{"id":"https://openalex.org/W2127451705","doi":"https://doi.org/10.1093/bib/bbp002","title":"Semantic web for integrated network analysis in biomedicine","display_name":"Semantic web for integrated network analysis in biomedicine","publication_year":2009,"publication_date":"2009-03-01","ids":{"openalex":"https://openalex.org/W2127451705","doi":"https://doi.org/10.1093/bib/bbp002","mag":"2127451705","pmid":"https://pubmed.ncbi.nlm.nih.gov/19304873"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbp002","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbp002","pdf_url":"https://academic.oup.com/bib/article-pdf/10/2/177/448810/bbp002.pdf","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":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/10/2/177/448810/bbp002.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008473103","display_name":"Hongyang Chen","orcid":"https://orcid.org/0000-0002-7626-0162"},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"H. Chen","raw_affiliation_strings":["School of Computer Science, Zhejiang University. huajunsir@gmail.com"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, Zhejiang University. huajunsir@gmail.com","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036371038","display_name":"Li Ding","orcid":"https://orcid.org/0000-0003-2051-7886"},"institutions":[{"id":"https://openalex.org/I1284308235","display_name":"Translational Genomics Research Institute","ror":"https://ror.org/02hfpnk21","country_code":"US","type":"facility","lineage":["https://openalex.org/I1284308235"]},{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]},{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]},{"id":"https://openalex.org/I4210092042","display_name":"Knowledge Systems Institute","ror":"https://ror.org/00mp1mt27","country_code":"US","type":"education","lineage":["https://openalex.org/I4210092042"]},{"id":"https://openalex.org/I4210141683","display_name":"China Academy of Chinese Medical Sciences","ror":"https://ror.org/042pgcv68","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210141683"]},{"id":"https://openalex.org/I4210155419","display_name":"Center for Systems Biology","ror":"https://ror.org/05r3dyn47","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210155419","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]},{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"L. Ding","raw_affiliation_strings":["Li Ding is a research scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution. He was previously a postdoctoral fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine,","Department of Computer and Information Science of Purdue University","fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution","School of Computer Science, Zhejiang University","member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","School of Computer Science, Zhejiang University, and the deputy director of Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","Zhejiang University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Li Ding is a research scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution. He was previously a postdoctoral fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","institution_ids":["https://openalex.org/I165799507"]},{"raw_affiliation_string":"Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine,","institution_ids":["https://openalex.org/I4210155419","https://openalex.org/I592451"]},{"raw_affiliation_string":"Department of Computer and Information Science of Purdue University","institution_ids":["https://openalex.org/I219193219"]},{"raw_affiliation_string":"fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","institution_ids":["https://openalex.org/I4210092042"]},{"raw_affiliation_string":"scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution","institution_ids":["https://openalex.org/I165799507"]},{"raw_affiliation_string":"School of Computer Science, Zhejiang University","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","institution_ids":["https://openalex.org/I1284308235"]},{"raw_affiliation_string":"professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","institution_ids":["https://openalex.org/I4210141683"]},{"raw_affiliation_string":"School of Computer Science, Zhejiang University, and the deputy director of Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","institution_ids":["https://openalex.org/I4210141683"]},{"raw_affiliation_string":"Zhejiang University","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090639535","display_name":"Zhihua Wu","orcid":"https://orcid.org/0000-0002-2895-7256"},"institutions":[{"id":"https://openalex.org/I1284308235","display_name":"Translational Genomics Research Institute","ror":"https://ror.org/02hfpnk21","country_code":"US","type":"facility","lineage":["https://openalex.org/I1284308235"]},{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]},{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]},{"id":"https://openalex.org/I4210092042","display_name":"Knowledge Systems Institute","ror":"https://ror.org/00mp1mt27","country_code":"US","type":"education","lineage":["https://openalex.org/I4210092042"]},{"id":"https://openalex.org/I4210141683","display_name":"China Academy of Chinese Medical Sciences","ror":"https://ror.org/042pgcv68","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210141683"]},{"id":"https://openalex.org/I4210155419","display_name":"Center for Systems