{"id":"https://openalex.org/W2026732830","doi":"https://doi.org/10.1109/bibmw.2012.6470228","title":"An ontology-based MicroRNA knowledge sharing and acquisition framework","display_name":"An ontology-based MicroRNA knowledge sharing and acquisition framework","publication_year":2012,"publication_date":"2012-10-01","ids":{"openalex":"https://openalex.org/W2026732830","doi":"https://doi.org/10.1109/bibmw.2012.6470228","mag":"2026732830"},"language":"en","primary_location":{"id":"doi:10.1109/bibmw.2012.6470228","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibmw.2012.6470228","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103191466","display_name":"Jingshan Huang","orcid":"https://orcid.org/0000-0003-2408-2883"},"institutions":[{"id":"https://openalex.org/I83809506","display_name":"University of South Alabama","ror":"https://ror.org/01s7b5y08","country_code":"US","type":"education","lineage":["https://openalex.org/I83809506"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jingshan Huang","raw_affiliation_strings":["School of Computing, University of South Alabama, Mobile, AL, U.S.A","School of Computing University of South Alabama, Mobile, AL, U.S.A"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computing, University of South Alabama, Mobile, AL, U.S.A","institution_ids":["https://openalex.org/I83809506"]},{"raw_affiliation_string":"School of Computing University of South Alabama, Mobile, AL, U.S.A","institution_ids":["https://openalex.org/I83809506"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030485564","display_name":"Xingyu Lu","orcid":"https://orcid.org/0000-0002-8393-0582"},"institutions":[{"id":"https://openalex.org/I83809506","display_name":"University of South Alabama","ror":"https://ror.org/01s7b5y08","country_code":"US","type":"education","lineage":["https://openalex.org/I83809506"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xingyu Lu","raw_affiliation_strings":["School of Computing, University of South Alabama, Mobile, AL, U.S.A","School of Computing University of South Alabama, Mobile, AL, U.S.A"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computing, University of South Alabama, Mobile, AL, U.S.A","institution_ids":["https://openalex.org/I83809506"]},{"raw_affiliation_string":"School of Computing University of South Alabama, Mobile, AL, U.S.A","institution_ids":["https://openalex.org/I83809506"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066063885","display_name":"Dejing Dou","orcid":"https://orcid.org/0000-0001-7561-1672"},"institutions":[{"id":"https://openalex.org/I181233156","display_name":"University of Oregon","ror":"https://ror.org/0293rh119","country_code":"US","type":"education","lineage":["https://openalex.org/I181233156"]},{"id":"https://openalex.org/I4210137693","display_name":"Siemens (United States)","ror":"https://ror.org/04axb7e79","country_code":"US","type":"company","lineage":["https://openalex.org/I1325886976","https://openalex.org/I4210137693"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dejing Dou","raw_affiliation_strings":["Siemens Corporate Research, Siemens Corporation, Princeton, NJ, U.S.A","Computer and Information Science Department, University of Oregon, Eugene, OR, U.S.A.#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Siemens Corporate Research, Siemens Corporation, Princeton, NJ, U.S.A","institution_ids":["https://openalex.org/I4210137693"]},{"raw_affiliation_string":"Computer and Information Science Department, University of Oregon, Eugene, OR, U.S.A.#TAB#","institution_ids":["https://openalex.org/I181233156"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027326839","display_name":"William T. Gerthoffer","orcid":"https://orcid.org/0000-0001-5154-4962"},"institutions":[{"id":"https://openalex.org/I181233156","display_name":"University of Oregon","ror":"https://ror.org/0293rh119","country_code":"US","type":"education","lineage":["https://openalex.org/I181233156"]},{"id":"https://openalex.org/I83809506","display_name":"University of South Alabama","ror":"https://ror.org/01s7b5y08","country_code":"US","type":"education","lineage":["https://openalex.org/I83809506"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"William T. Gerthoffer","raw_affiliation_strings":["Computer and Information Science Department, University of Oregon, Eugene, OR, U.S.A","Department of Biochemistry & Molecular Biology, University of South Alabama, Mobile, AL, U.S.A.#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer and Information Science Department, University of Oregon, Eugene, OR, U.S.A","institution_ids":["https://openalex.org/I181233156"]},{"raw_affiliation_string":"Department of Biochemistry & Molecular Biology, University of South Alabama, Mobile, AL, U.S.A.