{"id":"https://openalex.org/W3160766697","doi":"https://doi.org/10.1093/bib/bbab168","title":"Network-based identification of key master regulators associated with an immune-silent cancer phenotype","display_name":"Network-based identification of key master regulators associated with an immune-silent cancer phenotype","publication_year":2021,"publication_date":"2021-04-20","ids":{"openalex":"https://openalex.org/W3160766697","doi":"https://doi.org/10.1093/bib/bbab168","mag":"3160766697","pmid":"https://pubmed.ncbi.nlm.nih.gov/33979427"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbab168","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbab168","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":true,"oa_status":"hybrid","oa_url":"https://doi.org/10.1093/bib/bbab168","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5055826525","display_name":"Raghvendra Mall","orcid":"https://orcid.org/0000-0003-1779-3150"},"institutions":[{"id":"https://openalex.org/I4210144839","display_name":"Hamad bin Khalifa University","ror":"https://ror.org/03eyq4y97","country_code":"QA","type":"education","lineage":["https://openalex.org/I4210144839"]}],"countries":["QA"],"is_corresponding":true,"raw_author_name":"Raghvendra Mall","raw_affiliation_strings":["Qatar Computing Research Institute, Hamad Bin Khalifa University, Doha, Qatar"],"affiliations":[{"raw_affiliation_string":"Qatar Computing Research Institute, Hamad Bin Khalifa University, Doha, Qatar","institution_ids":["https://openalex.org/I4210144839"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112639089","display_name":"Mohamad Saad","orcid":null},"institutions":[{"id":"https://openalex.org/I4210144839","display_name":"Hamad bin Khalifa University","ror":"https://ror.org/03eyq4y97","country_code":"QA","type":"education","lineage":["https://openalex.org/I4210144839"]}],"countries":["QA"],"is_corresponding":false,"raw_author_name":"Mohamad Saad","raw_affiliation_strings":["Qatar Computing Research Institute, Hamad Bin Khalifa University, Doha, Qatar"],"affiliations":[{"raw_affiliation_string":"Qatar Computing Research Institute, Hamad Bin Khalifa University, Doha, Qatar","institution_ids":["https://openalex.org/I4210144839"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071478773","display_name":"Jessica Roelands","orcid":"https://orcid.org/0000-0003-3631-2041"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jessica Roelands","raw_affiliation_strings":["Cancer Research Department, Research Branch, Sidra Medicince, Doha, Qatar"],"affiliations":[{"raw_affiliation_string":"Cancer Research Department, Research Branch, Sidra Medicince, Doha, Qatar","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024123563","display_name":"Darawan Rinchai","orcid":"https://orcid.org/0000-0001-8851-7730"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Darawan Rinchai","raw_affiliation_strings":["Cancer Research Department, Research Branch, Sidra Medicince, Doha, Qatar"],"affiliations":[{"raw_affiliation_string":"Cancer Research Department, Research Branch, Sidra Medicince, Doha, Qatar","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067973729","display_name":"Khalid Kunji","orcid":"https://orcid.org/0000-0003-2946-512X"},"institutions":[{"id":"https://openalex.org/I4210144839","display_name":"Hamad bin Khalifa University","ror":"https://ror.org/03eyq4y97","country_code":"QA","type":"education","lineage":["https://openalex.org/I4210144839"]}],"countries":["QA"],"is_corresponding":false,"raw_author_name":"Khalid Kunji","raw_affiliation_strings":["Qatar Computing Research Institute, Hamad Bin Khalifa University, Doha, Qatar"],"affiliations":[{"raw_affiliation_string":"Qatar Computing Research Institute, Hamad Bin Khalifa University, Doha, Qatar","institution_ids":["https://openalex.org/I4210144839"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035228881","display_name":"Hossam Almeer","orcid":null},"institutions":[{"id":"https://openalex.org/I4210144839","display_name":"Hamad bin Khalifa University","ror":"https://ror.org/03eyq4y97","country_code":"QA","type":"education","lineage":["https://openalex.org/I4210144839"]}],"countries":["QA"],"is_corresponding":false,"raw_author_name":"Hossam Almeer","raw_affiliation_strings":["Qatar Computing Research Institute, Hamad Bin Khalifa University, Doha, Qatar"],"affiliations":[{"raw_affiliation_string":"Qatar Computing Research Institute, Hamad Bin Khalifa University, Doha, Qatar","institution_ids":["https://openalex.org/I4210144839"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039036917","display_name":"Wouter