{"id":"https://openalex.org/W2006378146","doi":"https://doi.org/10.1145/2512089.2512095","title":"Refining health outcomes of interest using formal concept analysis and semantic query expansion","display_name":"Refining health outcomes of interest using formal concept analysis and semantic query expansion","publication_year":2013,"publication_date":"2013-10-29","ids":{"openalex":"https://openalex.org/W2006378146","doi":"https://doi.org/10.1145/2512089.2512095","mag":"2006378146"},"language":"en","primary_location":{"id":"doi:10.1145/2512089.2512095","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2512089.2512095","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 7th international workshop on Data and text mining in biomedical informatics","raw_type":"proceedings-article"},"type":"preprint","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/A5112101676","display_name":"Olivier Cur\u00e9","orcid":null},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Olivier Cur\u00e9","raw_affiliation_strings":["University Paris-Est, Marne la Vall\u00e9e, France"],"affiliations":[{"raw_affiliation_string":"University Paris-Est, Marne la Vall\u00e9e, France","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010762696","display_name":"Henri Maurer","orcid":null},"institutions":[{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Henri Maurer","raw_affiliation_strings":["University of Edinburgh, Endinburg, Scotland, UK","University of Edinburgh, Endinburg, Scotland, UK#TAB#"],"affiliations":[{"raw_affiliation_string":"University of Edinburgh, Endinburg, Scotland, UK","institution_ids":["https://openalex.org/I98677209"]},{"raw_affiliation_string":"University of Edinburgh, Endinburg, Scotland, UK#TAB#","institution_ids":["https://openalex.org/I98677209"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041175834","display_name":"Nigam H. Shah","orcid":"https://orcid.org/0000-0001-9385-7158"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nigam Shah","raw_affiliation_strings":["Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059906626","display_name":"Paea LePendu","orcid":"https://orcid.org/0000-0001-7358-931X"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Paea LePendu","raw_affiliation_strings":["Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5112101676"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.14178895,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.57741323,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"5","last_page":"6"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9994999766349792,"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":0.9994999766349792,"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":0.9592999815940857,"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/T11943","display_name":"Pharmacovigilance and Adverse Drug Reactions","score":0.9559999704360962,"subfield":{"id":"https://openalex.org/subfields/3005","display_name":"Toxicology"},"field":{"id":"https://openalex.org/fields/30","display_name":"Pharmacology, Toxicology and Pharmaceutics"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8269954919815063},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.678282618522644},{"id":"https://openalex.org/keywords/query-expansion","display_name":"Query expansion","score":0.5463025569915771},{"id":"https://openalex.org/keywords/unified-medical-language-system","display_name":"Unified Medical Language System","score":0.5114096999168396},{"id":"https://openalex.org/keywords/query-language","display_name":"Query language","score":0.49592074751853943},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.43105295300483704},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.42822501063346863},{"id":"https://openalex.org/keywords/web-search-query","display_name":"Web search query","score":0.41385626792907715},{"id":"https://openalex.org/keywords/search-engine","display_name":"Search engine","score":0.17178413271903992},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.12566736340522766}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8269954919815063},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.678282618522644},{"id":"https://openalex.org/C99016210","wikidata":"https://www.wikidata.org/wiki/Q5488129","display_name":"Query expansion","level":2,"score":0.5463025569915771},{"id":"https://openalex.org/C69505689","wikidata":"https://www.wikidata.org/wiki/Q455338","display_name":"Unified Medical Language System","level":2,"score":0.5114096999168396},{"id":"https://openalex.org/C192028432","wikidata":"https://www.wikidata.org/wiki/Q845739","display_name":"Query language","level":2,"score":0.49592074751853943},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.43105295300483704},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.42822501063346863},{"id":"https://openalex.org/C164120249","wikidata":"https://www.wikidata.org/wiki/Q995982","display_name":"Web search query","level":3,"score":0.41385626792907715},{"id":"https://openalex.org/C97854310","wikidata":"https://www.wikidata.org/wiki/Q19541","display_name":"Search