#TAB#","institution_ids":["https://openalex.org/I83809506"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113479569","display_name":"Jiangbo Dang","orcid":null},"institutions":[{"id":"https://openalex.org/I4210115256","display_name":"Jackson Laboratory","ror":"https://ror.org/021sy4w91","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210115256"]},{"id":"https://openalex.org/I4210137693","display_name":"Siemens (United States)","ror":"https://ror.org/04axb7e79","country_code":"US","type":"company","lineage":["https://openalex.org/I1325886976","https://openalex.org/I4210137693"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jiangbo Dang","raw_affiliation_strings":["The Jackson Laboratory, Bar Harbor, ME, U.S.A","Siemens Corporate Research, Siemens Corporation, Princeton, NJ, U.S.A"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Jackson Laboratory, Bar Harbor, ME, U.S.A","institution_ids":["https://openalex.org/I4210115256"]},{"raw_affiliation_string":"Siemens Corporate Research, Siemens Corporation, Princeton, NJ, U.S.A","institution_ids":["https://openalex.org/I4210137693"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016349593","display_name":"Judith A. Blake","orcid":"https://orcid.org/0000-0001-8522-334X"},"institutions":[{"id":"https://openalex.org/I4210115256","display_name":"Jackson Laboratory","ror":"https://ror.org/021sy4w91","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210115256"]},{"id":"https://openalex.org/I83809506","display_name":"University of South Alabama","ror":"https://ror.org/01s7b5y08","country_code":"US","type":"education","lineage":["https://openalex.org/I83809506"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Judith A. Blake","raw_affiliation_strings":["Department of Biochemistry & Molecular Biology, University of South Alabama, Mobile, AL, U.S.A","The Jackson Laboratory, Bar Harbor, ME, U.S.A"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry & Molecular Biology, University of South Alabama, Mobile, AL, U.S.A","institution_ids":["https://openalex.org/I83809506"]},{"raw_affiliation_string":"The Jackson Laboratory, Bar Harbor, ME, U.S.A","institution_ids":["https://openalex.org/I4210115256"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029461308","display_name":"Ming Tan","orcid":"https://orcid.org/0000-0001-6565-699X"},"institutions":[{"id":"https://openalex.org/I4210089171","display_name":"USA Mitchell Cancer Institute","ror":"https://ror.org/009wx7055","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210089171"]},{"id":"https://openalex.org/I83809506","display_name":"University of South Alabama","ror":"https://ror.org/01s7b5y08","country_code":"US","type":"education","lineage":["https://openalex.org/I83809506"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ming Tan","raw_affiliation_strings":["Mitchell Cancer Institute, University of South Alabama, Mobile, AL, U.S.A","Mitchell Cancer Institute, University of South Alabama, Mobile, AL, U.S.A.#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Mitchell Cancer Institute, University of South Alabama, Mobile, AL, U.S.A","institution_ids":["https://openalex.org/I4210089171"]},{"raw_affiliation_string":"Mitchell Cancer Institute, University of South Alabama, Mobile, AL, U.S.A.#TAB#","institution_ids":["https://openalex.org/I83809506"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"403","issue":null,"first_page":"740","last_page":"747"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9961000084877014,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9961000084877014,"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/T10181","display_name":"Natural Language Processing Techniques","score":0.9922999739646912,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.9778000116348267,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8066645860671997},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.716473400592804},{"id":"https://openalex.org/keywords/rdf","display_name":"RDF","score":0.6618063449859619},{"id":"https://openalex.org/keywords/metadata","display_name":"Metadata","score":0.6464270353317261},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.43122512102127075},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.4164552390575409},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.34204185009002686},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3363029658794403},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.2