{"id":"https://openalex.org/W2050145598","doi":"https://doi.org/10.1093/nar/gkp483","title":"Gendoo: Functional profiling of gene and disease features using MeSH vocabulary","display_name":"Gendoo: Functional profiling of gene and disease features using MeSH vocabulary","publication_year":2009,"publication_date":"2009-06-04","ids":{"openalex":"https://openalex.org/W2050145598","doi":"https://doi.org/10.1093/nar/gkp483","mag":"2050145598","pmid":"https://pubmed.ncbi.nlm.nih.gov/19498079"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkp483","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp483","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W166/16759451/gkp483.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W166/16759451/gkp483.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085521374","display_name":"Takeru Nakazato","orcid":"https://orcid.org/0000-0002-0706-2867"},"institutions":[{"id":"https://openalex.org/I4210158934","display_name":"Research Organization of Information and Systems","ror":"https://ror.org/04p4e8t29","country_code":"JP","type":"facility","lineage":["https://openalex.org/I1319490839","https://openalex.org/I4210158934"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Takeru Nakazato","raw_affiliation_strings":["Database Center for Life Science, Research Organization of Information and Systems, Faculty of Engineering Building 12, The University of Tokyo, 2-11-16 Yayoi, Bunkyo-ku, Tokyo 113-0032, Japan. nakazato@dbcls.rois.ac.jp","The University of Tokyo, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Database Center for Life Science, Research Organization of Information and Systems, Faculty of Engineering Building 12, The University of Tokyo, 2-11-16 Yayoi, Bunkyo-ku, Tokyo 113-0032, Japan. nakazato@dbcls.rois.ac.jp","institution_ids":["https://openalex.org/I4210158934"]},{"raw_affiliation_string":"The University of Tokyo, Tokyo, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079934306","display_name":"Hidemasa Bono","orcid":"https://orcid.org/0000-0003-4413-0651"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hidemasa Bono","raw_affiliation_strings":["The University of Tokyo, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The University of Tokyo, Tokyo, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007909918","display_name":"Hideo Matsuda","orcid":"https://orcid.org/0000-0002-4701-3779"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hideo Matsuda","raw_affiliation_strings":["The University of Tokyo, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The University of Tokyo, Tokyo, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5104355283","display_name":"Toshihisa Takagi","orcid":null},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Toshihisa Takagi","raw_affiliation_strings":["The University of Tokyo, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The University of Tokyo, Tokyo, Japan","institution_ids":["https://openalex.org/I74801974"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":1.4851,"has_fulltext":false,"cited_by_count":45,"citation_normalized_percentile":{"value":0.81283464,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"37","issue":"suppl_2","first_page":"W166","last_page":"W169"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9997000098228455,"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":0.9997000098228455,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9977999925613403,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9886999726295471,"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/computational-biology","display_name":"Computational biology","score":0.6272462010383606},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6201993823051453},{"id":"https://openalex.org/keywords/omim-online-mendelian-inheritance-in-man","display_name":"OMIM : Online Mendelian Inheritance in Man","score":0.5826591849327087},{"id":"https://openalex.org/keywords/controlled-vocabulary","display_name":"Controlled vocabulary","score":0.46956586837768555},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.4520934224128723},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.38151049613952637},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3300514221191406},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3159968852996826},{"id":"https://openalex.org/keywords/phenotype","display_name":"Phenotype","score":0.26855963468551636},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.2189755141735077}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6272462010383606},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6201993823051453},{"id":"https://openalex.org/C191791410","wikidata":"https://www.wikidata.org/wiki/Q241953","display_name":"OMIM : Online Mendelian Inheritance in Man","level":4,"score":0.5826591849327087},{"id":"https://openalex.org/C110615152","wikidata":"https://www.wikidata.org/wiki/Q1469824","display_name":"Controlled vocabulary","level":2,"score":0.46956586837768555},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.4520934224128723},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.38151049613952637},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3300514221191406},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3159968852996826},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.26855963468551636},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.2189755141735077}],"mesh":[{"descriptor_ui":"D003920","descriptor_name":"Diabetes