{"id":"https://openalex.org/W2100582962","doi":"https://doi.org/10.1093/bioinformatics/btq108","title":"Genome-wide inferring gene\u2013phenotype relationship by walking on the heterogeneous network","display_name":"Genome-wide inferring gene\u2013phenotype relationship by walking on the heterogeneous network","publication_year":2010,"publication_date":"2010-03-09","ids":{"openalex":"https://openalex.org/W2100582962","doi":"https://doi.org/10.1093/bioinformatics/btq108","mag":"2100582962","pmid":"https://pubmed.ncbi.nlm.nih.gov/20215462"},"language":"en","primary_location":{"is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq108","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/9/1219/48855372/bioinformatics_26_9_1219.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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/P4310311647","https://openalex.org/P4310311648"],"host_organization_lineage_names":["University of Oxford","Oxford University Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},"type":"article","type_crossref":"journal-article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/26/9/1219/48855372/bioinformatics_26_9_1219.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101561342","display_name":"Yongjin Li","orcid":"https://orcid.org/0000-0003-4322-308X"},"institutions":[{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Yongjin Li","raw_affiliation_strings":["School of Computer Engineering, Nanyang Technological University,,Singapore"],"affiliations":[{"raw_affiliation_string":"School of Computer Engineering, Nanyang Technological University,,Singapore","institution_ids":["https://openalex.org/I172675005"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049913930","display_name":"Jagdish C. Patra","orcid":"https://orcid.org/0000-0002-6257-0469"},"institutions":[{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Jagdish C. Patra","raw_affiliation_strings":["School of Computer Engineering, Nanyang Technological University,,Singapore"],"affiliations":[{"raw_affiliation_string":"School of Computer Engineering, Nanyang Technological University,,Singapore","institution_ids":["https://openalex.org/I172675005"]}]}],"institution_assertions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618,"provenance":"doaj"},"apc_paid":null,"fwci":7.331,"has_fulltext":true,"fulltext_origin":"pdf","cited_by_count":384,"citation_normalized_percentile":{"value":0.912218,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"26","issue":"9","first_page":"1219","last_page":"1224"},"is_retracted":false,"is_paratext":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":1.0,"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":1.0,"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":0.9994,"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":0.9944,"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/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4841507},{"id":"https://openalex.org/keywords/gene-prediction","display_name":"Gene prediction","score":0.42870516}],"concepts":[{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.89092004},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.7248607},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5888014},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.58512247},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5735445},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.5010967},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4841507},{"id":"https://openalex.org/C105565629","wikidata":"https://www.wikidata.org/wiki/Q1248292","display_name":"Gene prediction","level":4,"score":0.42870516},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.42169136},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.13384038},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.08602652},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000544","descriptor_name":"Alzheimer Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000544","descriptor_name":"Alzheimer Disease","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":"","qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq108","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/9/1219/48855372/bioinformatics_26_9_1219.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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/P4310311647","https://openalex.org/P4310311648"],"host_organization_lineage_names":["University of Oxford","Oxford University Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://hdl.handle.net/10356/94345","pdf_url":"https://dr.ntu.edu.sg/bitstream/10356/94345/1/2010March10_Bioinformatics_Oxford_Yongjin.pdf","source":{"id":"https://openalex.org/S4306402609","display_name":"DR-NTU (Nanyang Technological University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I172675005","host_organization_name":"Nanyang Technological University","host_organization_lineage":["https://openalex.org/I172675005"],"host_organization_lineage_names":["Nanyang Technological University"],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20215462","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":["National Institutes of Health"],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false}],"best_oa_location":{"is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq108","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/9/1219/48855372/bioinformatics_26_9_1219.