{"id":"https://openalex.org/W2773456614","doi":"https://doi.org/10.1371/journal.pcbi.1005793","title":"A network diffusion approach to inferring sample-specific function reveals functional changes associated with breast cancer","display_name":"A network diffusion approach to inferring sample-specific function reveals functional changes associated with breast cancer","publication_year":2017,"publication_date":"2017-11-30","ids":{"openalex":"https://openalex.org/W2773456614","doi":"https://doi.org/10.1371/journal.pcbi.1005793","mag":"2773456614","pmid":"https://pubmed.ncbi.nlm.nih.gov/29190299"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1005793","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005793","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005793&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005793&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5068204137","display_name":"Sushant Patkar","orcid":"https://orcid.org/0000-0002-5877-0599"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sushant Patkar","raw_affiliation_strings":["Center for Bioinformatics and Computational Biology, University of Maryland, College Park, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-5877-0599","affiliations":[{"raw_affiliation_string":"Center for Bioinformatics and Computational Biology, University of Maryland, College Park, Maryland, United States of America","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034369059","display_name":"Assaf Magen","orcid":"https://orcid.org/0000-0001-5473-274X"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Assaf Magen","raw_affiliation_strings":["Center for Bioinformatics and Computational Biology, University of Maryland, College Park, Maryland, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics and Computational Biology, University of Maryland, College Park, Maryland, United States of America","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046958549","display_name":"Roded Sharan","orcid":"https://orcid.org/0000-0001-8363-4882"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":true,"raw_author_name":"Roded Sharan","raw_affiliation_strings":["Blavatnik School of Computer Science, Tel Aviv University, Tel Aviv, Israel"],"raw_orcid":"https://orcid.org/0000-0001-8363-4882","affiliations":[{"raw_affiliation_string":"Blavatnik School of Computer Science, Tel Aviv University, Tel Aviv, Israel","institution_ids":["https://openalex.org/I16391192"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5011962029","display_name":"Sridhar Hannenhalli","orcid":"https://orcid.org/0000-0001-9603-7569"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Sridhar Hannenhalli","raw_affiliation_strings":["Center for Bioinformatics and Computational Biology, University of Maryland, College Park, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0001-9603-7569","affiliations":[{"raw_affiliation_string":"Center for Bioinformatics and Computational Biology, University of Maryland, College Park, Maryland, United States of America","institution_ids":["https://openalex.org/I66946132"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5011962029","https://openalex.org/A5046958549"],"corresponding_institution_ids":["https://openalex.org/I16391192","https://openalex.org/I66946132"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.0931,"has_fulltext":true,"cited_by_count":11,"citation_normalized_percentile":{"value":0.77451255,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"13","issue":"11","first_page":"e1005793","last_page":"e1005793"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998999834060669,"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":0.9998999834060669,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9986000061035156,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9922000169754028,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/breast-cancer","display_name":"Breast cancer","score":0.7881700992584229},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6646159887313843},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6132700443267822},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.5791816711425781},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5546494722366333},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.5361530780792236},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.527567982673645},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.516537606716156},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.513053297996521},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.46329793334007263},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3947458565235138},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.32169264554977417},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3192901015281677}],"concepts":[{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.7881700992584229},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6646159887313843},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6132700443267822},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.5791816711425781},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5546494722366333},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.5361530780792236},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.527567982673645},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.516537606716156},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.513053297996521},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.46329793334007263},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3947458565235138},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.32169264554977417},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3192901015281677},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001940","descriptor_name":"Breast","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001940","descriptor_name":"Breast","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001940","descriptor_name":"Breast","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001940","descriptor_name":"Breast","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","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":"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":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1005793","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005793","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005793&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:29190299","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29190299","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:22886c14312a42caa80ce726f8b0d107","is_oa":true,"landing_page_url":"https://doaj.org/article/22886c14312a42caa80ce726f8b0d107","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 