{"id":"https://openalex.org/W4362694504","doi":"https://doi.org/10.1117/12.2653946","title":"Integrated image-processing and transcriptomic analysis of cancer-associated fibroblasts (CAFs) in breast cancer subtypes","display_name":"Integrated image-processing and transcriptomic analysis of cancer-associated fibroblasts (CAFs) in breast cancer subtypes","publication_year":2023,"publication_date":"2023-04-07","ids":{"openalex":"https://openalex.org/W4362694504","doi":"https://doi.org/10.1117/12.2653946"},"language":"en","primary_location":{"id":"doi:10.1117/12.2653946","is_oa":false,"landing_page_url":"https://doi.org/10.1117/12.2653946","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/A5091661391","display_name":"Alison Cheung","orcid":"https://orcid.org/0000-0003-3978-3121"},"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":true,"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/A5079026127","display_name":"Hassan Besher","orcid":null},"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":"Hassan Besher","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/A5115596117","display_name":"Dan Wang","orcid":"https://orcid.org/0000-0001-7789-6747"},"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":"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/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":"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/A5046895084","display_name":"Yutaka Amemiya","orcid":"https://orcid.org/0000-0002-8057-6709"},"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":"Yutaka Amemiya","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/A5100701920","display_name":"Jianan Chen","orcid":"https://orcid.org/0000-0002-6673-6884"},"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":"Jianan Chen","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/A5029260213","display_name":"Anne L. Martel","orcid":"https://orcid.org/0000-0003-1375-5501"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Anne L. Martel","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022308392","display_name":"Arun Seth","orcid":"https://orcid.org/0000-0002-5715-8736"},"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":"Arun Seth","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":"last","author":{"id":"https://openalex.org/A5069586144","display_name":"Martin J. Yaffe","orcid":"https://orcid.org/0000-0002-7227-9915"},"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":"Martin J. Yaffe","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"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5091661391"],"corresponding_institution_ids":["https://openalex.org/I4210167439","https://openalex.org/I4391768120"],"apc_list":null,"apc_paid":null,"fwci":0.2377,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.66113347,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":null,"issue":null,"first_page":"54","last_page":"54"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10336","display_name":"Cancer Cells and Metastasis","score":0.9983000159263611,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"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/T10336","display_name":"Cancer Cells and Metastasis","score":0.9983000159263611,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"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/T12422","display_name":"Radiomics and Machine Learning in Medical Imaging","score":0.9977999925613403,"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/T10158","display_name":"Cancer Immunotherapy and Biomarkers","score":0.9965999722480774,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"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/cancer-associated-fibroblasts","display_name":"Cancer-Associated Fibroblasts","score":0.730333685874939},{"id":"https://openalex.org/keywords/tumor-microenvironment","display_name":"Tumor microenvironment","score":0.6579452157020569},{"id":"https://openalex.org/keywords/breast-cancer","display_name":"Breast cancer","score":0.6186721920967102},{"id":"https://openalex.org/keywords/cancer-research","display_name":"Cancer research","score":0.5496604442596436},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.5333442687988281},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4699167311191559},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.423622190952301},{"id":"https://openalex.org/keywords/tumor-progression","display_name":"Tumor progression","score":0.4218767285346985},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.4168100953102112},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.39537513256073},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.27182668447494507},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2609332799911499},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.21515920758247375},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.21371030807495117},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.08800336718559265}],"concepts":[{"id":"https://openalex.org/C2909706936","wikidata":"https://www.wikidata.org/wiki/Q42417562","display_name":"Cancer-Associated