{"id":"https://openalex.org/W4317703006","doi":"https://doi.org/10.1093/bib/bbad023","title":"Biological knowledge graph-guided investigation of immune therapy response in cancer with graph neural network","display_name":"Biological knowledge graph-guided investigation of immune therapy response in cancer with graph neural network","publication_year":2023,"publication_date":"2023-01-21","ids":{"openalex":"https://openalex.org/W4317703006","doi":"https://doi.org/10.1093/bib/bbad023","pmid":"https://pubmed.ncbi.nlm.nih.gov/36682018"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbad023","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbad023","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"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/A5010222360","display_name":"Lianhe Zhao","orcid":"https://orcid.org/0000-0002-7736-2443"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Lianhe Zhao","raw_affiliation_strings":["Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China"],"raw_orcid":"https://orcid.org/0000-0002-7736-2443","affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011192874","display_name":"Xiaoning Qi","orcid":"https://orcid.org/0000-0003-3447-2842"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoning Qi","raw_affiliation_strings":["Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","University of Chinese Academy of Sciences , Beijing 100049 , China"],"raw_orcid":"https://orcid.org/0000-0003-3447-2842","affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"raw_affiliation_string":"University of Chinese Academy of Sciences , Beijing 100049 , China","institution_ids":["https://openalex.org/I4210165038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100350382","display_name":"Yang Chen","orcid":"https://orcid.org/0000-0001-9406-8273"},"institutions":[{"id":"https://openalex.org/I4210091044","display_name":"First People's Hospital of Yunnan Province","ror":"https://ror.org/00c099g34","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210091044"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yang Chen","raw_affiliation_strings":["The First People's Hospital of Yunnan Province , Kunming, 650032, Yunnan , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The First People's Hospital of Yunnan Province , Kunming, 650032, Yunnan , China","institution_ids":["https://openalex.org/I4210091044"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076759043","display_name":"Yixuan Qiao","orcid":null},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yixuan Qiao","raw_affiliation_strings":["Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","University of Chinese Academy of Sciences , Beijing 100049 , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"raw_affiliation_string":"University of Chinese Academy of Sciences , Beijing 100049 , China","institution_ids":["https://openalex.org/I4210165038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089019310","display_name":"Dechao Bu","orcid":"https://orcid.org/0000-0002-8833-5432"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dechao Bu","raw_affiliation_strings":["Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079119503","display_name":"Yang Wu","orcid":"https://orcid.org/0000-0002-6069-3553"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yang Wu","raw_affiliation_strings":["Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101032185","display_name":"Yufan Luo","orcid":"https://orcid.org/0009-0007-3773-4912"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yufan Luo","raw_affiliation_strings":["Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","University of Chinese Academy of Sciences , Beijing 100049 , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"raw_affiliation_string":"University of Chinese Academy of Sciences , Beijing 100049 , China","institution_ids":["https://openalex.org/I4210165038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100371265","display_name":"Sheng Wang","orcid":"https://orcid.org/0000-0002-3059-8897"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Sheng Wang","raw_affiliation_strings":["Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","University of Chinese Academy of Sciences , Beijing 100049 , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"raw_affiliation_string":"University of Chinese Academy of Sciences , Beijing 100049 , China","institution_ids":["https://openalex.org/I4210165038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100421978","display_name":"Rui Zhang","orcid":"https://orcid.org/0000-0001-9418-0863"},"institutions":[{"id":"https://openalex.org/I4210100575","display_name":"Beijing Graphene Institute","ror":"https://ror.org/013bkjj52","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210100575"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Rui