{"id":"https://openalex.org/W4400552057","doi":"https://doi.org/10.1038/s42256-024-00866-y","title":"An interpretable deep learning framework for genome-informed precision oncology","display_name":"An interpretable deep learning framework for genome-informed precision oncology","publication_year":2024,"publication_date":"2024-07-11","ids":{"openalex":"https://openalex.org/W4400552057","doi":"https://doi.org/10.1038/s42256-024-00866-y"},"language":"en","primary_location":{"id":"doi:10.1038/s42256-024-00866-y","is_oa":false,"landing_page_url":"https://doi.org/10.1038/s42256-024-00866-y","pdf_url":null,"source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-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/A5009793909","display_name":"Shuangxia Ren","orcid":"https://orcid.org/0000-0001-6591-0695"},"institutions":[{"id":"https://openalex.org/I4210105785","display_name":"Intelligent Systems Research (United States)","ror":"https://ror.org/01reevc91","country_code":"US","type":"company","lineage":["https://openalex.org/I4210105785"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shuangxia Ren","raw_affiliation_strings":["Intelligent Systems Program, School of Computing and Information, Pittsburgh, PA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Intelligent Systems Program, School of Computing and Information, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I4210105785"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039985406","display_name":"Gregory F. Cooper","orcid":"https://orcid.org/0000-0002-9276-773X"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]},{"id":"https://openalex.org/I4210105785","display_name":"Intelligent Systems Research (United States)","ror":"https://ror.org/01reevc91","country_code":"US","type":"company","lineage":["https://openalex.org/I4210105785"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gregory F. Cooper","raw_affiliation_strings":["Department of Biomedical Informatics, School of Medicine, Pittsburgh, PA, USA","Intelligent Systems Program, School of Computing and Information, Pittsburgh, PA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, School of Medicine, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Intelligent Systems Program, School of Computing and Information, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I4210105785"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101855033","display_name":"Lujia Chen","orcid":"https://orcid.org/0000-0003-4157-0440"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lujia Chen","raw_affiliation_strings":["Department of Biomedical Informatics, School of Medicine, Pittsburgh, PA, USA"],"raw_orcid":"https://orcid.org/0000-0003-4157-0440","affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, School of Medicine, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046515259","display_name":"Xinghua Lu","orcid":"https://orcid.org/0000-0002-8599-2269"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]},{"id":"https://openalex.org/I4210105785","display_name":"Intelligent Systems Research (United States)","ror":"https://ror.org/01reevc91","country_code":"US","type":"company","lineage":["https://openalex.org/I4210105785"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Xinghua Lu","raw_affiliation_strings":["Department of Biomedical Informatics, School of Medicine, Pittsburgh, PA, USA","Department of Pharmaceutical Sciences, School of Pharmacy, University of Pittsburgh, Pittsburgh, PA, USA","Intelligent Systems Program, School of Computing and Information, Pittsburgh, PA, USA"],"raw_orcid":"https://orcid.org/0000-0002-8599-2269","affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, School of Medicine, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Department of Pharmaceutical Sciences, School of Pharmacy, University of Pittsburgh, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Intelligent Systems Program, School of Computing and Information, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I4210105785"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5046515259"],"corresponding_institution_ids":["https://openalex.org/I170201317","https://openalex.org/I4210105785"],"apc_list":{"value":11690,"currency":"USD","value_usd":11690},"apc_paid":null,"fwci":1.1068,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.77043926,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":98},"biblio":{"volume":"6","issue":"8","first_page":"864","last_page":"875"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9994999766349792,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9994999766349792,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.993399977684021,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"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":0.986299991607666,"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/precision-oncology","display_name":"Precision oncology","score":0.496415913105011},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.48812875151634216},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.46000224351882935},{"id":"https://openalex.org/keywords/oncology","display_name":"Oncology","score":0.45570310950279236},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.43386131525039673},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.4222361445426941},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.41112658381462097},{"id":"https://openalex.org/keywords/precision-medicine","display_name":"Precision medicine","score":0.3486616015434265},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3415113091468811},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2752661108970642},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.16061222553253174},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.14567694067955017},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11907893419265747}],"concepts":[{"id":"https://openalex.org/C3020497934","wikidata":"https://www.wikidata.org/wiki/Q17075943","display_name":"Precision oncology","level":3,"score":0.496415913105011},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.48812875151634216},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.46000224351882935},{"id":"https://openalex.org/C143998085","wikidata":"https://www.wikidata.org/wiki/Q162555","display_name":"Oncology","level":1,"score":0.45570310950279236},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.43386131525039673},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.4222361445426941},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.41112658381462097},{"id":"https://openalex.org/C163763905","wikidata":"https://www.wikidata.org/wiki/Q17075943","display_name":"Precision medicine","level":2,"score":0.3486616015434265},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3415113091468811},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2752661108970642},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.16061222553253174},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14567694067955017},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11907893419265747}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1038/s42256-024-00866-y","is_oa":false,"landing_page_url":"https://doi.org/10.1038/s42256-024-00866-y","pdf_url":null,"source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4570791775","display_name":null,"funder_award_id":"5R01LM012011","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"}],"funders":[{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":43,"referenced_works":["https://openalex.org/W2019607817","https://openalex.org/W2044433401","https://openalex.org/W2075294566","https://openalex.org/W2108068107","https://openalex.org/W2129769331","https://openalex.org/W2144940507","https://openalex.org/W2161446823","https://openalex.org/W2164837623","https://openalex.org/W2179763962","https://openalex.org/W2196212938","https://openalex.org/W2225391592","https://openalex.org/W2329659234","https://openalex.org/W2416657206","https://openalex.org/W2461427403","https://openalex.org/W2507626327","https://openalex.org/W2513408092","https://openalex.org/W2767593474","https://openalex.org/W2772692099","https://openalex.org/W2789316282","https://openalex.org/W2796153225","https://openalex.org/W2796408191","https://openalex.org/W2802321540","https://openalex.org/W2921591500","https://openalex.org/W2955700432","https://openalex.org/W2991290051","https://openalex.org/W3004781275","https://openalex.org/W3005948817","https://openalex.org/W3014115276","https://openalex.org/W3020913839","https://openalex.org/W3034458155","https://openalex.org/W3036860998","https://openalex.org/W3092241364","https://openalex.org/W3102235967","https://openalex.org/W3212461952","https://openalex.org/W4220859775","https://openalex.org/W4226022450","https://openalex.org/W4283715160","https://openalex.org/W4294541781","https://openalex.org/W4306353195","https://openalex.org/W4385400327","https://openalex.org/W4391567502","https://openalex.org/W6967438462","https://openalex.org/W6977030018"],"related_works":["https://openalex.org/W2751417344","https://openalex.org/W4392240901","https://openalex.org/W4224251126","https://openalex.org/W4390733788","https://openalex.org/W3207060480","https://openalex.org/W4390777827","https://openalex.org/W3161674486","https://openalex.org/W4200579603","https://openalex.org/W3120951142","https://openalex.org/W4361008886"],"abstract_inverted_index":null,"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":4}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}