{"id":"https://openalex.org/W4291250580","doi":"https://doi.org/10.1093/bioinformatics/btac558","title":"A spatial attention guided deep learning system for prediction of pathological complete response using breast cancer histopathology images","display_name":"A spatial attention guided deep learning system for prediction of pathological complete response using breast cancer histopathology images","publication_year":2022,"publication_date":"2022-08-13","ids":{"openalex":"https://openalex.org/W4291250580","doi":"https://doi.org/10.1093/bioinformatics/btac558","pmid":"https://pubmed.ncbi.nlm.nih.gov/35962988"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btac558","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac558","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/19/4605/46222009/btac558.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/38/19/4605/46222009/btac558.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5090147550","display_name":"Hongyi Duanmu","orcid":"https://orcid.org/0000-0002-5707-0515"},"institutions":[{"id":"https://openalex.org/I59553526","display_name":"Stony Brook University","ror":"https://ror.org/05qghxh33","country_code":"US","type":"education","lineage":["https://openalex.org/I59553526"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Hongyi Duanmu","raw_affiliation_strings":["Department of Computer Science, Stony Brook University , Stony Brook, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Stony Brook University , Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101509673","display_name":"Shristi Bhattarai","orcid":"https://orcid.org/0000-0002-6639-057X"},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shristi Bhattarai","raw_affiliation_strings":["Department of Biology, Georgia State University , Atlanta, GA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Georgia State University , Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101824486","display_name":"Hongxiao Li","orcid":"https://orcid.org/0000-0002-6114-8215"},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hongxiao Li","raw_affiliation_strings":["Department of Mathematics and Statistics and Computer Science, Georgia State University , Atlanta, GA, USA"],"raw_orcid":"https://orcid.org/0000-0002-6114-8215","affiliations":[{"raw_affiliation_string":"Department of Mathematics and Statistics and Computer Science, Georgia State University , Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086314063","display_name":"Zhan Shi","orcid":"https://orcid.org/0000-0002-7798-1121"},"institutions":[{"id":"https://openalex.org/I59553526","display_name":"Stony Brook University","ror":"https://ror.org/05qghxh33","country_code":"US","type":"education","lineage":["https://openalex.org/I59553526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhan Shi","raw_affiliation_strings":["Department of Computer Science, Stony Brook University , Stony Brook, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Stony Brook University , Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100704639","display_name":"Fusheng Wang","orcid":"https://orcid.org/0000-0002-9369-9361"},"institutions":[{"id":"https://openalex.org/I59553526","display_name":"Stony Brook University","ror":"https://ror.org/05qghxh33","country_code":"US","type":"education","lineage":["https://openalex.org/I59553526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Fusheng Wang","raw_affiliation_strings":["Department of Biomedical Informatics, Stony Brook University , Stony Brook, NY, USA","Department of Computer Science, Stony Brook University , Stony Brook, NY, USA"],"raw_orcid":"https://orcid.org/0000-0002-9369-9361","affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, Stony Brook University , Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]},{"raw_affiliation_string":"Department of Computer Science, Stony Brook University , Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076465098","display_name":"George Teodoro","orcid":"https://orcid.org/0000-0001-6289-3914"},"institutions":[{"id":"https://openalex.org/I110200422","display_name":"Universidade Federal de Minas Gerais","ror":"https://ror.org/0176yjw32","country_code":"BR","type":"education","lineage":["https://openalex.org/I110200422"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"George Teodoro","raw_affiliation_strings":["Department of Computer Science, Federal University of Minas Gerais , Belo Horizonte, MG, Brazil"],"raw_orcid":"https://orcid.org/0000-0001-6289-3914","affiliations":[{"raw_affiliation_string":"Department