{"id":"https://openalex.org/W7128739731","doi":"https://doi.org/10.1145/3796222","title":"Systematic Review of Named Entity Linking and Knowledge Organisation Systems in Biomedical and Clinical Domains","display_name":"Systematic Review of Named Entity Linking and Knowledge Organisation Systems in Biomedical and Clinical Domains","publication_year":2026,"publication_date":"2026-02-12","ids":{"openalex":"https://openalex.org/W7128739731","doi":"https://doi.org/10.1145/3796222"},"language":"en","primary_location":{"id":"doi:10.1145/3796222","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3796222","pdf_url":null,"source":{"id":"https://openalex.org/S157921468","display_name":"ACM Computing Surveys","issn_l":"0360-0300","issn":["0360-0300","1557-7341"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319798","host_organization_name":"Association for Computing Machinery","host_organization_lineage":["https://openalex.org/P4310319798"],"host_organization_lineage_names":["Association for Computing Machinery"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"ACM Computing Surveys","raw_type":"journal-article"},"type":"article","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/A5081030878","display_name":"Pedro Ruas","orcid":"https://orcid.org/0000-0002-1293-4199"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":true,"raw_author_name":"Pedro Ruas","raw_affiliation_strings":["LASIGE Laboratorio de Sistemas Informaticos de Grande Escala, Universidade de Lisboa Faculdade de Ci\u00eancias"],"raw_orcid":"https://orcid.org/0000-0002-1293-4199","affiliations":[{"raw_affiliation_string":"LASIGE Laboratorio de Sistemas Informaticos de Grande Escala, Universidade de Lisboa Faculdade de Ci\u00eancias","institution_ids":["https://openalex.org/I141596103"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083425095","display_name":"Sofia I. R. Concei\u00e7\u00e3o","orcid":"https://orcid.org/0000-0002-8891-3546"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Sofia Concei\u00e7\u00e3o","raw_affiliation_strings":["LASIGE Laboratorio de Sistemas Informaticos de Grande Escala, Universidade de Lisboa Faculdade de Ci\u00eancias"],"raw_orcid":"https://orcid.org/0000-0002-8891-3546","affiliations":[{"raw_affiliation_string":"LASIGE Laboratorio de Sistemas Informaticos de Grande Escala, Universidade de Lisboa Faculdade de Ci\u00eancias","institution_ids":["https://openalex.org/I141596103"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5014333753","display_name":"Francisco M. Couto","orcid":"https://orcid.org/0000-0003-0627-1496"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Francisco M. Couto","raw_affiliation_strings":["LASIGE Laboratorio de Sistemas Informaticos de Grande Escala, Universidade de Lisboa Faculdade de Ci\u00eancias"],"raw_orcid":"https://orcid.org/0000-0003-0627-1496","affiliations":[{"raw_affiliation_string":"LASIGE Laboratorio de Sistemas Informaticos de Grande Escala, Universidade de Lisboa Faculdade de Ci\u00eancias","institution_ids":["https://openalex.org/I141596103"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5081030878"],"corresponding_institution_ids":["https://openalex.org/I141596103"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.22191893,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"58","issue":"10","first_page":"1","last_page":"36"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.8873999714851379,"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":0.8873999714851379,"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":0.04749999940395355,"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/T10286","display_name":"Information Retrieval and Search Behavior","score":0.012299999594688416,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"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/bridging","display_name":"Bridging (networking)","score":0.8080999851226807},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.4966000020503998},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.44940000772476196},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.421999990940094},{"id":"https://openalex.org/keywords/domain-knowledge","display_name":"Domain knowledge","score":0.4196000099182129},{"id":"https://openalex.org/keywords/face","display_name":"Face (sociological concept)","score":0.4000999927520752},{"id":"https://openalex.org/keywords/knowledge-sharing","display_name":"Knowledge sharing","score":0.37860000133514404},{"id":"https://openalex.org/keywords/named-entity-recognition","display_name":"Named-entity