{"id":"https://openalex.org/W2260396455","doi":"https://doi.org/10.1186/s13326-016-0047-3","title":"Interoperability between phenotypes in research and healthcare terminologies\u2014Investigating partial mappings between HPO and SNOMED CT","display_name":"Interoperability between phenotypes in research and healthcare terminologies\u2014Investigating partial mappings between HPO and SNOMED CT","publication_year":2016,"publication_date":"2016-02-09","ids":{"openalex":"https://openalex.org/W2260396455","doi":"https://doi.org/10.1186/s13326-016-0047-3","mag":"2260396455","pmid":"https://pubmed.ncbi.nlm.nih.gov/26865946"},"language":"en","primary_location":{"id":"doi:10.1186/s13326-016-0047-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-016-0047-3","pdf_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-016-0047-3","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomedical Semantics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-016-0047-3","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5005420349","display_name":"Ferdinand Dhombres","orcid":"https://orcid.org/0000-0003-3246-8727"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I2800548410","display_name":"United States National Library of Medicine","ror":"https://ror.org/0060t0j89","country_code":"US","type":"archive","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ferdinand Dhombres","raw_affiliation_strings":["National Library of Medicine, National Institutes of Health, Bethesda, MD USA","National Library of Medicine, National Institutes of Health, Bethesda, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Library of Medicine, National Institutes of Health, Bethesda, MD USA","institution_ids":["https://openalex.org/I2800548410"]},{"raw_affiliation_string":"National Library of Medicine, National Institutes of Health, Bethesda, MD, USA","institution_ids":["https://openalex.org/I2800548410","https://openalex.org/I1299303238"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5073807945","display_name":"Olivier Bodenreider","orcid":"https://orcid.org/0000-0003-4769-4217"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I2800548410","display_name":"United States National Library of Medicine","ror":"https://ror.org/0060t0j89","country_code":"US","type":"archive","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Olivier Bodenreider","raw_affiliation_strings":["National Library of Medicine, National Institutes of Health, Bethesda, MD USA","National Library of Medicine, National Institutes of Health, Bethesda, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Library of Medicine, National Institutes of Health, Bethesda, MD USA","institution_ids":["https://openalex.org/I2800548410"]},{"raw_affiliation_string":"National Library of Medicine, National Institutes of Health, Bethesda, MD, USA","institution_ids":["https://openalex.org/I2800548410","https://openalex.org/I1299303238"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5005420349"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I2800548410"],"apc_list":{"value":1190,"currency":"GBP","value_usd":1459},"apc_paid":{"value":1190,"currency":"GBP","value_usd":1459},"fwci":3.8297,"has_fulltext":true,"cited_by_count":44,"citation_normalized_percentile":{"value":0.93448819,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"7","issue":"1","first_page":"3","last_page":"3"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9724000096321106,"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":0.9724000096321106,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.013199999928474426,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.00559999980032444,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/snomed-ct","display_name":"SNOMED CT","score":0.9274353384971619},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.8072998523712158},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7764349579811096},{"id":"https://openalex.org/keywords/health-care","display_name":"Health care","score":0.4499998688697815},{"id":"https://openalex.org/keywords/systematized-nomenclature-of-medicine","display_name":"Systematized Nomenclature of Medicine","score":0.44071653485298157},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4205728769302368},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.4144030511379242},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3760852515697479},{"id":"https://openalex.org/keywords/terminology","display_name":"Terminology","score":0.3568738102912903},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.2513452172279358}],"concepts":[{"id":"https://openalex.org/C206497026","wikidata":"https://www.wikidata.org/wiki/Q1753883","display_name":"SNOMED CT","level":3,"score":0.9274353384971619},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.8072998523712158},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7764349579811096},{"id":"https://openalex.org/C160735492","wikidata":"https://www.wikidata.org/wiki/Q31207","display_name":"Health care","level":2,"score":0.4499998688697815},{"id":"https://openalex.org/C44681071","wikidata":"https://www.wikidata.org/wiki/Q4048820","display_name":"Systematized Nomenclature of Medicine","level":4,"score":0.44071653485298157},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4205728769302368},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4144030511379242},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3760852515697479},{"id":"https://openalex.org/C547195049","wikidata":"https://www.wikidata.org/wiki/Q1725664","display_name":"Terminology","level":2,"score":0.3568738102912903},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.2513452172279358},{"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/C50522688","wikidata":"https://www.wikidata.org/wiki/Q189833","display_name":"Economic growth","level":1,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003695","descriptor_name":"Delivery of Health Care","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003695","descriptor_name":"Delivery of Health Care","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003695","descriptor_name":"Delivery of Health Care","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009626","descriptor_name":"Terminology as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009626","descriptor_name":"Terminology