of Computer Science, Federal University of Minas Gerais , Belo Horizonte, MG, Brazil","institution_ids":["https://openalex.org/I110200422"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078752481","display_name":"Keerthi Gogineni","orcid":"https://orcid.org/0000-0002-9822-797X"},"institutions":[{"id":"https://openalex.org/I150468666","display_name":"Emory University","ror":"https://ror.org/03czfpz43","country_code":"US","type":"education","lineage":["https://openalex.org/I150468666"]},{"id":"https://openalex.org/I4210092882","display_name":"Grady Health System","ror":"https://ror.org/00k1xr956","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210092882"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Keerthi Gogineni","raw_affiliation_strings":["Department of Hematology-Medical Oncology, Winship Cancer Institute, Emory University School of Medicine , Atlanta, GA, USA","Department of Surgery, Winship Cancer Institute, Emory University School of Medicine , Atlanta, GA, USA","Georgia Cancer Center for Excellence, Grady Health System , Atlanta, GA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Hematology-Medical Oncology, Winship Cancer Institute, Emory University School of Medicine , Atlanta, GA, USA","institution_ids":["https://openalex.org/I150468666"]},{"raw_affiliation_string":"Department of Surgery, Winship Cancer Institute, Emory University School of Medicine , Atlanta, GA, USA","institution_ids":["https://openalex.org/I150468666"]},{"raw_affiliation_string":"Georgia Cancer Center for Excellence, Grady Health System , Atlanta, GA, USA","institution_ids":["https://openalex.org/I4210092882"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042955897","display_name":"Preeti Subhedar","orcid":"https://orcid.org/0000-0003-4527-0402"},"institutions":[{"id":"https://openalex.org/I4210092882","display_name":"Grady Health System","ror":"https://ror.org/00k1xr956","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210092882"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Preeti Subhedar","raw_affiliation_strings":["Georgia Cancer Center for Excellence, Grady Health System , Atlanta, GA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Georgia Cancer Center for Excellence, Grady Health System , Atlanta, GA, USA","institution_ids":["https://openalex.org/I4210092882"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025905653","display_name":"Umay Kiraz","orcid":"https://orcid.org/0000-0002-6721-4877"},"institutions":[{"id":"https://openalex.org/I2800132241","display_name":"Stavanger University Hospital","ror":"https://ror.org/04zn72g03","country_code":"NO","type":"healthcare","lineage":["https://openalex.org/I2800132241"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Umay Kiraz","raw_affiliation_strings":["Department of Pathology, Stavanger University Hospital , Stavanger, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology, Stavanger University Hospital , Stavanger, Norway","institution_ids":["https://openalex.org/I2800132241"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003110329","display_name":"Emiel A. M. Janssen","orcid":"https://orcid.org/0000-0002-7760-5396"},"institutions":[{"id":"https://openalex.org/I2800132241","display_name":"Stavanger University Hospital","ror":"https://ror.org/04zn72g03","country_code":"NO","type":"healthcare","lineage":["https://openalex.org/I2800132241"]},{"id":"https://openalex.org/I92008406","display_name":"University of Stavanger","ror":"https://ror.org/02qte9q33","country_code":"NO","type":"education","lineage":["https://openalex.org/I92008406"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Emiel A M Janssen","raw_affiliation_strings":["Department of Chemistry, Bioscience and Environmental Engineering, University of Stavanger , Stavanger, Norway","Department of Pathology, Stavanger University Hospital , Stavanger, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemistry, Bioscience and Environmental Engineering, University of Stavanger , Stavanger, Norway","institution_ids":["https://openalex.org/I92008406"]},{"raw_affiliation_string":"Department of Pathology, Stavanger University Hospital , Stavanger, Norway","institution_ids":["https://openalex.org/I2800132241"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019846100","display_name":"Ritu Aneja","orcid":"https://orcid.org/0000-0003-4489-5320"},"institutions":[{"id":"https://openalex.org/I32389192","display_name":"University