{"id":"https://openalex.org/W2285122704","doi":"https://doi.org/10.1136/amiajnl-2012-001350","title":"Knowledge-based biomedical word sense disambiguation: an evaluation and application to clinical document classification","display_name":"Knowledge-based biomedical word sense disambiguation: an evaluation and application to clinical document classification","publication_year":2012,"publication_date":"2012-10-31","ids":{"openalex":"https://openalex.org/W2285122704","doi":"https://doi.org/10.1136/amiajnl-2012-001350","mag":"2285122704","pmid":"https://pubmed.ncbi.nlm.nih.gov/23077130"},"language":"en","primary_location":{"id":"doi:10.1136/amiajnl-2012-001350","is_oa":true,"landing_page_url":"https://doi.org/10.1136/amiajnl-2012-001350","pdf_url":"https://academic.oup.com/jamia/article-pdf/20/5/882/17375039/20-5-882.pdf","source":{"id":"https://openalex.org/S129839026","display_name":"Journal of the American Medical Informatics Association","issn_l":"1067-5027","issn":["1067-5027","1527-974X"],"is_oa":false,"is_in_doaj":false,"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":"Journal of the American Medical Informatics Association","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/jamia/article-pdf/20/5/882/17375039/20-5-882.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5019446513","display_name":"Vijay Garla","orcid":null},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Vijay N Garla","raw_affiliation_strings":["Yale Center for Medical Informatics, Yale University, New Haven, Connecticut, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Yale Center for Medical Informatics, Yale University, New Haven, Connecticut, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5038171056","display_name":"Cynthia Brandt","orcid":"https://orcid.org/0000-0001-8179-1796"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]},{"id":"https://openalex.org/I4210086971","display_name":"VA Connecticut Healthcare System","ror":"https://ror.org/000rgm762","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1322918889","https://openalex.org/I2799886695","https://openalex.org/I4210086971","https://openalex.org/I4210095851"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Cynthia Brandt","raw_affiliation_strings":["Connecticut VA Healthcare System, West Haven, Connecticut, USA","Yale Center for Medical Informatics, Yale University, New Haven, Connecticut, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Connecticut VA Healthcare System, West Haven, Connecticut, USA","institution_ids":["https://openalex.org/I4210086971"]},{"raw_affiliation_string":"Yale Center for Medical Informatics, Yale University, New Haven, Connecticut, USA","institution_ids":["https://openalex.org/I32971472"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5019446513"],"corresponding_institution_ids":["https://openalex.org/I32971472"],"apc_list":{"value":3967,"currency":"USD","value_usd":3967},"apc_paid":null,"fwci":0.6718,"has_fulltext":true,"cited_by_count":39,"citation_normalized_percentile":{"value":0.69742873,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"20","issue":"5","first_page":"882","last_page":"886"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.7166000008583069,"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":0.7166000008583069,"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/T10028","display_name":"Topic Modeling","score":0.16259999573230743,"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/T10181","display_name":"Natural Language Processing Techniques","score":0.032999999821186066,"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/word-sense-disambiguation","display_name":"Word-sense disambiguation","score":0.8470834493637085},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7202250957489014},{"id":"https://openalex.org/keywords/word","display_name":"Word (group theory)","score":0.6202373504638672},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.5946546792984009},{"id":"https://openalex.org/keywords/semeval","display_name":"SemEval","score":0.5563296675682068},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4798676371574402},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.4777918756008148},{"id":"https://openalex.org/keywords/linguistics","display_name":"Linguistics","score":0.18325382471084595},{"id":"https://openalex.org/keywords/wordnet","display_name":"WordNet","score":0.14234241843223572}],"concepts":[{"id":"https://openalex.org/C51646954","wikidata":"https://www.wikidata.org/wiki/Q48522","display_name":"Word-sense