engine","level":2,"score":0.17178413271903992},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.12566736340522766},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2512089.2512095","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2512089.2512095","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 7th international workshop on Data and text mining in biomedical informatics","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals","score":0.5199999809265137}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":4,"referenced_works":["https://openalex.org/W1503729935","https://openalex.org/W1942271137","https://openalex.org/W2040555718","https://openalex.org/W2088263677"],"related_works":["https://openalex.org/W2572349046","https://openalex.org/W2171068308","https://openalex.org/W3197639690","https://openalex.org/W2096359267","https://openalex.org/W1981131819","https://openalex.org/W2026738364","https://openalex.org/W2113390685","https://openalex.org/W2017989738","https://openalex.org/W2124814993","https://openalex.org/W5304494"],"abstract_inverted_index":{"Clinicians":[0],"and":[1,12,64,122,142,147,169,176,199,210,233,280,367],"researchers":[2],"using":[3,41],"Electronic":[4],"Health":[5,20],"Records":[6],"(EHRs)":[7],"often":[8],"search":[9,67,215],"for,":[10],"extract,":[11],"analyze":[13,358],"groups":[14],"of":[15,22,30,56,84,155,167,188,265,308,316,319,326,332,354,361],"patients":[16],"by":[17,341],"defining":[18,136,206],"a":[19,28,48,152,156,185,196,200],"Outcome":[21],"Interest":[23],"(HOI),":[24],"which":[25,283],"may":[26],"include":[27],"set":[29,83],"diseases,":[31],"conditions,":[32],"signs,":[33],"or":[34,229],"symptoms.":[35],"In":[36,96,220,344],"our":[37,298,342],"work":[38],"on":[39,88,237,268,289],"pharmacovigilance":[40],"clinical":[42,70,247],"notes,":[43],"for":[44,101,128,245,256,278,313],"example,":[45],"we":[46,347],"use":[47,242,368],"method":[49,78,153],"that":[50,217,297],"operates":[51],"over":[52,69,184,371],"many":[53],"(potentially":[54],"hundreds)":[55],"ontologies":[57],"at":[58],"once,":[59],"expands":[60],"the":[61,66,93,105,164,193,213,238,269,306,314,330,355,359],"input":[62],"query,":[63],"increases":[65],"space":[68,216],"text":[71],"as":[72,74,100,127],"well":[73],"structured":[75],"data.":[76],"This":[77,293],"requires":[79,123],"specifying":[80],"an":[81,137,181],"initial":[82],"seed":[85,106,208],"concepts,":[86],"based":[87],"concept":[89],"unique":[90],"identifiers":[91],"from":[92,249,336],"UMLS":[94],"Metathesaurus.":[95],"some":[97],"cases,":[98],"such":[99,126],"progressive":[102],"multifocal":[103],"leukoencephalopathy,":[104],"query":[107,209,373],"is":[108,329],"easy":[109],"to":[110,162,173,310,349,375],"specify,":[111],"but":[112,251],"in":[113,135,180,205,211,227,260,363],"other":[114],"cases":[115],"this":[116,221,243,266,290,327],"task":[117],"can":[118,234],"be":[119,235],"more":[120],"subtle":[121],"manual-intensive":[124],"work,":[125,267],"chronic":[129],"obstructive":[130],"pulmonary":[131],"disease.":[132],"The":[133,322],"challenge":[134],"HOI":[138],"arises":[139],"because":[140],"medical":[141],"health":[143],"terminologies":[144],"are":[145,253,284],"numerous":[146],"complex.":[148],"We":[149,241],"have":[150],"developed":[151],"consisting":[154],"cooperation":[157],"between":[158],"Semantic":[159],"Query":[160],"Expansion,":[161],"leverage":[163],"hierarchical":[165],"structure":[166],"ontologies,":[168],"Formal":[170],"Concept":[171],"Analysis,":[172],"organize,":[174],"reason,":[175],"prune":[177],"discovered":[178,340],"concepts":[179,339],"efficient":[182],"manner":[183],"large":[186],"number":[187],"ontologies.":[189],"Together,":[190],"they":[191,252],"assist":[192],"user,":[194],"through":[195],"RESTful":[197],"API":[198],"web-based":[201],"graphical":[202],"user":[203,351],"interface,":[204,357],"their":[207],"refining":[212],"expanded":[214],"it":[218],"encompasses.":[219],"context,":[222],"end-user":[223],"interactions":[224],"mainly":[225],"consist":[226],"accepting":[228],"rejecting":[230],"system":[231],"propositions":[232],"ceased":[236],"user's":[239],"will.":[240],"approach":[244,300,328],"text-mining":[246],"notes":[248],"EHRs,":[250],"equally":[254],"applicable":[255],"cohort":[257],"building":[258],"tools":[259],"general.":[261],"A":[262],"preliminary":[263],"evaluation":[264,353],"i2b2":[270],"Obesity":[271],"NLP":[272],"reference":[273],"set,":[274],"emphasizes":[275],"positive":[276,334],"results":[277,288,335],"sensitivity":[279],"specificity":[281],"measures":[282],"slightly":[285],"improving":[286],"existing":[287],"gold":[291],"standard.":[292],"experimentation":[294],"also":[295],"highlights":[296],"semi-automatic":[299],"provides":[301],"fast":[302],"processing":[303],"times":[304],"(in":[305],"order":[307],"milliseconds":[309],"few":[311],"seconds)":[312],"generation":[315],"several":[317,364],"thousands":[318],"potential":[320],"terms.":[321],"most":[323],"promising":[324],"aspect":[325],"discovery":[331],"potentially":[333],"false":[337],"negative":[338],"method.":[343],"future":[345,377],"works,":[346],"aim":[348],"conduct":[350],"driven":[352],"Web":[356],"acceptance/rejection":[360],"physicians":[362],"practical":[365],"scenarios":[366],"active":[369],"learning":[370],"past":[372],"refinements":[374],"improve":[376],"queries.":[378]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