of Alabama at Birmingham","ror":"https://ror.org/008s83205","country_code":"US","type":"education","lineage":["https://openalex.org/I32389192"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ritu Aneja","raw_affiliation_strings":["Department of Clinical and Diagnostic Sciences, School of Health Professions, University of Alabama at Birmingham , Birmingham, AL, USA"],"raw_orcid":"https://orcid.org/0000-0003-4489-5320","affiliations":[{"raw_affiliation_string":"Department of Clinical and Diagnostic Sciences, School of Health Professions, University of Alabama at Birmingham , Birmingham, AL, USA","institution_ids":["https://openalex.org/I32389192"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5066949209","display_name":"Jun Kong","orcid":"https://orcid.org/0000-0001-8757-8339"},"institutions":[{"id":"https://openalex.org/I150468666","display_name":"Emory University","ror":"https://ror.org/03czfpz43","country_code":"US","type":"education","lineage":["https://openalex.org/I150468666"]},{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jun Kong","raw_affiliation_strings":["Department of Mathematics and Statistics and Computer Science, Georgia State University , Atlanta, GA, USA","Winship Cancer Institute, Emory University , Atlanta, GA, USA"],"raw_orcid":"https://orcid.org/0000-0001-8757-8339","affiliations":[{"raw_affiliation_string":"Department of Mathematics and Statistics and Computer Science, Georgia State University , Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]},{"raw_affiliation_string":"Winship Cancer Institute, Emory University , Atlanta, GA, USA","institution_ids":["https://openalex.org/I150468666"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":12,"corresponding_author_ids":["https://openalex.org/A5066949209","https://openalex.org/A5090147550"],"corresponding_institution_ids":["https://openalex.org/I150468666","https://openalex.org/I181565077","https://openalex.org/I59553526"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":5.2732,"has_fulltext":false,"cited_by_count":44,"citation_normalized_percentile":{"value":0.9607407,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"38","issue":"19","first_page":"4605","last_page":"4612"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10862","display_name":"AI in cancer detection","score":0.9765999913215637,"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":0.9765999913215637,"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/T12422","display_name":"Radiomics and Machine Learning in Medical Imaging","score":0.0038999998942017555,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.002300000051036477,"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/deep-learning","display_name":"Deep learning","score":0.7430559992790222},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7092150449752808},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.705345630645752},{"id":"https://openalex.org/keywords/digital-pathology","display_name":"Digital pathology","score":0.6821568012237549},{"id":"https://openalex.org/keywords/h-e-stain","display_name":"H&E stain","score":0.6293290853500366},{"id":"https://openalex.org/keywords/breast-cancer","display_name":"Breast cancer","score":0.5953664183616638},{"id":"https://openalex.org/keywords/triple-negative-breast-cancer","display_name":"Triple-negative breast cancer","score":0.5100134611129761},{"id":"https://openalex.org/keywords/interpretability","display_name":"Interpretability","score":0.4984724521636963},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.42577287554740906},{"id":"https://openalex.org/keywords/biopsy","display_name":"Biopsy","score":0.42071953415870667},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3757581412792206},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.3688427209854126},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.33938831090927124},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.309180349111557},{"id":"https://openalex.org/keywords/immunohistochemistry","display_name":"Immunohistochemistry","score":0.2263260781764984},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.10081055760383606}],"concepts":[{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.7430559992790222},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7092150449752808},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.705345630645752},{"id":"https://openalex.org/C2777522853","wikidata":"https://www.wikidata.org/wiki/Q5276128","display_name":"Digital