Biology","ror":"https://ror.org/05r3dyn47","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210155419","https://openalex.org/I48633490"]},{"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"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]},{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Z. Wu","raw_affiliation_strings":["Zhaohui Wu is a full professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and Zhejiang University","Department of Computer and Information Science of Purdue University","scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution","fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine,","School of Computer Science, Zhejiang University, and the deputy director of Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","School of Computer Science, Zhejiang University","Zhejiang University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Zhaohui Wu is a full professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and Zhejiang University","institution_ids":["https://openalex.org/I4210165038"]},{"raw_affiliation_string":"Department of Computer and Information Science of Purdue University","institution_ids":["https://openalex.org/I219193219"]},{"raw_affiliation_string":"scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution","institution_ids":["https://openalex.org/I165799507"]},{"raw_affiliation_string":"fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","institution_ids":["https://openalex.org/I4210092042"]},{"raw_affiliation_string":"professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","institution_ids":["https://openalex.org/I4210141683"]},{"raw_affiliation_string":"member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","institution_ids":["https://openalex.org/I1284308235"]},{"raw_affiliation_string":"Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine,","institution_ids":["https://openalex.org/I4210155419","https://openalex.org/I592451"]},{"raw_affiliation_string":"School of Computer Science, Zhejiang University, and the deputy director of Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","institution_ids":["https://openalex.org/I4210141683"]},{"raw_affiliation_string":"School of Computer Science, Zhejiang University","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"Zhejiang University","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057697869","display_name":"Tao Yu","orcid":"https://orcid.org/0000-0002-0143-261X"},"institutions":[{"id":"https://openalex.org/I1284308235","display_name":"Translational Genomics Research Institute","ror":"https://ror.org/02hfpnk21","country_code":"US","type":"facility","lineage":["https://openalex.org/I1284308235"]},{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]},{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]},{"id":"https://openalex.org/I4210092042","display_name":"Knowledge Systems Institute","ror":"https://ror.org/00mp1mt27","country_code":"US","type":"education","lineage":["https://openalex.org/I4210092042"]},{"id":"https://openalex.org/I4210141683","display_name":"China Academy of Chinese Medical Sciences","ror":"https://ror.org/042pgcv68","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210141683"]},{"id":"https://openalex.org/I4210155419","display_name":"Center for Systems Biology","ror":"https://ror.org/05r3dyn47","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210155419","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]},{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"T. Yu","raw_affiliation_strings":["Tong Yu is a PhD candidate at School of Computer Science, Zhejiang University","scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution","School of Computer Science, Zhejiang University","Zhejiang University","Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine,","Department of Computer and Information Science of Purdue University","professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","School of Computer Science, Zhejiang University, and the deputy director of Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tong Yu is a PhD candidate at School of Computer Science, Zhejiang University","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution","institution_ids":["https://openalex.org/I165799507"]},{"raw_affiliation_string":"School of Computer Science, Zhejiang University","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"Zhejiang University","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine,","institution_ids":["https://openalex.org/I4210155419","https://openalex.org/I592451"]},{"raw_affiliation_string":"Department of Computer and Information Science of Purdue University","institution_ids":["https://openalex.org/I219193219"]},{"raw_affiliation_string":"professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","institution_ids":["https://openalex.org/I4210141683"]},{"raw_affiliation_string":"member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","institution_ids":["https://openalex.org/I1284308235"]},{"raw_affiliation_string":"fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","institution_ids":["https://openalex.org/I4210092042"]},{"raw_affiliation_string":"School of Computer Science, Zhejiang University, and the deputy director of Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","institution_ids":["https://openalex.org/I4210141683"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083952275","display_name":"Lavanya Dhanapalan","orcid":null},"institutions":[{"id":"https://openalex.org/I1284308235","display_name":"Translational