recognition","score":0.3499000072479248}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8162999749183655},{"id":"https://openalex.org/C174348530","wikidata":"https://www.wikidata.org/wiki/Q188635","display_name":"Bridging (networking)","level":2,"score":0.8080999851226807},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.4966000020503998},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4781000018119812},{"id":"https://openalex.org/C56739046","wikidata":"https://www.wikidata.org/wiki/Q192060","display_name":"Knowledge management","level":1,"score":0.4616999924182892},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.44940000772476196},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.421999990940094},{"id":"https://openalex.org/C207685749","wikidata":"https://www.wikidata.org/wiki/Q2088941","display_name":"Domain knowledge","level":2,"score":0.4196000099182129},{"id":"https://openalex.org/C2779304628","wikidata":"https://www.wikidata.org/wiki/Q3503480","display_name":"Face (sociological concept)","level":2,"score":0.4000999927520752},{"id":"https://openalex.org/C2776604539","wikidata":"https://www.wikidata.org/wiki/Q6423395","display_name":"Knowledge sharing","level":2,"score":0.37860000133514404},{"id":"https://openalex.org/C2779135771","wikidata":"https://www.wikidata.org/wiki/Q403574","display_name":"Named-entity recognition","level":3,"score":0.3499000072479248},{"id":"https://openalex.org/C96711827","wikidata":"https://www.wikidata.org/wiki/Q17012245","display_name":"Entity linking","level":3,"score":0.3481000065803528},{"id":"https://openalex.org/C180198813","wikidata":"https://www.wikidata.org/wiki/Q121182","display_name":"Information system","level":2,"score":0.33379998803138733},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.31949999928474426},{"id":"https://openalex.org/C115925183","wikidata":"https://www.wikidata.org/wiki/Q1412694","display_name":"Knowledge-based systems","level":2,"score":0.3179999887943268},{"id":"https://openalex.org/C4554734","wikidata":"https://www.wikidata.org/wiki/Q593744","display_name":"Knowledge base","level":2,"score":0.3156999945640564},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.3149999976158142},{"id":"https://openalex.org/C120567893","wikidata":"https://www.wikidata.org/wiki/Q1582085","display_name":"Knowledge extraction","level":2,"score":0.29429998993873596},{"id":"https://openalex.org/C186528591","wikidata":"https://www.wikidata.org/wiki/Q619544","display_name":"Body of knowledge","level":2,"score":0.275299996137619},{"id":"https://openalex.org/C58642233","wikidata":"https://www.wikidata.org/wiki/Q8269924","display_name":"Taxonomy (biology)","level":2,"score":0.26820001006126404},{"id":"https://openalex.org/C2776854237","wikidata":"https://www.wikidata.org/wiki/Q6031064","display_name":"Information sharing","level":2,"score":0.26109999418258667},{"id":"https://openalex.org/C136197465","wikidata":"https://www.wikidata.org/wiki/Q1729295","display_name":"Variety (cybernetics)","level":2,"score":0.25769999623298645},{"id":"https://openalex.org/C2779810430","wikidata":"https://www.wikidata.org/wiki/Q1929761","display_name":"Knowledge organization","level":2,"score":0.2531999945640564}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3796222","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3796222","pdf_url":null,"source":{"id":"https://openalex.org/S157921468","display_name":"ACM Computing Surveys","issn_l":"0360-0300","issn":["0360-0300","1557-7341"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319798","host_organization_name":"Association for Computing Machinery","host_organization_lineage":["https://openalex.org/P4310319798"],"host_organization_lineage_names":["Association for Computing Machinery"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"ACM Computing Surveys","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education","score":0.8134757876396179}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":89,"referenced_works":["https://openalex.org/W37511596","https://openalex.org/W1895979660","https://openalex.org/W1935434993","https://openalex.org/W1964189668","https://openalex.org/W1992593537","https://openalex.org/W2010200186","https://openalex.org/W2022427321","https://openalex.org/W2037625543","https://openalex.org/W2037835736","https://openalex.org/W2088027966","https://openalex.org/W2102983252","https://openalex.org/W2103260426","https://openalex.org/W2107556918","https://openalex.org/W2118420309","https://openalex.org/W2127603354","https://openalex.org/W2137079713","https://openalex.org