pathology","level":2,"score":0.6821568012237549},{"id":"https://openalex.org/C125473707","wikidata":"https://www.wikidata.org/wiki/Q9914","display_name":"H&E stain","level":3,"score":0.6293290853500366},{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.5953664183616638},{"id":"https://openalex.org/C2780110267","wikidata":"https://www.wikidata.org/wiki/Q7843332","display_name":"Triple-negative breast cancer","level":4,"score":0.5100134611129761},{"id":"https://openalex.org/C2781067378","wikidata":"https://www.wikidata.org/wiki/Q17027399","display_name":"Interpretability","level":2,"score":0.4984724521636963},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.42577287554740906},{"id":"https://openalex.org/C2775934546","wikidata":"https://www.wikidata.org/wiki/Q179991","display_name":"Biopsy","level":2,"score":0.42071953415870667},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3757581412792206},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.3688427209854126},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.33938831090927124},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.309180349111557},{"id":"https://openalex.org/C204232928","wikidata":"https://www.wikidata.org/wiki/Q899285","display_name":"Immunohistochemistry","level":2,"score":0.2263260781764984},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.10081055760383606}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020360","descriptor_name":"Neoadjuvant Therapy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020360","descriptor_name":"Neoadjuvant Therapy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020360","descriptor_name":"Neoadjuvant Therapy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btac558","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac558","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/19/4605/46222009/btac558.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35962988","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35962988","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9525016","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9525016","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btac558","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac558","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/19/4605/46222009/btac558.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6200000047683716,"id":"https://metadata.un.org/sdg/16","display_name":"Peace, Justice and strong institutions"}],"awards":[{"id":"https://openalex.org/G1214367810","display_name":null,"funder_award_id":"R01CA239120","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G1738682854","display_name":null,"funder_award_id":"R01EY028450","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G1769768118","display_name":null,"funder_award_id":"ACI 1443054","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G296514807","display_name":null,"funder_award_id":"U01CA242936","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3377503357","display_name":null,"funder_award_id":"R01CA214928","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6345553273","display_name":null,"funder_award_id":"R01 EY028450","funder_id":"https://openalex.org/F4320337350","funder_display_name":"National Eye Institute"},{"id":"https://openalex.org/G7369241452","display_name":null,"funder_award_id":"U01 CA242936","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G8155502902","display_name":null,"funder_award_id":"IIS 1350885","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G872041588","display_name":null,"funder_award_id":"R01 CA239120","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320322025","display_name":"Conselho Nacional de Desenvolvimento Cient\u00edfico e Tecnol\u00f3gico","ror":"https://ror.org/03swz6y49"},{"id":"https://openalex.org/F4320322980","display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de Minas Gerais","ror":"https://ror.org/00nc55f03"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337350","display_name":"National Eye