Fibroblasts","level":4,"score":0.730333685874939},{"id":"https://openalex.org/C2776107976","wikidata":"https://www.wikidata.org/wiki/Q1786433","display_name":"Tumor microenvironment","level":3,"score":0.6579452157020569},{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.6186721920967102},{"id":"https://openalex.org/C502942594","wikidata":"https://www.wikidata.org/wiki/Q3421914","display_name":"Cancer research","level":1,"score":0.5496604442596436},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.5333442687988281},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4699167311191559},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.423622190952301},{"id":"https://openalex.org/C2779256057","wikidata":"https://www.wikidata.org/wiki/Q16909647","display_name":"Tumor progression","level":3,"score":0.4218767285346985},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.4168100953102112},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.39537513256073},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.27182668447494507},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2609332799911499},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.21515920758247375},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.21371030807495117},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.08800336718559265}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1117/12.2653946","is_oa":false,"landing_page_url":"https://doi.org/10.1117/12.2653946","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":[{"score":0.8299999833106995,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W4312823718","https://openalex.org/W2362034133","https://openalex.org/W2158770220","https://openalex.org/W2256616461","https://openalex.org/W4200547365","https://openalex.org/W4386836027","https://openalex.org/W3096600782","https://openalex.org/W4313339714","https://openalex.org/W3205593170","https://openalex.org/W4221035797"],"abstract_inverted_index":{"The":[0],"tumor":[1],"microenvironment":[2],"(TME)":[3],"plays":[4],"an":[5,199],"important":[6],"role":[7],"in":[8,60,160,186],"driving":[9],"cancer":[10,109,151,162],"progression":[11],"and":[12,29,34,64,77,98,103,123,133,137,163,174,206],"affecting":[13],"treatment":[14],"efficacy.":[15],"Cellular":[16],"components":[17],"of":[18,45,85,93,116,128,145,156,167,182,195,202],"the":[19,49,83,91,113,125,143,164],"TME":[20],"include":[21],"various":[22,86,117],"immune":[23,38],"subsets":[24,119],"(tumor":[25],"infiltrating":[26],"lymphocytes":[27],"(TILs)":[28],"macrophages),":[30],"cancer-associated":[31],"fibroblasts":[32],"(CAFs)":[33],"vascular":[35],"cells.":[36],"While":[37],"lineage":[39],"has":[40],"been":[41,54],"a":[42,67,192],"main":[43],"focus":[44],"intensive":[46],"research":[47],"on":[48,90],"TME,":[50],"CAFs":[51,185],"have":[52],"also":[53],"shown":[55],"to":[56],"be":[57],"highly":[58],"heterogeneous":[59,126],"their":[61,105],"molecular":[62],"phenotype":[63,213],"function.":[65],"Using":[66],"protein":[68],"marker":[69],"immunofluorescence":[70],"multiplexing":[71],"system":[72],"(Cell":[73],"DIVE,":[74],"Leica":[75],"Microsystems)":[76],"quantitative":[78],"imaging":[79],"tools,":[80],"we":[81],"investigated":[82],"identity":[84],"CAF":[87,118,146,157,203],"clusters":[88,129,147],"based":[89],"expression":[92,208],"&alpha;-Smooth":[94],"Muscle":[95],"Actin":[96],"(&alpha;SMA)":[97],"Fibroblast":[99],"Activation":[100],"Protein":[101],"(FAP),":[102],"compared":[104],"distributions":[106],"across":[107],"breast":[108,150,188],"subtypes.":[110,152],"We":[111,140,178],"determined":[112],"cell":[114],"counts":[115],"using":[120,130],"binary":[121],"counting":[122],"identified":[124,211],"presentations":[127],"K-means":[131],"clustering":[132],"Uniform":[134],"Manifold":[135],"Approximation":[136],"Projection":[138],"(UMAP).":[139],"found":[141],"that":[142,190],"abundance":[144],"varied":[148],"among":[149],"An":[153],"integrated":[154],"analysis":[155,201],"cluster":[158,204],"composition":[159,205],"each":[161],"transcriptomic":[165],"data":[166],"CAF-associated":[168,196],"genes":[169],"such":[170],"as":[171],"CD29,":[172],"IL6":[173],"PDGFR&beta;":[175],"was":[176,214,219],"performed.":[177],"observed":[179],"increased":[180],"densities":[181],"proliferative,":[183],"&alpha;SMA-positive":[184],"basal-like":[187],"cancers":[189],"exhibited":[191],"co-expression":[193],"signature":[194],"genes.":[197],"Finally,":[198],"association":[200],"gene":[207],"with":[209],"previously":[210],"radiomic":[212],"performed,":[215],"but":[216],"significant":[217],"correlation":[218],"not":[220],"detected.":[221]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
