{"id":"https://openalex.org/W4405427503","doi":"https://doi.org/10.1145/3698587.3701333","title":"New Spatial Phenotypes from Imaging Uncover Survival Differences for Breast Cancer Patients","display_name":"New Spatial Phenotypes from Imaging Uncover Survival Differences for Breast Cancer Patients","publication_year":2024,"publication_date":"2024-11-22","ids":{"openalex":"https://openalex.org/W4405427503","doi":"https://doi.org/10.1145/3698587.3701333","pmid":"https://pubmed.ncbi.nlm.nih.gov/40620540"},"language":"en","primary_location":{"id":"doi:10.1145/3698587.3701333","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3698587.3701333","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 15th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12228512/pdf/nihms-2090167.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5037795630","display_name":"Mahmudul Hasan","orcid":"https://orcid.org/0000-0002-4386-0356"},"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":"Mahmudul Hasan","raw_affiliation_strings":["Stony Brook University, Stony Brook, NY, USA"],"raw_orcid":"https://orcid.org/0000-0002-4386-0356","affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113330413","display_name":"Ariadna Kim Silva","orcid":null},"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":"Ariadna Kim Silva","raw_affiliation_strings":["Stony Brook University, Stony Brook, NY, USA"],"raw_orcid":"https://orcid.org/0009-0005-5840-3018","affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023386865","display_name":"Shahira Abousamra","orcid":"https://orcid.org/0000-0001-6214-1923"},"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":"Shahira Abousamra","raw_affiliation_strings":["Stony Brook University, Stony Brook, NY, USA"],"raw_orcid":"https://orcid.org/0000-0001-6214-1923","affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038577267","display_name":"Shao\u2010Jun Tang","orcid":"https://orcid.org/0000-0002-6076-5481"},"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":"Shao-Jun Tang","raw_affiliation_strings":["Stony Brook University, Stony Brook, NY, USA"],"raw_orcid":"https://orcid.org/0000-0002-6076-5481","affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036343196","display_name":"Prateek Prasanna","orcid":"https://orcid.org/0000-0002-3068-3573"},"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":"Prateek Prasanna","raw_affiliation_strings":["Stony Brook University, Stony Brook, NY, USA"],"raw_orcid":"https://orcid.org/0000-0002-3068-3573","affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072946826","display_name":"Joel Saltz","orcid":"https://orcid.org/0000-0002-3451-2165"},"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":"Joel Saltz","raw_affiliation_strings":["Stony Brook University, Stony Brook, NY, USA"],"raw_orcid":"https://orcid.org/0000-0002-3451-2165","affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065904579","display_name":"Kevin Gardner","orcid":"https://orcid.org/0000-0001-8018-4353"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kevin Gardner","raw_affiliation_strings":["Columbia University, New York, NY, USA"],"raw_orcid":"https://orcid.org/0000-0001-8018-4353","affiliations":[{"raw_affiliation_string":"Columbia University, New York, NY, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100408397","display_name":"Chao Chen","orcid":"https://orcid.org/0000-0003-1703-6483"},"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":"Chao Chen","raw_affiliation_strings":["Stony Brook University, Stony Brook, NY, USA"],"raw_orcid":"https://orcid.org/0000-0003-1703-6483","affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5085153139","display_name":"Alisa Yurovsky","orcid":"https://orcid.org/0000-0002-7500-7907"},"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":"Alisa Yurovsky","raw_affiliation_strings":["Stony Brook University, Stony Brook, NY, USA"],"raw_orcid":"https://orcid.org/0000-0002-7500-7907","affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony Brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":3.9821,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.92964072,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"2024","issue":null,"first_page":"1","last_page":"12"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10183","display_name":"Breast Cancer Treatment Studies","score":0.9912999868392944,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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"}},"topics":[{"id":"https://openalex.org/T10183","display_name":"Breast Cancer Treatment Studies","score":0.9912999868392944,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T14393","display_name":"Health, Environment, Cognitive Aging","score":0.9873999953269958,"subfield":{"id":"https://openalex.org/subfields/2307","display_name":"Health, Toxicology and Mutagenesis"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental 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":0.986299991607666,"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":0.7210625410079956},{"id":"https://openalex.org/keywords/phenotype","display_name":"Phenotype","score":0.5896713733673096},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4324692189693451},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.3947037160396576},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.3830098807811737},{"id":"https://openalex.org/keywords/oncology","display_name":"Oncology","score":0.3718438446521759},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.3464745879173279},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.32754647731781006},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2484528124332428},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1424700915813446},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1035405695438385}],"concepts":[{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.7210625410079956},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.5896713733673096},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4324692189693451},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.3947037160396576},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.3830098807811737},{"id":"https://openalex.org/C143998085","wikidata":"https://www.wikidata.org/wiki/Q162555","display_name":"Oncology","level":1,"score":0.3718438446521759},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.3464745879173279},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.32754647731781006},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2484528124332428},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1424700915813446},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1035405695438385}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1145/3698587.3701333","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3698587.3701333","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 