Institute","ror":"https://ror.org/03wkg3b53"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":36,"referenced_works":["https://openalex.org/W953560957","https://openalex.org/W1551111627","https://openalex.org/W1597336200","https://openalex.org/W2001968322","https://openalex.org/W2005895632","https://openalex.org/W2068554135","https://openalex.org/W2075894019","https://openalex.org/W2081177143","https://openalex.org/W2118605519","https://openalex.org/W2139416101","https://openalex.org/W2147415463","https://openalex.org/W2279691757","https://openalex.org/W2295107390","https://openalex.org/W2302409806","https://openalex.org/W2467126091","https://openalex.org/W2533800772","https://openalex.org/W2615533737","https://openalex.org/W2628196379","https://openalex.org/W2894845372","https://openalex.org/W2919115771","https://openalex.org/W2970546341","https://openalex.org/W3002866765","https://openalex.org/W3019909811","https://openalex.org/W3043535018","https://openalex.org/W3101310341","https://openalex.org/W3105445034","https://openalex.org/W3125885873","https://openalex.org/W3137476832","https://openalex.org/W3164925589","https://openalex.org/W3202997066","https://openalex.org/W3207108953","https://openalex.org/W3211240094","https://openalex.org/W4287533506","https://openalex.org/W6635816984","https://openalex.org/W6697443983","https://openalex.org/W6802885329"],"related_works":["https://openalex.org/W2905433371","https://openalex.org/W2888392564","https://openalex.org/W2065857975","https://openalex.org/W4386103331","https://openalex.org/W3012179402","https://openalex.org/W4214718886","https://openalex.org/W2125942968","https://openalex.org/W4288034278","https://openalex.org/W4387618892","https://openalex.org/W4378952948"],"abstract_inverted_index":{"MOTIVATION:":[0],"Predicting":[1],"pathological":[2],"complete":[3],"response":[4],"(pCR)":[5],"to":[6,44,47,89,132],"neoadjuvant":[7],"chemotherapy":[8],"(NAC)":[9],"in":[10,115],"triple-negative":[11],"breast":[12,105],"cancer":[13],"(TNBC)":[14],"patients":[15,158,168],"accurately":[16],"is":[17,25,130],"direly":[18],"needed":[19],"for":[20,137,213],"clinical":[21,214],"decision":[22,215],"making.":[23,216],"pCR":[24,46],"also":[26],"regarded":[27],"as":[28,171,184],"a":[29,40,83,172,185,199],"strong":[30],"predictor":[31],"of":[32,76,94,98,146,152],"overall":[33],"survival.":[34],"In":[35],"this":[36],"work,":[37],"we":[38,81],"propose":[39],"deep":[41,78,91],"learning":[42,79,92],"system":[43,136],"predict":[45],"NAC":[48],"based":[49],"on":[50,229],"serial":[51,104],"pathology":[52,149],"images":[53,176],"stained":[54,114],"with":[55,160],"hematoxylin":[56],"and":[57,59,64,73,119,175,205,224],"eosin":[58],"two":[60],"immunohistochemical":[61],"biomarkers":[62],"(Ki67":[63],"PHH3).":[65],"To":[66],"support":[67],"human":[68,84],"prior":[69],"domain":[70],"knowledge-based":[71],"guidance":[72],"enhance":[74],"interpretability":[75],"the":[77,127,179,189,222],"system,":[80],"introduce":[82],"knowledge-derived":[85],"spatial":[86],"attention":[87,124],"mechanism":[88],"inform":[90],"models":[93],"informative":[95],"tissue":[96,107,139],"areas":[97],"interest.":[99],"For":[100],"each":[101],"patient,":[102],"three":[103,116],"tumor":[106],"sections":[108],"from":[109,126,155,164,178,192],"biopsy":[110],"blocks":[111],"were":[112],"sectioned,":[113],"different":[117],"stains":[118],"integrated.":[120],"The":[121,142,220],"resulting":[122],"comprehensive":[123],"information":[125],"image":[128,150],"triplets":[129],"used":[131,170,183],"guide":[133],"our":[134,195],"prediction":[135],"prognostic":[138],"regions.":[140],"RESULTS:":[141],"experimental":[143],"dataset":[144,174],"consists":[145],"26":[147],"419":[148],"patches":[151,163,177],"1000\u00d71000":[153],"pixels":[154],"73":[156],"TNBC":[157],"treated":[159],"NAC.":[161],"Image":[162],"randomly":[165],"selected":[166],"43":[167],"are":[169,182,227,239],"training":[173],"rest":[180],"30":[181],"testing":[186],"dataset.":[187],"By":[188],"maximum":[190],"voting":[191],"patch-level":[193],"results,":[194],"proposed":[196],"model":[197],"achieves":[198],"93%":[200],"patient-level":[201],"accuracy,":[202],"outperforming":[203],"baselines":[204],"other":[206],"state-of-the-art":[207],"systems,":[208],"suggesting":[209],"its":[210],"high":[211],"potential":[212],"AVAILABILITY":[217],"AND":[218],"IMPLEMENTATION:":[219],"codes,":[221],"documentation":[223],"example":[225],"data":[226,238],"available":[228,240],"an":[230],"open":[231],"source":[232],"at:":[233],"https://github.com/jkonglab/PCR_Prediction_Serial_WSIs_biomarkers.":[234],"SUPPLEMENTARY":[235],"INFORMATION:":[236],"Supplementary":[237],"at":[241],"Bioinformatics":[242],"online.":[243]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":14},{"year":2024,"cited_by_count":15},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":2}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}