Mellitus","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D003920","descriptor_name":"Diabetes Mellitus","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D003920","descriptor_name":"Diabetes Mellitus","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","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":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D046650","descriptor_name":"Medical Subject Headings","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D046650","descriptor_name":"Medical Subject Headings","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D046650","descriptor_name":"Medical Subject Headings","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/nar/gkp483","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp483","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W166/16759451/gkp483.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:19498079","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19498079","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:2703956","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2703956","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":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkp483","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp483","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W166/16759451/gkp483.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.5,"id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2050145598.pdf"},"referenced_works_count":28,"referenced_works":["https://openalex.org/W131808166","https://openalex.org/W149962513","https://openalex.org/W174753650","https://openalex.org/W1521652389","https://openalex.org/W1600834905","https://openalex.org/W1864849166","https://openalex.org/W1994306321","https://openalex.org/W2021549782","https://openalex.org/W2047017978","https://openalex.org/W2052721941","https://openalex.org/W2070448217","https://openalex.org/W2103017472","https://openalex.org/W2105813018","https://openalex.org/W2107580398","https://openalex.org/W2116040937","https://openalex.org/W2119412782","https://openalex.org/W2119833657","https://openalex.org/W2134725489","https://openalex.org/W2137518425","https://openalex.org/W2154654747","https://openalex.org/W2156443053","https://openalex.org/W4210430020","https://openalex.org/W4213060373","https://openalex.org/W4248234957","https://openalex.org/W4320800138","https://openalex.org/W6605389050","https://openalex.org/W6606141989","https://openalex.org/W6607080078"],"related_works":["https://openalex.org/W4250615304","https://openalex.org/W1589164005","https://openalex.org/W4248234957","https://openalex.org/W2119412782","https://openalex.org/W562794435","https://openalex.org/W1994127362","https://openalex.org/W2156830367","https://openalex.org/W2965254421","https://openalex.org/W2145547964","https://openalex.org/W2163786417"],"abstract_inverted_index":{"Genome-wide":[0],"data":[1,48],"enables":[2],"us":[3],"to":[4,113,150],"clarify":[5],"the":[6,74,94,159],"underlying":[7],"molecular":[8,170],"mechanisms":[9],"of":[10,26,66,86,97,121],"complex":[11],"phenotypes.":[12],"The":[13],"Online":[14],"Mendelian":[15],"Inheritance":[16],"in":[17],"Man":[18],"(OMIM)":[19],"is":[20,50,135,148,175],"a":[21,102],"widely":[22],"employed":[23],"knowledge":[24],"base":[25],"human":[27],"genes":[28,61],"and":[29,60,71,89,124,144,158,171],"genetic":[30],"disorders":[31],"for":[32,42,53,166],"biological":[33,69],"researchers.":[34],"However,":[35],"OMIM":[36,87],"has":[37],"not":[38,51],"been":[39],"fully":[40],"exploited":[41],"omics":[43,167],"analysis":[44,168],"because":[45],"its":[46],"bibliographic":[47],"structure":[49],"suitable":[52],"computer":[54],"automation.":[55],"Here,":[56],"we":[57,127],"characterized":[58],"diseases":[59],"by":[62,92],"generating":[63],"feature":[64,119,161],"profiles":[65,120,162],"associated":[67],"drugs,":[68],"phenomena":[70],"anatomy":[72],"with":[73],"MeSH":[75,90],"(Medical":[76],"Subject":[77],"Headings)":[78],"vocabulary.":[79],"We":[80,100],"obtained":[81],"1":[82,123,133],"760":[83],"054":[84],"pairs":[85],"entries":[88],"terms":[91],"utilizing":[93],"full":[95],"set":[96],"MEDLINE":[98],"articles.":[99],"developed":[101,160],"web-based":[103],"application":[104],"called":[105],"Gendoo":[106,157,174],"(gene,":[107],"disease":[108,138],"features":[109],"ontology-based":[110],"overview":[111],"system)":[112],"visualize":[114],"these":[115],"profiles.":[116],"By":[117],"comparing":[118],"types":[122],"2":[125,146],"diabetes,":[126],"clearly":[128],"illustrated":[129],"their":[130],"differences:":[131],"type":[132,145],"diabetes":[134,147],"an":[136],"autoimmune":[137],"(P-value":[139,152],"=":[140,153],"4.55":[141],"x":[142,155],"10(-5))":[143],"related":[149],"obesity":[151],"1.18":[154],"10(-15)).":[156],"should":[163],"be":[164],"useful":[165],"from":[169],"clinical":[172],"viewpoints.":[173],"available":[176],"at":[177],"http://gendoo.dbcls.jp/.":[178]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":7},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":4},{"year":2012,"cited_by_count":5}],"updated_date":"2026-05-22T06:13:13.366637","created_date":"2025-10-10T00:00:00"}
