{"id":"https://openalex.org/W4313413389","doi":"https://doi.org/10.1109/bibm55620.2022.9995707","title":"Effective Subject Representation based on Multi-omics Disease Networks using Graph Embedding","display_name":"Effective Subject Representation based on Multi-omics Disease Networks using Graph Embedding","publication_year":2022,"publication_date":"2022-12-06","ids":{"openalex":"https://openalex.org/W4313413389","doi":"https://doi.org/10.1109/bibm55620.2022.9995707","pmid":"https://pubmed.ncbi.nlm.nih.gov/36776768"},"language":"en","primary_location":{"id":"doi:10.1109/bibm55620.2022.9995707","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm55620.2022.9995707","pdf_url":null,"source":{"id":"https://openalex.org/S4363607730","display_name":"2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9916186","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5063249968","display_name":"Sundous Hussein","orcid":null},"institutions":[{"id":"https://openalex.org/I921990950","display_name":"University of Colorado Denver","ror":"https://ror.org/02hh7en24","country_code":"US","type":"education","lineage":["https://openalex.org/I921990950"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sundous Hussein","raw_affiliation_strings":["University of Colorado Denver,Department of Computer Science and Engineering,Denver,CO,USA","Department of Computer Science and Engineering, University of Colorado Denver, Denver, CO, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Colorado Denver,Department of Computer Science and Engineering,Denver,CO,USA","institution_ids":["https://openalex.org/I921990950"]},{"raw_affiliation_string":"Department of Computer Science and Engineering, University of Colorado Denver, Denver, CO, USA","institution_ids":["https://openalex.org/I921990950"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037463126","display_name":"Thao Vu","orcid":"https://orcid.org/0000-0001-5252-0006"},"institutions":[{"id":"https://openalex.org/I51713134","display_name":"University of Colorado Anschutz Medical Campus","ror":"https://ror.org/03wmf1y16","country_code":"US","type":"education","lineage":["https://openalex.org/I51713134"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Thao Vu","raw_affiliation_strings":["University of Colorado Anschutz Medical Campus,Department of Biostatistics and Informatics,Aurora,CO,USA","Department of Biostatistics and Informatics, University of Colorado Anschutz Medical Campus, Aurora, CO, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Colorado Anschutz Medical Campus,Department of Biostatistics and Informatics,Aurora,CO,USA","institution_ids":["https://openalex.org/I51713134"]},{"raw_affiliation_string":"Department of Biostatistics and Informatics, University of Colorado Anschutz Medical Campus, Aurora, CO, USA","institution_ids":["https://openalex.org/I51713134"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080585358","display_name":"Leslie Langel","orcid":null},"institutions":[{"id":"https://openalex.org/I51713134","display_name":"University of Colorado Anschutz Medical Campus","ror":"https://ror.org/03wmf1y16","country_code":"US","type":"education","lineage":["https://openalex.org/I51713134"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Leslie Langel","raw_affiliation_strings":["University of Colorado Anschutz Medical Campus,Division of Biomedical Informatics and Personalized Medicine,Aurora,CO,USA","Division of Biomedical Informatics and Personalized Medicine, University of Colorado Anschutz Medical Campus, Aurora, CO, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Colorado Anschutz Medical Campus,Division of Biomedical Informatics and Personalized Medicine,Aurora,CO,USA","institution_ids":["https://openalex.org/I51713134"]},{"raw_affiliation_string":"Division of Biomedical Informatics and Personalized Medicine, University of Colorado Anschutz Medical Campus, Aurora, CO, USA","institution_ids":["https://openalex.org/I51713134"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017665414","display_name":"Russell P. Bowler","orcid":"https://orcid.org/0000-0003-4651-363X"},"institutions":[{"id":"https://openalex.org/I3019586173","display_name":"National Jewish Health","ror":"https://ror.org/016z2bp30","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I3019586173"]},{"id":"https://openalex.org/I921990950","display_name":"University of Colorado Denver","ror":"https://ror.org/02hh7en24","country_code":"US","type":"education","lineage":["https://openalex.org/I921990950"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Russell P. Bowler","raw_affiliation_strings":["National Jewish Health,Division of Pulmonary, Critical Care and Sleep