15th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","raw_type":"proceedings-article"},{"id":"pmid:40620540","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40620540","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":"ACM-BCB ... ... : the ... ACM Conference on Bioinformatics, Computational Biology and Biomedicine. ACM Conference on Bioinformatics, Computational Biology and Biomedicine","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:12228512","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12228512","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12228512/pdf/nihms-2090167.pdf","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":"ACM BCB","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:12228512","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12228512","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12228512/pdf/nihms-2090167.pdf","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":"ACM BCB","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1094657355","display_name":null,"funder_award_id":"R01DA057195","funder_id":"https://openalex.org/F4320337347","funder_display_name":"National Institute on Drug Abuse"},{"id":"https://openalex.org/G1147993643","display_name":null,"funder_award_id":"R01 CA297843","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G1512156681","display_name":null,"funder_award_id":"R01GM148970","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G1525668854","display_name":null,"funder_award_id":"R21CA258493","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G2300167322","display_name":null,"funder_award_id":"R01 GM148970","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G3591930722","display_name":null,"funder_award_id":"R01CA297843-01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3719379685","display_name":null,"funder_award_id":"R01DA057195","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4236750994","display_name":null,"funder_award_id":"R01 CA266040","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G5818532151","display_name":null,"funder_award_id":"R21CA258493-2S1","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6761983030","display_name":null,"funder_award_id":"R01CA253368","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G7074379629","display_name":null,"funder_award_id":"R21CA258493","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7279008857","display_name":null,"funder_award_id":"R01GM148970, R01CA253368, R01CA266040, R01CA253368, R01CA297843-01, R21CA258493-2S1, R21CA258493-02, R01DA057195","funder_id":"https://openalex.org/F4320323817","funder_display_name":"Universitas Brawijaya"},{"id":"https://openalex.org/G7298959656","display_name":null,"funder_award_id":"R01CA253368","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7991794716","display_name":null,"funder_award_id":"R21CA258493-02","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8033045131","display_name":null,"funder_award_id":"R01CA266040","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320323817","display_name":"Universitas Brawijaya","ror":"https://ror.org/01wk3d929"},{"id":"https://openalex.org/F4320331904","display_name":"Stony Brook University","ror":"https://ror.org/05qghxh33"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337347","display_name":"National Institute on Drug Abuse","ror":"https://ror.org/00fq5cm18"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4405427503.pdf","grobid_xml":"https://content.openalex.org/works/W4405427503.grobid-xml"},"referenced_works_count":19,"referenced_works":["https://openalex.org/W2043565262","https://openalex.org/W2122111042","https://openalex.org/W2296650473","https://openalex.org/W2585179645","https://openalex.org/W2800728191","https://openalex.org/W2949238013","https://openalex.org/W3012758846","https://openalex.org/W3017374234","https://openalex.org/W3128345652","https://openalex.org/W3162269932","https://openalex.org/W3202604077","https://openalex.org/W4200416146","https://openalex.org/W4206693544","https://openalex.org/W4210583065","https://openalex.org/W4220837089","https://openalex.org/W4321112079","https://openalex.org/W4376643112","https://openalex.org/W4377093458","https://openalex.org/W4386333061"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W4405112912","https://openalex.org/W2375584271","https://openalex.org/W1997105855","https://openalex.org/W1840542775","https://openalex.org/W2416830231","https://openalex.org/W4301030387","https://openalex.org/W2414286769","https://openalex.org/W2013223288","https://openalex.org/W2892677547"],"abstract_inverted_index":{"Imaging":[0],"technologies":[1],"have":[2,40],"revolutionized":[3],"the":[4,7,17,65,136,159,172,175],"study":[5],"of":[6,19,82,125,138,161,174,178],"tumor":[8],"microenvironment":[9],"(TME)":[10],"by":[11],"leveraging":[12],"spatial":[13,37,62,83,93,113,164,179],"analysis,":[14],"which":[15],"enables":[16],"exploration":[18,177],"tissue":[20],"organization":[21],"and":[22,31,85,102,122,166,170,185],"cellular":[23],"communication,":[24],"as":[25,27,67,143],"well":[26],"aiding":[28],"cancer":[29],"diagnosis":[30,184],"prognosis.":[32],"However,":[33],"while":[34],"many":[35],"advanced":[36],"analysis":[38,101,165],"methods":[39],"been":[41],"recently":[42],"published,":[43],"they":[44],"are":[45,133],"enmeshed":[46],"with":[47,115],"specific":[48,139,153],"imaging":[49],"technology.":[50],"An":[51],"opportunity":[52],"exists":[53],"to":[54,69,108,117,135],"develop":[55],"a":[56,79,86],"technology-agnostic":[57],"methodology":[58,107],"that":[59,90,95,132,149],"captures":[60],"complex":[61],"patterns":[63],"in":[64,71,99],"TME":[66],"phenotypes":[68,94,114,131,151,180],"use":[70],"downstream":[72],"tasks.":[73,104],"In":[74],"this":[75],"paper,":[76],"we":[77,111],"present":[78],"novel":[80],"variation":[81],"g-function":[84],"comprehensive":[87],"imaging-technology-agnostic":[88],"framework":[89],"identifies":[91],"rich":[92],"can":[96],"be":[97],"used":[98],"survival":[100,118,137],"classification":[103],"Applying":[105],"our":[106,150,162],"breast":[109,126],"cancer,":[110],"uncover":[112],"significance":[116],"across":[119],"racial":[120],"groups":[121],"molecular":[123],"subtypes":[124],"cancer.":[127],"We":[128,146],"find":[129],"other":[130],"significant":[134],"patient":[140],"categories":[141],"(such":[142],"African":[144],"American).":[145],"also":[147],"demonstrate":[148,171],"reflect":[152],"biological":[154],"contexts.":[155],"These":[156],"results":[157],"highlight":[158],"relevance":[160],"proposed":[163],"phenotype":[167],"discovery":[168],"pipeline":[169],"benefits":[173],"systematic":[176],"for":[181],"more":[182],"personalized":[183],"treatments.":[186]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}