524270713329315},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.20202851295471191}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8066645860671997},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.716473400592804},{"id":"https://openalex.org/C147497476","wikidata":"https://www.wikidata.org/wiki/Q54872","display_name":"RDF","level":3,"score":0.6618063449859619},{"id":"https://openalex.org/C93518851","wikidata":"https://www.wikidata.org/wiki/Q180160","display_name":"Metadata","level":2,"score":0.6464270353317261},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.43122512102127075},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.4164552390575409},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.34204185009002686},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3363029658794403},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.2524270713329315},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.20202851295471191},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibmw.2012.6470228","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibmw.2012.6470228","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":19,"referenced_works":["https://openalex.org/W1479854424","https://openalex.org/W1516264322","https://openalex.org/W1890374229","https://openalex.org/W1920303762","https://openalex.org/W1992178442","https://openalex.org/W2006079840","https://openalex.org/W2061745554","https://openalex.org/W2065566217","https://openalex.org/W2097606805","https://openalex.org/W2101117089","https://openalex.org/W2118473681","https://openalex.org/W2124957697","https://openalex.org/W2127522557","https://openalex.org/W2146138309","https://openalex.org/W2148014577","https://openalex.org/W2162311237","https://openalex.org/W2169463693","https://openalex.org/W2604748391","https://openalex.org/W4205713444"],"related_works":["https://openalex.org/W2392768766","https://openalex.org/W2058118494","https://openalex.org/W2382021449","https://openalex.org/W2095118173","https://openalex.org/W2104269053","https://openalex.org/W2106424170","https://openalex.org/W1985426483","https://openalex.org/W2501188010","https://openalex.org/W4299935056","https://openalex.org/W2010935248"],"abstract_inverted_index":{"MicroRNAs":[0],"(miRNAs)":[1],"play":[2],"important":[3,94],"roles":[4,95],"in":[5,92,98,101,116,133],"various":[6,62],"biological":[7],"processes":[8],"by":[9,165],"regulating":[10],"their":[11],"target":[12],"genes.":[13],"Therefore,":[14],"miRNAs":[15,97],"are":[16],"closely":[17],"associated":[18],"with":[19],"development,":[20],"diagnosis,":[21],"and":[22,58,66,104,140,143,183],"prognosis":[23],"for":[24,36,121],"many":[25],"diseases.":[26],"The":[27],"prediction":[28],"of":[29,45,55,69,96,161],"miRNA":[30,118],"targets":[31,57],"remains":[32],"a":[33,146],"challenging":[34],"task":[35],"biologists":[37,91],"because":[38],"it":[39,71],"involves":[40],"an":[41,84,102],"extremely":[42],"large":[43],"amount":[44],"data":[46,136,152,171],"sources":[47,63,137],"to":[48,51,74,89,127,177,187],"be":[49],"explored:":[50],"manually":[52],"integrate":[53],"information":[54,60],"identified":[56],"related":[59],"from":[61,169],"is":[64,72],"time-consuming":[65],"error-prone;":[67],"most":[68],"all,":[70],"subject":[73],"biologists'":[75],"limited":[76],"prior":[77],"knowledge.":[78],"In":[79],"this":[80],"paper":[81],"we":[82,174],"investigated":[83],"ontology-based":[85,158],"knowledge":[86,180],"sharing":[87],"framework":[88],"assist":[90],"unraveling":[93],"human":[99],"disease":[100],"automated":[103],"more":[105],"efficient":[106],"manner,":[107],"(i)":[108],"We":[109,155],"developed":[110],"the":[111,117,128],"very":[112],"first":[113],"domain-specific":[114],"ontologies":[115],"field,":[119],"Ontology":[120],"MicroRNA":[122],"Target":[123],"(OMIT),":[124],"(ii)":[125],"According":[126],"global":[129],"metadata":[130],"model":[131],"defined":[132],"ontologies,":[134],"heterogeneous":[135],"were":[138,175],"annotated":[139],"seamlessly":[141],"integrated":[142],"stored":[144],"into":[145],"central":[147],"Resource":[148],"Description":[149],"Framework":[150],"(RDF)":[151],"repository,":[153],"(iii)":[154],"then":[156],"enabled":[157],"queries,":[159,164],"instead":[160],"traditional":[162],"SQL":[163],"inferring":[166],"new":[167],"statements":[168],"RDF":[170],"triples.":[172],"Consequently":[173],"able":[176],"acquire":[178],"hidden":[179],"originally":[181],"implicit":[182],"unclear,":[184],"yet":[185],"critical,":[186],"biologists.":[188]},"counts_by_year":[{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