13, Iss 11, p e1005793 (2017)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:4642604","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5708603","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/5650324","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/A_network_diffusion_approach_to_inferring_sample-specific_function_reveals_functional_changes_associated_with_breast_cancer/5650324","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":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1005793","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005793","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005793&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.8100000023841858}],"awards":[],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320337398","display_name":"Division of Biological Infrastructure","ror":"https://ror.org/04qn9mx93"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2773456614.pdf","grobid_xml":"https://content.openalex.org/works/W2773456614.grobid-xml"},"referenced_works_count":55,"referenced_works":["https://openalex.org/W953912505","https://openalex.org/W1503971865","https://openalex.org/W1527927437","https://openalex.org/W1533936090","https://openalex.org/W1838230108","https://openalex.org/W1969391407","https://openalex.org/W1984249061","https://openalex.org/W2004658596","https://openalex.org/W2005895632","https://openalex.org/W2011340259","https://openalex.org/W2014879346","https://openalex.org/W2027745840","https://openalex.org/W2030899725","https://openalex.org/W2036568936","https://openalex.org/W2038122249","https://openalex.org/W2039645688","https://openalex.org/W2043004358","https://openalex.org/W2044433401","https://openalex.org/W2044530971","https://openalex.org/W2051255001","https://openalex.org/W2057626690","https://openalex.org/W2066334415","https://openalex.org/W2070672503","https://openalex.org/W2096882511","https://openalex.org/W2098301466","https://openalex.org/W2098979213","https://openalex.org/W2106289940","https://openalex.org/W2112396116","https://openalex.org/W2115168672","https://openalex.org/W2118607021","https://openalex.org/W2125118217","https://openalex.org/W2125862084","https://openalex.org/W2129296674","https://openalex.org/W2133098435","https://openalex.org/W2137297899","https://openalex.org/W2143881980","https://openalex.org/W2146545950","https://openalex.org/W2149031002","https://openalex.org/W2149407433","https://openalex.org/W2152124140","https://openalex.org/W2154455818","https://openalex.org/W2154947819","https://openalex.org/W2157852151","https://openalex.org/W2160450758","https://openalex.org/W2162142896","https://openalex.org/W2163480486","https://openalex.org/W2163655381","https://openalex.org/W2166468869","https://openalex.org/W2168264491","https://openalex.org/W2170802261","https://openalex.org/W2171599819","https://openalex.org/W2561960501","https://openalex.org/W6625047082","https://openalex.org/W6676630954","https://openalex.org/W6682494755"],"related_works":["https://openalex.org/W2130939068","https://openalex.org/W3163717165","https://openalex.org/W2114466827","https://openalex.org/W249159571","https://openalex.org/W2791736663","https://openalex.org/W2806770614","https://openalex.org/W2129949791","https://openalex.org/W2131550814","https://openalex.org/W1710460698","https://openalex.org/W3199739261"],"abstract_inverted_index":{"Guilt-by-association":[0],"codifies":[1],"the":[2,37,49,56,70,73,116,147,155,188],"empirical":[3],"observation":[4],"that":[5,21,184],"a":[6,15,23,108,178,182],"gene's":[7,24,38],"function":[8],"is":[9,27,185,199],"informed":[10],"by":[11,164],"its":[12],"neighborhood":[13],"in":[14,31,43,78,115,135,154,170,201,208],"biological":[16,44],"network.":[17],"This":[18],"would":[19],"imply":[20],"when":[22],"network":[25,156],"context":[26],"altered,":[28],"for":[29,69,84,112],"instance":[30],"disease":[32],"condition,":[33],"so":[34],"could":[35],"be":[36,64],"function.":[39],"Although":[40],"context-specific":[41],"changes":[42,51,77,114,153,161],"networks":[45,100],"have":[46,129],"been":[47],"explored,":[48],"potential":[50,75],"they":[52],"may":[53],"induce":[54],"on":[55,192],"functional":[57,76,160,175,193],"roles":[58],"of":[59,142,181,214],"genes":[60,106,134,143],"are":[61,162],"yet":[62],"to":[63,105,128,139,145,152,187],"characterized.":[65],"Here":[66],"we":[67,95,124],"analyze,":[68],"first":[71],"time,":[72],"network-induced":[74],"breast":[79,86,91,171,215],"cancer.":[80,216],"Using":[81],"transcriptomic":[82],"samples":[83],"1047":[85],"tumors":[87],"and":[88,101,121,166],"110":[89],"healthy":[90],"tissues":[92],"from":[93],"TCGA,":[94],"derive":[96],"sample-specific":[97,103],"protein":[98],"interaction":[99],"assign":[102],"functions":[104,118,127],"via":[107],"diffusion":[109],"strategy.":[110],"Testing":[111],"significant":[113],"inferred":[117],"between":[119],"normal":[120],"cancer":[122],"samples,":[123],"find":[125],"several":[126,210],"significantly":[130],"gained":[131],"or":[132],"lost":[133],"cancer,":[136],"not":[137],"due":[138,151],"differential":[140],"expression":[141],"known":[144,211],"perform":[146],"function,":[148],"but":[149],"rather":[150],"topology.":[157],"Our":[158,173],"predicted":[159],"supported":[163],"mutational":[165],"copy":[167],"number":[168],"profiles":[169],"cancers.":[172],"diffusion-based":[174],"assignment":[176],"provides":[177],"novel":[179],"characterization":[180,198],"tumor":[183],"complementary":[186],"standard":[189],"approach":[190],"based":[191],"annotation":[194],"alone.":[195],"Importantly,":[196],"this":[197],"effective":[200],"predicting":[202,209],"patient":[203],"survival,":[204],"as":[205,207],"well":[206],"histopathological":[212],"subtypes":[213]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":6},{"year":2018,"cited_by_count":1}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}