disambiguation","level":3,"score":0.8470834493637085},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7202250957489014},{"id":"https://openalex.org/C90805587","wikidata":"https://www.wikidata.org/wiki/Q10944557","display_name":"Word (group theory)","level":2,"score":0.6202373504638672},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.5946546792984009},{"id":"https://openalex.org/C44572571","wikidata":"https://www.wikidata.org/wiki/Q7448970","display_name":"SemEval","level":3,"score":0.5563296675682068},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4798676371574402},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4777918756008148},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.18325382471084595},{"id":"https://openalex.org/C157659113","wikidata":"https://www.wikidata.org/wiki/Q533822","display_name":"WordNet","level":2,"score":0.14234241843223572},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"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/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008091","descriptor_name":"Literature","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008091","descriptor_name":"Literature","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008091","descriptor_name":"Literature","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","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":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017432","descriptor_name":"Unified Medical Language System","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017432","descriptor_name":"Unified Medical Language System","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017432","descriptor_name":"Unified Medical Language System","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":false},{"descriptor_ui":"D046650","descriptor_name":"Medical Subject Headings","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D046650","descriptor_name":"Medical Subject Headings","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1136/amiajnl-2012-001350","is_oa":true,"landing_page_url":"https://doi.org/10.1136/amiajnl-2012-001350","pdf_url":"https://academic.oup.com/jamia/article-pdf/20/5/882/17375039/20-5-882.pdf","source":{"id":"https://openalex.org/S129839026","display_name":"Journal of the American Medical Informatics Association","issn_l":"1067-5027","issn":["1067-5027","1527-974X"],"is_oa":false,"is_in_doaj":false,"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":"Journal of the American Medical Informatics Association","raw_type":"journal-article"},{"id":"pmid:23077130","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23077130","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":"Journal of the American Medical Informatics Association : JAMIA","raw_type":null},{"id":"pmh:oai:europepmc.org:3116249","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3756260","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1136/amiajnl-2012-001350","is_oa":true,"landing_page_url":"https://doi.org/10.1136/amiajnl-2012-001350","pdf_url":"https://academic.oup.com/jamia/article-pdf/20/5/882/17375039/20-5-882.pdf","source":{"id":"https://openalex.org/S129839026","display_name":"Journal of the American Medical Informatics Association","issn_l":"1067-5027","issn":["1067-5027","1527-974X"],"is_oa":false,"is_in_doaj":false,"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":"Journal of the American Medical Informatics Association","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education","score":0.7900000214576721}],"awards":[{"id":"https://openalex.org/G2375872492","display_name":null,"funder_award_id":"T15 LM07056","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3191182498","display_name":null,"funder_award_id":"UL1 RR024139","funder_id":"https://openalex.org/F4320337472","funder_display_name":"National Center for Advancing Translational Sciences"},{"id":"https://openalex.org/G7281427601","display_name":null,"funder_award_id":"RR024139","funder_id":"https://openalex.org/F4320337472","funder_display_name":"National Center for Advancing Translational Sciences"},{"id":"https://openalex.org/G7420383591","display_name":null,"funder_award_id":"UL1 RR024139","funder_id":"https://openalex.org/F4320316438","funder_display_name":"Georgia Clinical and Translational Science Alliance"},{"id":"https://openalex.org/G7858554110","display_name":null,"funder_award_id":"UL1 RR024139","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8967675890","display_name":null,"funder_award_id":"HIR 08-374","funder_id":"https://openalex.org/F4320337472","funder_display_name":"National Center for Advancing Translational Sciences"}],"funders":[{"id":"https://openalex.org/F4320316438","display_name":"Georgia Clinical and Translational Science Alliance","ror":null},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"},{"id":"https://openalex.org/F4320337472","display_name":"National Center for Advancing Translational Sciences","ror":"https://ror.org/04pw6fb54"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2285122704.pdf","grobid_xml":"https://content.openalex.org/works/W2285122704.