Genomics Research Institute","ror":"https://ror.org/02hfpnk21","country_code":"US","type":"facility","lineage":["https://openalex.org/I1284308235"]},{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]},{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]},{"id":"https://openalex.org/I4210092042","display_name":"Knowledge Systems Institute","ror":"https://ror.org/00mp1mt27","country_code":"US","type":"education","lineage":["https://openalex.org/I4210092042"]},{"id":"https://openalex.org/I4210141683","display_name":"China Academy of Chinese Medical Sciences","ror":"https://ror.org/042pgcv68","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210141683"]},{"id":"https://openalex.org/I4210155419","display_name":"Center for Systems Biology","ror":"https://ror.org/05r3dyn47","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210155419","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]},{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"L. Dhanapalan","raw_affiliation_strings":["Lavanya Dhanapalan is a PhD Candidate of Department of Computer and Information Science of Purdue University","scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution","professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","School of Computer Science, Zhejiang University","School of Computer Science, Zhejiang University, and the deputy director of Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine,","member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","Department of Computer and Information Science of Purdue University","Zhejiang University","fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lavanya Dhanapalan is a PhD Candidate of Department of Computer and Information Science of Purdue University","institution_ids":["https://openalex.org/I219193219"]},{"raw_affiliation_string":"scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution","institution_ids":["https://openalex.org/I165799507"]},{"raw_affiliation_string":"professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","institution_ids":["https://openalex.org/I4210141683"]},{"raw_affiliation_string":"School of Computer Science, Zhejiang University","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"School of Computer Science, Zhejiang University, and the deputy director of Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","institution_ids":["https://openalex.org/I4210141683"]},{"raw_affiliation_string":"Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine,","institution_ids":["https://openalex.org/I4210155419","https://openalex.org/I592451"]},{"raw_affiliation_string":"member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","institution_ids":["https://openalex.org/I1284308235"]},{"raw_affiliation_string":"Department of Computer and Information Science of Purdue University","institution_ids":["https://openalex.org/I219193219"]},{"raw_affiliation_string":"Zhejiang University","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","institution_ids":["https://openalex.org/I4210092042"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5058469124","display_name":"Jake Y. Chen","orcid":"https://orcid.org/0000-0001-8829-7504"},"institutions":[{"id":"https://openalex.org/I1284308235","display_name":"Translational Genomics Research Institute","ror":"https://ror.org/02hfpnk21","country_code":"US","type":"facility","lineage":["https://openalex.org/I1284308235"]},{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]},{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]},{"id":"https://openalex.org/I4210092042","display_name":"Knowledge Systems Institute","ror":"https://ror.org/00mp1mt27","country_code":"US","type":"education","lineage":["https://openalex.org/I4210092042"]},{"id":"https://openalex.org/I4210141683","display_name":"China Academy of Chinese Medical Sciences","ror":"https://ror.org/042pgcv68","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210141683"]},{"id":"https://openalex.org/I4210155419","display_name":"Center for Systems Biology","ror":"https://ror.org/05r3dyn47","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210155419","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]},{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"J. Y. Chen","raw_affiliation_strings":["Jake Y. Chen is an assistant professor of Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine, and also an advisory committee member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution","School of Computer Science, Zhejiang University","member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","Department of Computer and Information Science of Purdue University","Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine,","Zhejiang University","fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","School of Computer Science, Zhejiang University, and the deputy director of Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Jake Y. Chen is an assistant professor of Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine, and also an advisory committee member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"scientist of Tetherless World Constellation, Rensselaer Polytechnic Institution","institution_ids":["https://openalex.org/I165799507"]},{"raw_affiliation_string":"School of Computer Science, Zhejiang University","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"member of IU School of Medicine Translational Genomics Core IU Center for Environmental