Medicine,Denver,CO,USA","Division of Pulmonary, Critical Care and Sleep Medicine, National Jewish Health, Denver, CO, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Jewish Health,Division of Pulmonary, Critical Care and Sleep Medicine,Denver,CO,USA","institution_ids":["https://openalex.org/I3019586173","https://openalex.org/I921990950"]},{"raw_affiliation_string":"Division of Pulmonary, Critical Care and Sleep Medicine, National Jewish Health, Denver, CO, USA","institution_ids":["https://openalex.org/I3019586173","https://openalex.org/I921990950"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022404035","display_name":"Katerina Kechris","orcid":"https://orcid.org/0000-0002-3725-5459"},"institutions":[{"id":"https://openalex.org/I51713134","display_name":"University of Colorado Anschutz Medical Campus","ror":"https://ror.org/03wmf1y16","country_code":"US","type":"education","lineage":["https://openalex.org/I51713134"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Katerina J. Kechris","raw_affiliation_strings":["University of Colorado Anschutz Medical Campus,Department of Biostatistics and Informatics,Aurora,CO,USA","Department of Biostatistics and Informatics, University of Colorado Anschutz Medical Campus, Aurora, CO, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Colorado Anschutz Medical Campus,Department of Biostatistics and Informatics,Aurora,CO,USA","institution_ids":["https://openalex.org/I51713134"]},{"raw_affiliation_string":"Department of Biostatistics and Informatics, University of Colorado Anschutz Medical Campus, Aurora, CO, USA","institution_ids":["https://openalex.org/I51713134"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5007232242","display_name":"Farnoush Banaei\u2010Kashani","orcid":"https://orcid.org/0000-0003-4102-9873"},"institutions":[{"id":"https://openalex.org/I921990950","display_name":"University of Colorado Denver","ror":"https://ror.org/02hh7en24","country_code":"US","type":"education","lineage":["https://openalex.org/I921990950"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Farnoush Banaei-Kashani","raw_affiliation_strings":["University of Colorado Denver,Department of Computer Science and Engineering,Denver,CO,USA","Department of Computer Science and Engineering, University of Colorado Denver, Denver, CO, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Colorado Denver,Department of Computer Science and Engineering,Denver,CO,USA","institution_ids":["https://openalex.org/I921990950"]},{"raw_affiliation_string":"Department of Computer Science and Engineering, University of Colorado Denver, Denver, CO, USA","institution_ids":["https://openalex.org/I921990950"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"2022","issue":null,"first_page":"1911","last_page":"1918"},"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9907000064849854,"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":0.9883000254631042,"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/representation","display_name":"Representation (politics)","score":0.6974018812179565},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6650439500808716},{"id":"https://openalex.org/keywords/embedding","display_name":"Embedding","score":0.5735827684402466},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.560652494430542},{"id":"https://openalex.org/keywords/omics","display_name":"Omics","score":0.5470588207244873},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5216346383094788},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.40909630060195923},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.40079402923583984},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.30764007568359375},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.301076203584671},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.24157777428627014},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.14084887504577637}],"concepts":[{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.6974018812179565},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6650439500808716},{"id":"https://openalex.org/C41608201","wikidata":"https://www.wikidata.org/wiki/Q980509","display_name":"Embedding","level":2,"score":0.5735827684402466},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.560652494430542},{"id":"https://openalex.org/C157585117","wikidata":"https://www.wikidata.org/wiki/Q158666","display_name":"Omics","level":2,"score":0.5470588207244873},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5216346383094788},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.40909630060195923},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.40079402923583984},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