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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/P4310311647","https://openalex.org/P4310311648"],"host_organization_lineage_names":["University of Oxford","Oxford University Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},"sustainable_development_goals":[],"grants":[],"datasets":[],"versions":[],"referenced_works_count":41,"referenced_works":["https://openalex.org/W1838763289","https://openalex.org/W1977717376","https://openalex.org/W1985849948","https://openalex.org/W2010637511","https://openalex.org/W2010707723","https://openalex.org/W2010826854","https://openalex.org/W2044340941","https://openalex.org/W2050818026","https://openalex.org/W2070448217","https://openalex.org/W2072664252","https://openalex.org/W2074871965","https://openalex.org/W2083045667","https://openalex.org/W2083431736","https://openalex.org/W2084974619","https://openalex.org/W2097498614","https://openalex.org/W2102780100","https://openalex.org/W2104261859","https://openalex.org/W2105813018","https://openalex.org/W2107913399","https://openalex.org/W2108181223","https://openalex.org/W2109555487","https://openalex.org/W2119220491","https://openalex.org/W2119412782","https://openalex.org/W2119943416","https://openalex.org/W2121926780","https://openalex.org/W2123699903","https://openalex.org/W2124204060","https://openalex.org/W2132056568","https://openalex.org/W2133219389","https://openalex.org/W2134672568","https://openalex.org/W2136410628","https://openalex.org/W2142271737","https://openalex.org/W2148564836","https://openalex.org/W2153091158","https://openalex.org/W2153280946","https://openalex.org/W2154654747","https://openalex.org/W2162010993","https://openalex.org/W2164362099","https://openalex.org/W2166860552","https://openalex.org/W3191105665","https://openalex.org/W4235457527"],"related_works":["https://openalex.org/W4321242349","https://openalex.org/W3178279768","https://openalex.org/W3094269189","https://openalex.org/W2112814626","https://openalex.org/W2086525401","https://openalex.org/W2079327011","https://openalex.org/W2053325634","https://openalex.org/W2006735166","https://openalex.org/W193851735","https://openalex.org/W1840542775"],"abstract_inverted_index":{"Clinical":[0],"diseases":[1,43,60],"are":[2,44],"characterized":[3],"by":[4,34,78,149,167],"distinct":[5],"phenotypes.":[6,26],"To":[7],"identify":[8],"disease":[9,143,160],"genes":[10,21,33,111],"is":[11,28,175],"to":[12,30,103,119,140],"elucidate":[13],"the":[14,52,57,66,80,87,92,97,104,110,121,125,138,173],"gene-phenotype":[15,126],"relationships.":[16],"Mutations":[17],"in":[18,24],"functionally":[19],"related":[20],"may":[22,50],"result":[23],"similar":[25],"It":[27],"reasonable":[29],"predict":[31],"disease-causing":[32],"integrating":[35],"phenotypic":[36],"data":[37],"and":[38,83,112],"genomic":[39],"data.":[40],"Some":[41],"genetic":[42],"genetically":[45],"or":[46,152],"phenotypically":[47],"similar.":[48],"They":[49],"share":[51],"common":[53],"pathogenetic":[54,67],"mechanisms.":[55],"Identifying":[56],"relationship":[58,89],"between":[59],"will":[61],"facilitate":[62],"better":[63],"understanding":[64],"of":[65,69,123,163,172],"mechanism":[68],"diseases.In":[70],"this":[71],"article,":[72],"we":[73],"constructed":[74],"a":[75],"heterogeneous":[76,105],"network":[77,82,85,151,154],"connecting":[79],"gene":[81,150],"phenotype":[84,153],"using":[86],"phenotype-gene":[88],"information":[90],"from":[91],"OMIM":[93],"database.":[94],"We":[95,115,135,156],"extended":[96],"random":[98],"walk":[99],"with":[100],"restart":[101],"algorithm":[102,108,139],"network.":[106],"The":[107],"prioritizes":[109],"phenotypes":[113],"simultaneously.":[114],"use":[116],"leave-one-out":[117],"cross-validation":[118],"evaluate":[120],"ability":[122],"finding":[124],"relationship.":[127],"Results":[128],"showed":[129],"improved":[130],"performance":[131],"than":[132],"previous":[133],"works.":[134],"also":[136],"used":[137],"disclose":[141],"hidden":[142,159],"associations":[144],"that":[145],"cannot":[146],"be":[147],"found":[148],"alone.":[155],"identified":[157],"18":[158],"associations,":[161],"most":[162],"which":[164],"were":[165],"supported":[166],"literature":[168],"evidence.The":[169],"MATLAB":[170],"code":[171],"program":[174],"available":[176],"at":[177],"http://www3.ntu.edu.sg/home/aspatra/research/Yongjin_BI2010.zip.":[178]},"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W2100582962","counts_by_year":[{"year":2024,"cited_by_count":14},{"year":2023,"cited_by_count":26},{"year":2022,"cited_by_count":21},{"year":2021,"cited_by_count":29},{"year":2020,"cited_by_count":36},{"year":2019,"cited_by_count":33},{"year":2018,"cited_by_count":44},{"year":2017,"cited_by_count":29},{"year":2016,"cited_by_count":32},{"year":2015,"cited_by_count":35},{"year":2014,"cited_by_count":25},{"year":2013,"cited_by_count":20},{"year":2012,"cited_by_count":18}],"updated_date":"2024-12-20T03:04:28.821615","created_date":"2016-06-24"}