/W2156235098","https://openalex.org/W2167312525","https://openalex.org/W2169099542","https://openalex.org/W2259159222","https://openalex.org/W2346452181","https://openalex.org/W2414378847","https://openalex.org/W2515403501","https://openalex.org/W2522273064","https://openalex.org/W2533179929","https://openalex.org/W2547366414","https://openalex.org/W2554556669","https://openalex.org/W2604019706","https://openalex.org/W2616885684","https://openalex.org/W2767411310","https://openalex.org/W2768673657","https://openalex.org/W2782437235","https://openalex.org/W2784029947","https://openalex.org/W2808598571","https://openalex.org/W2810708883","https://openalex.org/W2910993323","https://openalex.org/W2911489562","https://openalex.org/W2941623535","https://openalex.org/W2948909602","https://openalex.org/W2964221236","https://openalex.org/W2970771982","https://openalex.org/W2982544799","https://openalex.org/W2986423875","https://openalex.org/W3000344024","https://openalex.org/W3006227201","https://openalex.org/W3010336026","https://openalex.org/W3012427063","https://openalex.org/W3013678667","https://openalex.org/W3015916048","https://openalex.org/W3045942044","https://openalex.org/W3046375318","https://openalex.org/W3048179169","https://openalex.org/W3083292545","https://openalex.org/W3084577608","https://openalex.org/W3092486910","https://openalex.org/W3096403953","https://openalex.org/W3102668995","https://openalex.org/W3104015140","https://openalex.org/W3112302290","https://openalex.org/W3119145505","https://openalex.org/W3131882755","https://openalex.org/W3158665049","https://openalex.org/W3164540570","https://openalex.org/W3170771812","https://openalex.org/W3170822064","https://openalex.org/W3196318080","https://openalex.org/W3204085121","https://openalex.org/W3211454967","https://openalex.org/W4220967417","https://openalex.org/W4221142212","https://openalex.org/W4223546521","https://openalex.org/W4284959212","https://openalex.org/W4285589017","https://openalex.org/W4285744810","https://openalex.org/W4287889463","https://openalex.org/W4297458751","https://openalex.org/W4309674289","https://openalex.org/W4311903220","https://openalex.org/W4321378748","https://openalex.org/W4377091689","https://openalex.org/W4379197269","https://openalex.org/W4380185333","https://openalex.org/W4382196221","https://openalex.org/W4390317696","https://openalex.org/W4391136507","https://openalex.org/W4392866086","https://openalex.org/W4399280731","https://openalex.org/W4401103265","https://openalex.org/W4403059180"],"related_works":[],"abstract_inverted_index":{"Knowledge":[0,41],"and":[1,13,25,53,57,73,88,113,134,137,156],"information":[2,51],"in":[3,10,15,67,82,93,131],"the":[4,69,125,132,139,145],"biomedical":[5,133],"domain":[6],"are":[7],"predominantly":[8],"represented":[9],"text":[11,72],"format":[12],"available":[14],"diverse":[16],"sources,":[17],"such":[18,84],"as":[19,45,85],"articles,":[20],"patents,":[21],"electronic":[22],"health":[23],"records,":[24],"social":[26],"media.":[27],"Automated":[28],"approaches":[29,155],"for":[30,49,160],"organising":[31],"these":[32],"resources":[33],"face":[34],"significant":[35],"challenges":[36],"when":[37],"understanding":[38],"natural":[39],"language.":[40],"organisation":[42,75,96,129],"systems":[43,97,130],"serve":[44],"a":[46,64],"crucial":[47,65],"standard":[48],"enhancing":[50],"retrieval":[52],"sharing":[54],"among":[55],"humans":[56],"automated":[58],"approaches.":[59],"Named":[60],"entity":[61,118],"linking":[62],"plays":[63],"role":[66],"bridging":[68],"gap":[70],"between":[71,111],"knowledge":[74,95,128],"systems:":[76],"it":[77],"maps":[78],"relevant":[79],"entities":[80],"described":[81],"text,":[83],"diseases,":[86],"chemicals,":[87],"genes,":[89],"to":[90,116],"unambiguous":[91],"entries":[92],"target":[94],"that":[98],"accurately":[99],"describe":[100],"their":[101],"meaning.":[102],"In":[103],"this":[104,142],"review,":[105],"we":[106],"analysed":[107],"102":[108],"articles":[109],"published":[110],"2013":[112],"2024":[114],"related":[115],"named":[117],"linking,":[119],"which":[120],"provides":[121],"an":[122],"overview":[123],"of":[124,127,138,141,153],"landscape":[126],"clinical":[135],"domains":[136],"evolution":[140],"task":[143],"over":[144],"past":[146],"decade.":[147],"The":[148],"findings":[149],"highlight":[150],"key":[151],"limitations":[152],"existing":[154],"identify":[157],"promising":[158],"directions":[159],"future":[161],"research.":[162]},"counts_by_year":[],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2026-02-13T00:00:00"}