Hendrickx","orcid":"https://orcid.org/0000-0002-7649-5092"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Wouter Hendrickx","raw_affiliation_strings":["Cancer Research Department, Research Branch, Sidra Medicince, Doha, Qatar"],"affiliations":[{"raw_affiliation_string":"Cancer Research Department, Research Branch, Sidra Medicince, Doha, Qatar","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5104065598","display_name":"Francesco M. Marincola","orcid":null},"institutions":[{"id":"https://openalex.org/I4210146991","display_name":"Refuge Biotechnologies (United States)","ror":"https://ror.org/0520fx213","country_code":"US","type":"company","lineage":["https://openalex.org/I4210146991"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Francesco M Marincola","raw_affiliation_strings":["Refuge Biotechnologies, Menlo Park, California, USA"],"affiliations":[{"raw_affiliation_string":"Refuge Biotechnologies, Menlo Park, California, USA","institution_ids":["https://openalex.org/I4210146991"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085527072","display_name":"Michele Ceccarelli","orcid":"https://orcid.org/0000-0002-4702-6617"},"institutions":[{"id":"https://openalex.org/I71267560","display_name":"University of Naples Federico II","ror":"https://ror.org/05290cv24","country_code":"IT","type":"education","lineage":["https://openalex.org/I71267560"]},{"id":"https://openalex.org/I4210115745","display_name":"Biogem","ror":"https://ror.org/01ymr5447","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I2801626668","https://openalex.org/I4210115745"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Michele Ceccarelli","raw_affiliation_strings":["Biogem, Istituto di Biologia e Genetica Molecolare, Via Camporeale, Ariano Irpino (AV)","Department of Electrical Engineering and Information Technology (DIETI), University of Naples \u201dFederico II\u201d, Via Claudio 21, 80215 Naples, Italy"],"affiliations":[{"raw_affiliation_string":"Biogem, Istituto di Biologia e Genetica Molecolare, Via Camporeale, Ariano Irpino (AV)","institution_ids":["https://openalex.org/I4210115745"]},{"raw_affiliation_string":"Department of Electrical Engineering and Information Technology (DIETI), University of Naples \u201dFederico II\u201d, Via Claudio 21, 80215 Naples, Italy","institution_ids":["https://openalex.org/I71267560"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071591293","display_name":"Davide Bedognetti","orcid":"https://orcid.org/0000-0002-5857-773X"},"institutions":[{"id":"https://openalex.org/I83816512","display_name":"University of Genoa","ror":"https://ror.org/0107c5v14","country_code":"IT","type":"education","lineage":["https://openalex.org/I83816512"]},{"id":"https://openalex.org/I4210144839","display_name":"Hamad bin Khalifa University","ror":"https://ror.org/03eyq4y97","country_code":"QA","type":"education","lineage":["https://openalex.org/I4210144839"]}],"countries":["IT","QA"],"is_corresponding":false,"raw_author_name":"Davide Bedognetti","raw_affiliation_strings":["Cancer Research Department, Research Branch, Sidra Medicince, Doha, Qatar","College of Health and Life Sciences, Hamad Bin Khalifa University, Doha, Qatar","Department of Internal Medicine and Medical Specialities, University of Genova, Genova, Italy","Cancer Research Department, Research Branch, Sidra Medicince, Doha, Qatar; College of Health and Life Sciences, Hamad Bin Khalifa University, Doha, Qatar; Department of Internal Medicine and Medical Specialities, University of Genova, Genova, Italy"],"affiliations":[{"raw_affiliation_string":"Cancer Research Department, Research Branch, Sidra Medicince, Doha, Qatar","institution_ids":[]},{"raw_affiliation_string":"College of Health and Life Sciences, Hamad Bin Khalifa University, Doha, Qatar","institution_ids":["https://openalex.org/I4210144839"]},{"raw_affiliation_string":"Department of Internal Medicine and Medical Specialities, University of Genova, Genova, Italy","institution_ids":["https://openalex.org/I83816512"]},{"raw_affiliation_string":"Cancer Research Department, Research Branch, Sidra Medicince, Doha, Qatar; College of Health and Life Sciences, Hamad Bin Khalifa University, Doha, Qatar; Department of Internal Medicine and Medical Specialities, University of