.30764007568359375},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.301076203584671},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.24157777428627014},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.14084887504577637},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/bibm55620.2022.9995707","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm55620.2022.9995707","pdf_url":null,"source":{"id":"https://openalex.org/S4363607730","display_name":"2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},{"id":"pmid:36776768","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36776768","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":"Proceedings. IEEE International Conference on Bioinformatics and Biomedicine","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9916186","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9916186","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proceedings (IEEE Int Conf Bioinformatics Biomed)","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:9916186","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9916186","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proceedings (IEEE Int Conf Bioinformatics Biomed)","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2644038179","display_name":null,"funder_award_id":"U01 HL089897","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G5180013511","display_name":null,"funder_award_id":"R01 HL137995","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G5419488334","display_name":null,"funder_award_id":"R01 HL152735","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G5861375725","display_name":null,"funder_award_id":"U01 HL089856","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337338","display_name":"National Heart, Lung, and Blood Institute","ror":"https://ror.org/012pb6c26"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":21,"referenced_works":["https://openalex.org/W1501634364","https://openalex.org/W1614298861","https://openalex.org/W1854214752","https://openalex.org/W1888005072","https://openalex.org/W1966327575","https://openalex.org/W1971937094","https://openalex.org/W2036568936","https://openalex.org/W2062533676","https://openalex.org/W2082907106","https://openalex.org/W2146653758","https://openalex.org/W2153121902","https://openalex.org/W2154851992","https://openalex.org/W2326091185","https://openalex.org/W2938032333","https://openalex.org/W2962756421","https://openalex.org/W2998800236","https://openalex.org/W3014057592","https://openalex.org/W3104097132","https://openalex.org/W3136521802","https://openalex.org/W6636510571","https://openalex.org/W6639055396"],"related_works":["https://openalex.org/W2081900870","https://openalex.org/W177137871","https://openalex.org/W4292302930","https://openalex.org/W4386960635","https://openalex.org/W2345479200","https://openalex.org/W2183306018","https://openalex.org/W2594649246","https://openalex.org/W3184567430","https://openalex.org/W2849310602","https://openalex.org/W2924366642"],"abstract_inverted_index":{"The":[0],"study":[1],"of":[2,5,42,61,79,85,110],"complex":[3,43],"behavior":[4],"biological":[6,77],"systems":[7],"has":[8],"become":[9],"increasingly":[10],"dependent":[11],"on":[12],"evolutionary":[13],"network":[14,57,67,118],"modeling.":[15],"In":[16,45],"particular,":[17],"multi-omics":[18,56,94,117],"networks":[19],"capture":[20],"interactions":[21],"between":[22,35],"biomolecules":[23,37],"such":[24,36],"as":[25],"proteins":[26],"and":[27,38,69,105,124,126],"metabolites,":[28],"providing":[29],"a":[30,55,59],"basis":[31],"for":[32,66,82],"predicting":[33],"relationships":[34],"various":[39],"phenotypic":[40],"traits":[41],"diseases.":[44],"this":[46],"paper,":[47],"we":[48,96],"introduce":[49],"an":[50],"integrative":[51],"framework":[52,101],"that":[53,98],"given":[54],"representing":[58,119],"cohort":[60,121],"subjects,":[62],"learns":[63],"expressive":[64],"representations":[65,74],"nodes,":[68],"combines":[70],"the":[71,76,86,116,120],"learned":[72],"nodes":[73],"with":[75],"profiles":[78],"individual":[80],"subjects":[81],"enriched":[83],"representation":[84,112],"subjects.":[87],"With":[88],"extensive":[89],"empirical":[90],"evaluation":[91],"using":[92],"real-world":[93],"networks,":[95],"show":[97],"our":[99],"proposed":[100],"significantly":[102],"outperforms":[103],"existing":[104],"baseline":[106],"methods":[107],"in":[108],"terms":[109],"subject":[111],"accuracy,":[113],"particularly":[114],"when":[115],"is":[122],"sparse":[123],"structured":[125],"therefore,":[127],"more":[128],"informative.":[129]},"counts_by_year":[],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
