133282979","https://openalex.org/W2134192859","https://openalex.org/W2384240029","https://openalex.org/W2470372846"],"abstract_inverted_index":{"ER,":[0,136,196],"PR":[1],"(estrogen,":[2],"progesterone":[3],"receptor),":[4],"and":[5,18,83,90,101,147,179,197],"HER2":[6],"(human":[7],"epidermal":[8],"growth":[9],"factor":[10],"receptor":[11],"2)":[12],"status":[13,234],"are":[14],"assessed":[15],"using":[16,107,228],"immunohistochemistry":[17],"reported":[19],"in":[20,68],"standard":[21],"clinical":[22],"workflows":[23],"as":[24,40,115,152,191],"they":[25],"provide":[26],"valuable":[27],"information":[28],"to":[29,51,72,170,231],"help":[30],"treatment":[31],"planning.":[32],"The":[33,55],"protein":[34],"Ki67":[35],"has":[36],"also":[37],"been":[38],"suggested":[39],"a":[41,116,176,184],"prognostic":[42],"biomarker":[43],"but":[44],"is":[45,70],"not":[46],"routinely":[47],"evaluated":[48],"clinically":[49],"due":[50],"insufficient":[52],"quality":[53],"assurance.":[54],"routine":[56],"pathological":[57],"practice":[58],"usually":[59],"relies":[60],"on":[61,158,183],"small":[62],"biopsies,":[63],"such":[64],"that":[65],"the":[66,92,144,159,181,189,199,203,225,240],"reduction":[67],"consumption":[69],"necessary":[71],"save":[73],"materials":[74],"for":[75,88,187,195,202],"special":[76],"assays.":[77],"For":[78,135],"this":[79,120],"purpose,":[80],"we":[81,122,137],"developed":[82],"validated":[84,180],"an":[85],"automatic":[86],"system":[87],"segmenting":[89],"identifying":[91],"(ER,":[93],"PR,":[94],"HER2,":[95],"Ki67)":[96],"positive":[97,154,192],"cells":[98,190],"from":[99,128,143,239],"h\u00e6matoxylin":[100],"eosin":[102],"(H&E)":[103],"stained":[104],"tissue":[105],"sections":[106],"multiplexed":[108],"immunofluorescence":[109],"(MxIF)":[110],"images":[111,141,146],"at":[112,235],"cellular":[113,236],"level":[114,237],"reference":[117],"standard.":[118],"In":[119],"study,":[121],"used":[123],"100":[124],"tissue-microarray":[125],"cores":[126],"sampled":[127],"56":[129],"cases":[130],"of":[131,212,227],"invasive":[132],"breast":[133],"cancer.":[134],"extracted":[138],"cell":[139,150,164],"nucleus":[140,151],"(HoverNet)":[142],"H&E":[145,169,241],"assigned":[148],"each":[149],"ER":[153],"vs.":[155,193],"negative":[156,194],"based":[157],"corresponding":[160],"MxIF":[161,171],"signals":[162],"(whole":[163],"segmentation":[165],"with":[166],"DeepCSeg)":[167],"upon":[168],"image":[172],"registration.":[173],"We":[174,207],"trained":[175],"Res-Net":[177],"18":[178],"model":[182],"separate":[185],"test-set":[186],"classifying":[188],"performed":[198],"same":[200],"experiment":[201],"other":[204],"three":[205],"markers.":[206],"obtained":[208],"area-under-the-":[209],"receiver-operating-characteristic-curves":[210],"(AUCs)":[211],"0.82":[213,219],"(ER),":[214],"0.85":[215],"(PR),":[216],"0.75":[217],"(HER2),":[218],"(Ki67)":[220],"respectively.":[221],"Our":[222],"study":[223],"demonstrates":[224],"feasibility":[226],"machine":[229],"learning":[230],"identify":[232],"molecular":[233],"directly":[238],"slides.":[242]},"counts_by_year":[{"year":2024,"cited_by_count":3}],"updated_date":"2026-01-20T23:28:44.954186","created_date":"2025-10-10T00:00:00"}