Genova, Genova, Italy","institution_ids":["https://openalex.org/I4210144839"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5055826525"],"corresponding_institution_ids":["https://openalex.org/I4210144839"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":1.6226,"has_fulltext":false,"cited_by_count":22,"citation_normalized_percentile":{"value":0.83836238,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":99},"biblio":{"volume":"22","issue":"6","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":0.9975000023841858,"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":0.9975000023841858,"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":0.9952999949455261,"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/T11297","display_name":"Ferroptosis and cancer prognosis","score":0.9952999949455261,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory Medicine"},"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/identification","display_name":"Identification (biology)","score":0.7129641771316528},{"id":"https://openalex.org/keywords/phenotype","display_name":"Phenotype","score":0.6810449957847595},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.6478436589241028},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.6116556525230408},{"id":"https://openalex.org/keywords/master-regulator","display_name":"Master regulator","score":0.6018614172935486},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5114880800247192},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.508246123790741},{"id":"https://openalex.org/keywords/immune-escape","display_name":"Immune escape","score":0.432012140750885},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4171747863292694},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.32131484150886536},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2639677822589874},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.26054710149765015},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2562737464904785},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.12676331400871277},{"id":"https://openalex.org/keywords/computer-security","display_name":"Computer security","score":0.11705160140991211}],"concepts":[{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.7129641771316528},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.6810449957847595},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.6478436589241028},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.6116556525230408},{"id":"https://openalex.org/C3017607883","wikidata":"https://www.wikidata.org/wiki/Q25325354","display_name":"Master regulator","level":4,"score":0.6018614172935486},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5114880800247192},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.508246123790741},{"id":"https://openalex.org/C3018558359","wikidata":"https://www.wikidata.org/wiki/Q1660157","display_name":"Immune escape","level":3,"score":0.432012140750885},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4171747863292694},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.32131484150886536},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2639677822589874},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.26054710149765015},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2562737464904785},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.12676331400871277},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.11705160140991211},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004198","descriptor_name":"Disease Susceptibility","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D004198","descriptor_name":"Disease Susceptibility","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D004198","descriptor_name":"Disease Susceptibility","qualifier_ui":"Q000276","qualifier_name":"immunology","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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000209","qualifier_name":"etiology","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000209","qualifier_name":"etiology","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000209","qualifier_name":"etiology","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016130","descriptor_name":"Immunophenotyping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016130","descriptor_name":"Immunophenotyping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016130","descriptor_name":"Immunophenotyping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bib/bbab168","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbab168","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33979427","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33979427","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},{"id":"pmh:oai:europepmc.org:7467663","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC8574720","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/25878028","is_oa":true,"landing_page_url":"https://figshare.com/articles/journal_contribution/Network-based_identification_of_key_master_regulators_associated_with_an_immune-silent_cancer_phenotype/25878028","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Journal