as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009626","descriptor_name":"Terminology as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D039061","descriptor_name":"Systematized Nomenclature of Medicine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D039061","descriptor_name":"Systematized Nomenclature of Medicine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D039061","descriptor_name":"Systematized Nomenclature of Medicine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1186/s13326-016-0047-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-016-0047-3","pdf_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-016-0047-3","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomedical Semantics","raw_type":"journal-article"},{"id":"pmid:26865946","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26865946","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 biomedical semantics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:4748471","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4748471","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Biomed Semantics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s13326-016-0047-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-016-0047-3","pdf_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-016-0047-3","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomedical Semantics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320314924","display_name":"Philippe Foundation","ror":null},{"id":"https://openalex.org/F4320317134","display_name":"Coll\u00e8ge National des Gyn\u00e9cologues et Obst\u00e9triciens Fran\u00e7ais","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"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":28,"referenced_works":["https://openalex.org/W150479364","https://openalex.org/W188370263","https://openalex.org/W1505770165","https://openalex.org/W1597082186","https://openalex.org/W1645638879","https://openalex.org/W1997585114","https://openalex.org/W2003588865","https://openalex.org/W2025349319","https://openalex.org/W2041428546","https://openalex.org/W2057104411","https://openalex.org/W2057706627","https://openalex.org/W2090238937","https://openalex.org/W2104071946","https://openalex.org/W2106310505","https://openalex.org/W2110362051","https://openalex.org/W2134418889","https://openalex.org/W2136368487","https://openalex.org/W2139135093","https://openalex.org/W2141243519","https://openalex.org/W2153845956","https://openalex.org/W2157060173","https://openalex.org/W2159583324","https://openalex.org/W2161218311","https://openalex.org/W2164739457","https://openalex.org/W2170282111","https://openalex.org/W2611894836","https://openalex.org/W4241410814","https://openalex.org/W6675867868"],"related_works":["https://openalex.org/W2581432157","https://openalex.org/W983237315","https://openalex.org/W4295077997","https://openalex.org/W4384914659","https://openalex.org/W4386159309","https://openalex.org/W2419080317","https://openalex.org/W2026282251","https://openalex.org/W1708042184","https://openalex.org/W1511848092","https://openalex.org/W2405923535"],"abstract_inverted_index":{"BACKGROUND:":[0],"Identifying":[1],"partial":[2,52,89,109,129,142,155,177,234],"mappings":[3,53,90,110,130,143,156,167,197,235,253],"between":[4,54,198,206,242],"two":[5,211,244,265],"terminologies":[6],"is":[7,14,20,163,222],"of":[8,100,107,134,153,180,227,282,291],"special":[9],"importance":[10],"when":[11],"one":[12],"terminology":[13],"finer-grained":[15],"than":[16],"the":[17,21,24,97,105,108,154,181,231,243,259,264],"other,":[18],"as":[19],"case":[22],"for":[23,31,132,138,148,165,170,204,225,240],"Human":[25],"Phenotype":[26],"Ontology":[27],"(HPO),":[28],"mainly":[29,37],"used":[30,38],"research":[32],"purposes,":[33],"and":[34,44,47,56,68,103,136,146,168,176,193,200,219,248,280,284,287],"SNOMED":[35,57,75,92,125,189,201,285],"CT,":[36],"in":[39,65,85,217],"healthcare.":[40],"OBJECTIVES:":[41],"To":[42],"investigate":[43],"contrast":[45],"lexical":[46,166,247,279],"logical":[48,171,249],"approaches":[49],"to":[50,70,74,87,91,124,188,215,269],"deriving":[51],"HPO":[55,66,86,118,183,199,228,283],"CT.":[58,126],"METHODS:":[59],"1)":[60],"Lexical":[61],"approach-We":[62,81],"identify":[63],"modifiers":[64],"terms":[67,73],"attempt":[69],"map":[71],"demodified":[72],"CT":[76,190,202,286],"through":[77,111,293],"UMLS;":[78],"2)":[79],"Logical":[80],"leverage":[82],"subsumption":[83],"relations":[84],"infer":[88],"CT;":[93],"3)":[94],"Comparison-We":[95],"analyze":[96],"specific":[98],"contribution":[99],"each":[101,270],"approach":[102,239],"evaluate":[104],"quality":[106],"manual":[112],"review.":[113],"RESULTS:":[114],"There":[115],"are":[116,267],"7358":[117],"concepts":[119,184],"with":[120],"no":[121],"complete":[122,175,192],"mapping":[123,250,292],"We":[127,140],"identified":[128,141],"lexically":[131,145],"33%":[133],"them":[135],"logically":[137,147],"82%.":[139],"both":[144],"27%.":[149],"The":[150],"clinical":[151],"relevance":[152],"(for":[157],"a":[158,237],"cohort":[159],"selection":[160],"use":[161],"case)":[162],"49%":[164],"67%":[169],"mappings.":[172],"CONCLUSIONS:":[173],"Through":[174],"mappings,":[178],"92%":[179],"10,454":[182],"can":[185],"be":[186,256],"mapped":[187],"(30%":[191],"62%":[194],"partial).":[195],"Equivalence":[196],"allow":[203],"interoperability":[205],"data":[207],"described":[208],"using":[209],"these":[210],"systems.":[212,245],"However,":[213],"due":[214],"differences":[216],"focus":[218],"granularity,":[220],"equivalence":[221],"only":[223],"possible":[224],"30%":[226],"classes.":[229],"In":[230],"remaining":[232],"cases,":[233],"provide":[236],"next-best":[238],"traversing":[241],"Both":[246],"techniques":[251,266],"produce":[252],"that":[254,263],"cannot":[255],"generated":[257],"by":[258],"other":[260],"technique,":[261],"suggesting":[262],"complementary":[268],"other.":[271],"Finally,":[272],"this":[273],"work":[274],"demonstrates":[275],"interesting":[276],"properties":[277],"(both":[278],"logical)":[281],"illustrates":[288],"some":[289],"limitations":[290],"UMLS.":[294]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":6},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":5}],"updated_date":"2026-05-19T21:40:30.786675","created_date":"2025-10-10T00:00:00"}