Zhang","raw_affiliation_strings":["BGI-Beijing , Beijing, 102601, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"BGI-Beijing , Beijing, 102601, China","institution_ids":["https://openalex.org/I4210100575"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5000991048","display_name":"Yi Zhao","orcid":"https://orcid.org/0000-0001-6046-8420"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yi Zhao","raw_affiliation_strings":["Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China"],"raw_orcid":"https://orcid.org/0000-0001-6046-8420","affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Research Center for Ubiquitous Computing Systems, Institute of Computing Technology, , Beijing 100190 , China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5000991048","https://openalex.org/A5010222360"],"corresponding_institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":2.0624,"has_fulltext":false,"cited_by_count":22,"citation_normalized_percentile":{"value":0.87254329,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":99},"biblio":{"volume":"24","issue":"2","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9973999857902527,"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"}},"topics":[{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9973999857902527,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9959999918937683,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/T10158","display_name":"Cancer Immunotherapy and Biomarkers","score":0.9937999844551086,"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/immunotherapy","display_name":"Immunotherapy","score":0.7459915280342102},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.6082591414451599},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.6076370477676392},{"id":"https://openalex.org/keywords/cancer-immunotherapy","display_name":"Cancer immunotherapy","score":0.4890795350074768},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.4516347050666809},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4441143274307251},{"id":"https://openalex.org/keywords/melanoma","display_name":"Melanoma","score":0.43752869963645935},{"id":"https://openalex.org/keywords/oncology","display_name":"Oncology","score":0.36840304732322693},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.2859271764755249},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.22968721389770508},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2170359492301941},{"id":"https://openalex.org/keywords/cancer-research","display_name":"Cancer research","score":0.21055826544761658}],"concepts":[{"id":"https://openalex.org/C2777701055","wikidata":"https://www.wikidata.org/wiki/Q1427096","display_name":"Immunotherapy","level":3,"score":0.7459915280342102},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.6082591414451599},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.6076370477676392},{"id":"https://openalex.org/C2780674031","wikidata":"https://www.wikidata.org/wiki/Q2012719","display_name":"Cancer immunotherapy","level":4,"score":0.4890795350074768},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.4516347050666809},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4441143274307251},{"id":"https://openalex.org/C2777658100","wikidata":"https://www.wikidata.org/wiki/Q180614","display_name":"Melanoma","level":2,"score":0.43752869963645935},{"id":"https://openalex.org/C143998085","wikidata":"https://www.wikidata.org/wiki/Q162555","display_name":"Oncology","level":1,"score":0.36840304732322693},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.2859271764755249},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.22968721389770508},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2170359492301941},{"id":"https://openalex.org/C502942594","wikidata":"https://www.wikidata.org/wiki/Q3421914","display_name":"Cancer research","level":1,"score":0.21055826544761658}],"mesh":[{"descriptor_ui":"D001749","descriptor_name":"Urinary Bladder Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001749","descriptor_name":"Urinary Bladder Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001749","descriptor_name":"Urinary Bladder Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D007167","descriptor_name":"Immunotherapy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D007167","descriptor_name":"Immunotherapy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D007167","descriptor_name":"Immunotherapy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbad023","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbad023","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:36682018","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36682018","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":"Briefings in bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.6700000166893005,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G3487017088","display_name":null,"funder_award_id":"2021YFC2500203","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6086918367","display_name":null,"funder_award_id":"2021YFC2500200","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7536392352","display_name":null,"funder_award_id":"32070670","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G922016126","display_name":null,"funder_award_id":"XDA16021400","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":31,"referenced_works":["https://openalex.org/W1978486653","https://openalex.org/W2052702202","https://openalex.org/W2188350186","https://openalex.org/W2263739890","https://openalex.org/W2613155082","https://openalex.org/W2761575992","https://openalex.org/W2884397450","https://openalex.org/W2886498337","https://openalex.org/W2887187316","https://openalex.org/W2912137016","https://openalex.org/W2920600229","https://openalex.org/W2951832048","https://openalex.org/W2991341799","https://openalex.org/W2992151131","https://openalex.org/W3013776723","https://openalex.org/W3038292986","https://openalex.org/W3084374992","https://openalex.org/W3088005314","https://openalex.org/W3154874068","https://openalex.org/W3158221061","https://openalex.org/W3162215872","https://openalex.org/W3174374403","https://openalex.org/W3175295347","https://openalex.org/W4210370153","https://openalex.org/W4220673273","https://openalex.org/W4283662269","https://openalex.org/W4284896013","https://openalex.org/W4286558533","https://openalex.org/W4291010517","https://openalex.org/W6675354045","https://openalex.org/W6730169791"],"related_works":["https://openalex.org/W3111580887","https://openalex.org/W3185708072","https://openalex.org/W3049036915","https://openalex.org/W2893846263","https://openalex.org/W4313343001","https://openalex.org/W4223914026","https://openalex.org/W2400599632","https://openalex.org/W2999675030","https://openalex.org/W2806333505","https://openalex.org/W2761992239"],"abstract_inverted_index":{"The":[0],"determination":[1],"of":[2,98,159,221],"transcriptome":[3],"profiles":[4],"that":[5],"mediate":[6],"immune":[7,73,85],"therapy":[8,86,126],"in":[9,26,35,161,170],"cancer":[10,36,131,134,154,163],"remains":[11,51],"a":[12,52,64,206],"major":[13],"clinical":[14],"and":[15,30,93,113,135,193],"biological":[16,95],"challenge.":[17],"Despite":[18],"responses":[19,127],"induced":[20],"by":[21,88],"immune-check":[22],"points":[23],"inhibitors":[24,75],"(ICIs)":[25],"diverse":[27],"tumor":[28,187],"types":[29,164],"all":[31],"the":[32,57,84,157,171,177,219],"big":[33,53],"breakthroughs":[34],"immunotherapy,":[37],"most":[38],"patients":[39,108],"with":[40,66,109],"solid":[41],"tumors":[42],"do":[43],"not":[44],"respond":[45],"to":[46,55,117,149,212],"ICI":[47,58,110,125,168],"therapies.":[48],"It":[49],"still":[50],"challenge":[54],"predict":[56,83],"treatment":[59],"response.":[60],"Here,":[61,101],"we":[62,102],"propose":[63],"framework":[65],"multiple":[67,153],"prior":[68,94],"knowledge":[69,96],"networks":[70],"guided":[71,208],"for":[72,79,124,224],"checkpoints":[74],"prediction-DeepOmix-ICI":[76],"(or":[77],"ICInet":[78,81,121,146,160],"short).":[80],"can":[82,165],"response":[87,111,223],"leveraging":[89],"geometric":[90],"deep":[91,209],"learning":[92,210],"graphs":[97],"gene-gene":[99],"interactions.":[100],"demonstrate":[103],"more":[104],"than":[105],"600":[106],"ICI-treated":[107],"data":[112,144],"gene":[114],"expression":[115],"profile":[116],"apply":[118],"on":[119],"ICInet.":[120],"was":[122],"used":[123],"prediciton":[128],"across":[129],"different":[130,143],"types-melanoma,":[132],"gastric":[133],"bladder":[136],"cancer,":[137],"which":[138],"includes":[139],"7":[140],"cohorts":[141],"from":[142],"sources.":[145],"is":[147],"able":[148],"robustly":[150],"generalize":[151],"into":[152],"types.":[155],"Moreover,":[156],"performance":[158],"those":[162],"outperform":[166],"other":[167,184],"biomarkers":[169],"clinic.":[172],"Our":[173],"model":[174],"[area":[175],"under":[176],"curve":[178],"(AUC":[179,190,199],"=":[180,191,200],"0.85)]":[181],"generally":[182],"outperformed":[183],"measures,":[185],"including":[186],"mutational":[188],"burden":[189],"0.62)":[192],"programmed":[194],"cell":[195],"death":[196],"ligand-1":[197],"score":[198],"0.74).":[201],"Therefore,":[202],"our":[203],"study":[204],"presents":[205],"prior-knowledge":[207],"method":[211],"effectively":[213],"select":[214],"immunotherapy-response-associated":[215],"biomarkers,":[216],"thereby":[217],"improving":[218],"prediction":[220],"immunotherapy":[222],"precision":[225],"oncology.":[226]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":8},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":4}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