contribution"},{"id":"pmh:oai:pubmedcentral.nih.gov:8574720","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8574720","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbab168","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbab168","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4099999964237213,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1215857874","display_name":null,"funder_award_id":"NPRP11S-0121-180351","funder_id":"https://openalex.org/F4320332753","funder_display_name":"Qatar National Research Fund"},{"id":"https://openalex.org/G2452116188","display_name":null,"funder_award_id":"SDR100035","funder_id":"https://openalex.org/F4320332753","funder_display_name":"Qatar National Research Fund"},{"id":"https://openalex.org/G2810349767","display_name":null,"funder_award_id":"21846","funder_id":"https://openalex.org/F4320323054","funder_display_name":"Associazione Italiana per la Ricerca sul Cancro"},{"id":"https://openalex.org/G3009752674","display_name":null,"funder_award_id":"NPRP-10-0126-170262","funder_id":"https://openalex.org/F4320309815","funder_display_name":"Qatar Foundation"},{"id":"https://openalex.org/G3829464167","display_name":null,"funder_award_id":"NPRP11S-0121-180351","funder_id":"https://openalex.org/F4320309815","funder_display_name":"Qatar Foundation"},{"id":"https://openalex.org/G6457901451","display_name":null,"funder_award_id":"IG 2018","funder_id":"https://openalex.org/F4320323054","funder_display_name":"Associazione Italiana per la Ricerca sul Cancro"},{"id":"https://openalex.org/G8023554265","display_name":null,"funder_award_id":"IG 2018-ID 21846","funder_id":"https://openalex.org/F4320323054","funder_display_name":"Associazione Italiana per la Ricerca sul Cancro"}],"funders":[{"id":"https://openalex.org/F4320309815","display_name":"Qatar Foundation","ror":"https://ror.org/01cawbq05"},{"id":"https://openalex.org/F4320321038","display_name":"Fonds National de la Recherche Luxembourg","ror":"https://ror.org/039z13y21"},{"id":"https://openalex.org/F4320323054","display_name":"Associazione Italiana per la Ricerca sul Cancro","ror":"https://ror.org/02g2x7380"},{"id":"https://openalex.org/F4320332753","display_name":"Qatar National Research Fund","ror":"https://ror.org/01svaqq28"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":76,"referenced_works":["https://openalex.org/W1107917109","https://openalex.org/W1498931318","https://openalex.org/W1595770568","https://openalex.org/W1967954493","https://openalex.org/W2007951468","https://openalex.org/W2017138237","https://openalex.org/W2076513103","https://openalex.org/W2081098333","https://openalex.org/W2087276880","https://openalex.org/W2103017472","https://openalex.org/W2108489104","https://openalex.org/W2109384743","https://openalex.org/W2110065044","https://openalex.org/W2120865735","https://openalex.org/W2130410032","https://openalex.org/W2150420891","https://openalex.org/W2158217645","https://openalex.org/W2158269414","https://openalex.org/W2159488115","https://openalex.org/W2159707944","https://openalex.org/W2167677827","https://openalex.org/W2185207072","https://openalex.org/W2295989008","https://openalex.org/W2342019990","https://openalex.org/W2461427403","https://openalex.org/W2472255748","https://openalex.org/W2472544934","https://openalex.org/W2509717357","https://openalex.org/W2566656214","https://openalex.org/W2566908806","https://openalex.org/W2586710091","https://openalex.org/W2606274694","https://openalex.org/W2606905591","https://openalex.org/W2623334623","https://openalex.org/W2625574648","https://openalex.org/W2772692099","https://openalex.org/W2782136376","https://openalex.org/W2792954461","https://openalex.org/W2794577178","https://openalex.org/W2795441313","https://openalex.org/W2796207838","https://openalex.org/W2796408191","https://openalex.org/W2806916167","https://openalex.org/W2883812201","https://openalex.org/W2897815318","https://openalex.org/W2897955545","https://openalex.org/W2903497964","https://openalex.org/W2909312563","https://openalex.org/W2947794723","https://openalex.org/W2949956784","https://openalex.org/W2950144725","https://openalex