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W187228978","https://openalex.org/W1532254950","https://openalex.org/W1569660094","https://openalex.org/W1637593105","https://openalex.org/W1647729745","https://openalex.org/W1668989518","https://openalex.org/W1756650108","https://openalex.org/W1870686808","https://openalex.org/W1971220772","https://openalex.org/W1993068388","https://openalex.org/W2002514548","https://openalex.org/W2025428542","https://openalex.org/W2028102159","https://openalex.org/W2051743300","https://openalex.org/W2052999080","https://openalex.org/W2053449218","https://openalex.org/W2072640685","https://openalex.org/W2084377579","https://openalex.org/W2100935296","https://openalex.org/W2101171038","https://openalex.org/W2104381725","https://openalex.org/W2122402213","https://openalex.org/W2123635471","https://openalex.org/W2130160813","https://openalex.org/W2135136011","https://openalex.org/W2136480620","https://openalex.org/W2138887837","https://openalex.org/W2146089916","https://openalex.org/W2154439800","https://openalex.org/W2170682101","https://openalex.org/W2534712034","https://openalex.org/W2950225692","https://openalex.org/W4248219478"],"related_works":["https://openalex.org/W2101293500","https://openalex.org/W2384058382","https://openalex.org/W2000205775","https://openalex.org/W2124313972","https://openalex.org/W2251529656","https://openalex.org/W2324822715","https://openalex.org/W2330879361","https://openalex.org/W2140343536","https://openalex.org/W2783863087","https://openalex.org/W2188275805"],"abstract_inverted_index":{"BACKGROUND:":[0],"Word":[1],"sense":[2],"disambiguation":[3,119],"(WSD)":[4],"methods":[5],"automatically":[6],"assign":[7],"an":[8,12],"unambiguous":[9],"concept":[10],"to":[11,21,55,76,164],"ambiguous":[13],"term":[14],"based":[15],"on":[16,64,80,100,121],"context,":[17],"and":[18,30,49,68,126,145,150,168],"are":[19,177],"important":[20],"many":[22],"text-processing":[23],"tasks.":[24],"In":[25],"this":[26,175],"study":[27,176],"we":[28],"developed":[29,112,171],"evaluated":[31,50,61],"a":[32,113],"knowledge-based":[33,94],"WSD":[34,54,66,74,114,124,130,141],"method":[35],"that":[36,116,128],"uses":[37],"semantic":[38],"similarity":[39],"measures":[40],"derived":[41],"from":[42],"the":[43,51,70,81,146],"Unified":[44],"Medical":[45],"Language":[46],"System":[47],"(UMLS)":[48],"contribution":[52,71],"of":[53,72,174],"clinical":[56,77,133,147],"text":[57],"classification.":[58,135],"METHODS:":[59],"We":[60,111,138],"our":[62,73,129,140,166],"system":[63,75,89,115,131,142],"biomedical":[65,123,156],"datasets":[67,125],"determined":[69],"document":[78,134],"classification":[79],"2007":[82],"Computational":[83],"Medicine":[84],"Challenge":[85],"corpus.":[86],"RESULTS:":[87],"Our":[88],"compared":[90],"favorably":[91],"with":[92,143],"other":[93],"methods.":[95],"Machine":[96],"learning":[97],"classifiers":[98],"trained":[99,106],"disambiguated":[101],"concepts":[102],"significantly":[103],"outperformed":[104],"those":[105],"using":[107],"all":[108,169],"concepts.":[109],"CONCLUSIONS:":[110],"achieves":[117],"high":[118],"accuracy":[120],"standard":[122],"showed":[127],"improves":[132],"DATA":[136],"SHARING:":[137],"integrated":[139],"MetaMap":[144],"Text":[148],"Analysis":[149],"Knowledge":[151],"Extraction":[152],"System,":[153],"two":[154],"popular":[155],"natural":[157],"language":[158],"processing":[159],"systems.":[160],"All":[161],"codes":[162],"required":[163],"reproduce":[165],"results":[167],"tools":[170],"as":[172,179],"part":[173],"released":[178],"open":[180],"source,":[181],"available":[182],"under":[183],"http://code.google.com/p/ytex.":[184]},"counts_by_year":[{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":7},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":8},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":2}],"updated_date":"2026-06-04T09:04:59.091469","created_date":"2025-10-10T00:00:00"}