Health","institution_ids":["https://openalex.org/I1284308235"]},{"raw_affiliation_string":"professor of School of Computer Science, Zhejiang University, and the director of the Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","institution_ids":["https://openalex.org/I4210141683"]},{"raw_affiliation_string":"Department of Computer and Information Science of Purdue University","institution_ids":["https://openalex.org/I219193219"]},{"raw_affiliation_string":"Informatics and Computer Science, Indiana University School of Informatics, and Purdue University Department of Computer & Information Science. He is the founding director of Indiana Center for Systems Biology and Personalized Medicine,","institution_ids":["https://openalex.org/I4210155419","https://openalex.org/I592451"]},{"raw_affiliation_string":"Zhejiang University","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"fellow of Knowledge Systems, Artificial Intelligence Laboratory (KSL), Stanford University","institution_ids":["https://openalex.org/I4210092042"]},{"raw_affiliation_string":"School of Computer Science, Zhejiang University, and the deputy director of Center for Traditional Chinese Medicine Informatics, China Academy of Chinese Medicine Sciences (CACMS) and","institution_ids":["https://openalex.org/I4210141683"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":10,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":3.3753,"has_fulltext":true,"cited_by_count":54,"citation_normalized_percentile":{"value":0.92945506,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"10","issue":"2","first_page":"177","last_page":"192"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9966999888420105,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9966999888420105,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.9944999814033508,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9937999844551086,"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/biomedicine","display_name":"Biomedicine","score":0.7101866602897644},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6922252178192139},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.6051650643348694},{"id":"https://openalex.org/keywords/social-semantic-web","display_name":"Social Semantic Web","score":0.4853633642196655},{"id":"https://openalex.org/keywords/semantic-web-stack","display_name":"Semantic Web Stack","score":0.47103482484817505},{"id":"https://openalex.org/keywords/semantic-network","display_name":"Semantic network","score":0.464138925075531},{"id":"https://openalex.org/keywords/semantic-analysis","display_name":"Semantic analysis (machine learning)","score":0.4546939432621002},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.43872788548469543},{"id":"https://openalex.org/keywords/semantic-analytics","display_name":"Semantic analytics","score":0.4265541434288025},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.42334696650505066},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.2916242480278015},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.08159703016281128},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.07700726389884949}],"concepts":[{"id":"https://openalex.org/C66782513","wikidata":"https://www.wikidata.org/wiki/Q864601","display_name":"Biomedicine","level":2,"score":0.7101866602897644},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6922252178192139},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.6051650643348694},{"id":"https://openalex.org/C534406577","wikidata":"https://www.wikidata.org/wiki/Q7550843","display_name":"Social Semantic Web","level":3,"score":0.4853633642196655},{"id":"https://openalex.org/C167379230","wikidata":"https://www.wikidata.org/wiki/Q1026884","display_name":"Semantic Web Stack","level":3,"score":0.47103482484817505},{"id":"https://openalex.org/C85407183","wikidata":"https://www.wikidata.org/wiki/Q1045785","display_name":"Semantic network","level":2,"score":0.464138925075531},{"id":"https://openalex.org/C2777946921","wikidata":"https://www.wikidata.org/wiki/Q7449044","display_name":"Semantic analysis (machine learning)","level":2,"score":0.4546939432621002},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.43872788548469543},{"id":"https://openalex.org/C148792806","wikidata":"https://www.wikidata.org/wiki/Q7449046","display_name":"Semantic analytics","level":4,"score":0.4265541434288025},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.42334696650505066},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.2916242480278015},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.08159703016281128},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.07700726389884949}],"mesh":[{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","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":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D033181","descriptor_name":"Information Dissemination","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D033181","descriptor_name":"Information Dissemination","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D033181","descriptor_name":"Information Dissemination","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbp002","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbp002","pdf_url":"https://academic.oup.com/bib/article-pdf/10/2/177/448810/bbp002.pdf","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:19304873","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19304873","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":{"id":"doi:10.1093/bib/bbp002","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbp002","pdf_url":"https://academic.oup.com/bib/article-pdf/10/2/177/448810/bbp002.pdf","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"},"sustainable_development_goals":[{"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17","score":0.4099999964237213}],"awards":[{"id":"https://openalex.org/G5269009513","display_name":"CT-T: Transparent Accountable Datamining Initiative (TAMI)","funder_award_id":"0524481","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320332180","display_name":"Defense Advanced Research Projects Agency","ror":"https://ror.org/02caytj08"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2127451705.pdf","grobid_xml":"https://content.openalex.org/works/W2127451705.grobid-xml"},"referenced_works_count":84,"referenced_works":["https://openalex.org/W51213918","https://openalex.org/W289675543","https://openalex.org/W615292596","https://openalex.org/W1484305399","https://openalex.org/W1544009106","https://openalex.org/W1644749979","https://openalex.org/W1974833742","https://openalex.org/W1975762434","https://openalex.org/W1977968320","https://openalex.org/W1984220047","https://openalex.org/W1989921625","https://openalex.org/W1990890881","https://openalex.org/W1997578267","https://openalex.org/W2015705446","https://openalex.org/W2053126761","https://openalex.org/W2056780622","https://openalex.org/W2065790106","https://openalex.org/W2081931663","https://openalex.org/W2083045667","https://openalex.org/W2084833542","https://openalex.org/W2085761620","https://openalex.org/W2086760587","https://openalex.org/W2092176451","https://openalex.org/W2096018540","https://openalex.org/W2098045561","https://openalex.org/W2099003704","https://openalex.org/W2099862356","https://openalex.org/W2100585269","https://openalex.org/W2103170157","https://openalex.org/W2103260426","https://openalex.org/W2106119591","https://openalex.org/W2110893883","https://openalex.org/W2111823238","https://openalex.org/W2112262143","https://openalex.org/W2112705721","https://openalex.org/W2112811019","https://openalex.org/W2113445341","https://openalex.org/W2114118583","https://openalex.org/W2117412805","https://openalex.org/W2119412782","https://openalex.org/W2120337732","https://openalex.org/W2121131107","https://openalex.org/W2124533460","https://openalex.org/W2126449841","https://openalex.org/W2126886538","https://openalex.org/W2126969584","https://openalex.org/W2128923603","https://openalex.org/W2129250201","https://openalex.org/W2133319394","https://openalex.org/W2135272908","https://openalex.org/W2135408592","https://openalex.org/W2135602072","https://openalex.org/W2136539307","https://openalex.org/W2137999759","https://openalex.org/W2138003801","https://openalex.org/W2138334274","https://openalex.org/W2138621811","https://openalex.org/W2138906045","https://openalex.org/W2139621016","https://openalex.org/W2142216989","https://openalex.org/W2144636447","https://openalex.org/W2145100112","https://openalex.org/W2146063629","https://openalex.org/W2147714160","https://openalex.org/W2147977520","https://openalex.org/W2148308644","https://openalex.org/W2149255331","https://openalex.org/W2151936673","https://openalex.org/W2152495216","https://openalex.org/W2152577585","https://openalex.org/W2153624566","https://openalex.org/W2153720577","https://openalex.org/W2155331065","https://openalex.org/W2160556205","https://openalex.org/W2163480486","https://openalex.org/W2165674132","https://openalex.org/W2167190345","https://openalex.org/W2170610499","https://openalex.org/W2237747178","https://openalex.org/W2315135172","https://openalex.org/W2898709021","https://openalex.org/W3140207494","https://openalex.org/W4285719527","https://openalex.org/W4298203020"],"related_works":["https://openalex.org/W2349698472","https://openalex.org/W2366430559","https://openalex.org/W2005492920","https://openalex.org/W2023110884","https://openalex.org/W1521613906","https://openalex.org/W1985801232","https://openalex.org/W3150576547","https://openalex.org/W1975429881","https://openalex.org/W2348459908","https://openalex.org/W2151801904"],"abstract_inverted_index":{"The":[0],"Semantic":[1,39],"Web":[2,13,40],"technology":[3,41],"enables":[4],"integration":[5],"of":[6,18,33,36,92],"heterogeneous":[7],"data":[8,19,74],"on":[9],"the":[10,16,29,34,38,47,90],"World":[11],"Wide":[12],"by":[14],"making":[15],"semantics":[17],"explicit":[20],"through":[21],"formal":[22],"ontologies.":[23],"In":[24],"this":[25],"article,":[26],"we":[27,80],"survey":[28],"feasibility":[30],"and":[31,45,102],"state":[32],"art":[35],"utilizing":[37],"to":[42,62,65,89],"represent,":[43],"integrate":[44,66],"analyze":[46],"knowledge":[48],"in":[49,72],"various":[50],"biomedical":[51],"networks.":[52],"We":[53],"introduce":[54],"a":[55],"new":[56],"conceptual":[57],"framework,":[58],"semantic":[59,83],"graph":[60,67,84],"mining,":[61],"enable":[63],"researchers":[64],"mining":[68,85],"with":[69],"ontology":[70],"reasoning":[71],"network":[73],"analysis.":[75,105],"Through":[76],"four":[77],"case":[78],"studies,":[79],"demonstrate":[81],"how":[82],"can":[86],"be":[87],"applied":[88],"analysis":[91,101],"disease-causal":[93],"genes,":[94],"Gene":[95],"Ontology":[96],"category":[97],"cross-talks,":[98],"drug":[99],"efficacy":[100],"herb-drug":[103],"interactions":[104]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":10},{"year":2012,"cited_by_count":10}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}