.org/W2951516194","https://openalex.org/W2968188498","https://openalex.org/W2972324731","https://openalex.org/W2975736787","https://openalex.org/W3002417351","https://openalex.org/W3004661698","https://openalex.org/W3023839427","https://openalex.org/W3041686036","https://openalex.org/W3046232101","https://openalex.org/W3081073774","https://openalex.org/W3085133937","https://openalex.org/W3085152134","https://openalex.org/W3085677572","https://openalex.org/W3096093428","https://openalex.org/W3097759960","https://openalex.org/W3099926419","https://openalex.org/W3120816783","https://openalex.org/W3126609356","https://openalex.org/W3127961017","https://openalex.org/W4244559366","https://openalex.org/W6652462592","https://openalex.org/W6720512875","https://openalex.org/W6733152716","https://openalex.org/W6763527493","https://openalex.org/W6783468020"],"related_works":["https://openalex.org/W2140798747","https://openalex.org/W2948169060","https://openalex.org/W2730112582","https://openalex.org/W1840542775","https://openalex.org/W2416830231","https://openalex.org/W2110696645","https://openalex.org/W2898732673","https://openalex.org/W2358580169","https://openalex.org/W2111347279","https://openalex.org/W2982428536"],"abstract_inverted_index":{"A":[0,220],"cancer":[1],"immune":[2,31,45,69,91,257],"phenotype":[3,196,229],"characterized":[4],"by":[5,157],"an":[6,29,82],"active":[7],"T-helper":[8],"1":[9],"(Th1)/cytotoxic":[10],"response":[11],"is":[12,47],"associated":[13,43,103,192],"with":[14,44,104,193],"responsiveness":[15],"to":[16,49,53,58,84,98,132,161,174,181,226],"immunotherapy":[17],"and":[18,57,130,136,151,183,204,244],"favorable":[19,261],"prognosis":[20],"across":[21,197],"different":[22,115],"tumors.":[23],"However,":[24],"in":[25,199,210,231],"some":[26],"cancers,":[27],"such":[28],"intratumoral":[30,90],"activation":[32],"does":[33],"not":[34],"confer":[35],"protection":[36],"from":[37,216],"progression":[38],"or":[39],"relapse.":[40],"Defining":[41],"mechanisms":[42,67],"evasion":[46],"imperative":[48],"refine":[50],"stratification":[51],"algorithms,":[52],"guide":[54],"treatment":[55],"decisions":[56],"identify":[59,99,162],"candidates":[60],"for":[61,68],"immune-targeted":[62],"therapy.":[63],"Molecular":[64],"alterations":[65],"governing":[66],"exclusion":[70],"are":[71,179],"still":[72],"largely":[73],"unknown.":[74],"The":[75,200],"availability":[76],"of":[77,88,113,118,154,207,213,223,234,253,263],"large":[78],"genomic":[79],"datasets":[80,209],"offers":[81],"opportunity":[83],"ascertain":[85],"key":[86],"determinants":[87],"differential":[89],"response.":[92,266],"We":[93,109,187],"follow":[94],"a":[95,111,205,264],"network-based":[96],"protocol":[97],"transcription":[100],"regulators":[101,177],"(TRs)":[102],"poor":[105],"immunologic":[106,168],"antitumor":[107,169],"activity.":[108,170],"use":[110],"consensus":[112],"four":[114],"pipelines":[116],"consisting":[117],"two":[119],"state-of-the-art":[120],"gene":[121,143,147],"regulatory":[122],"network":[123],"inference":[124,153],"techniques,":[125,140],"regularized":[126],"gradient":[127],"boosting":[128],"machines":[129],"ARACNE":[131],"determine":[133],"TR":[134],"regulons,":[135],"three":[137],"separate":[138],"enrichment":[139,145],"including":[141,239],"fast":[142],"set":[144,148],"analysis,":[146],"variation":[149],"analysis":[150,160,222],"virtual":[152],"protein":[155],"activity":[156],"enriched":[158,236],"regulon":[159],"the":[163,189,194,211,227,232,254,260],"most":[164],"important":[165],"TRs":[166],"affecting":[167],"These":[171],"TRs,":[172],"referred":[173],"as":[175,251],"master":[176],"(MRs),":[178],"unique":[180],"immune-silent":[182,195,228],"immune-active":[184],"tumors,":[185],"respectively.":[186],"validated":[188],"MRs":[190,224],"coherently":[191],"cancers":[198],"Cancer":[201],"Genome":[202],"Atlas":[203],"series":[206],"additional":[208],"Prediction":[212],"Clinical":[214],"Outcomes":[215],"Genomic":[217],"Profiles":[218],"repository.":[219],"downstream":[221],"specific":[225],"resulted":[230],"identification":[233],"several":[235],"candidate":[237],"pathways,":[238],"NOTCH1,":[240],"TGF-$\\beta":[241],"$,":[242],"Interleukin-1":[243],"TNF-$\\alpha":[245],"$":[246],"signaling":[247],"pathways.":[248],"TGFB1I1":[249],"emerged":[250],"one":[252],"main":[255],"negative":[256],"modulators":[258],"preventing":[259],"effects":[262],"Th1/cytotoxic":[265]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":8}],"updated_date":"2026-03-14T08:43:22.919905","created_date":"2025-10-10T00:00:00"}