{"id":"https://openalex.org/W2947536453","doi":"https://doi.org/10.1186/s12859-019-2810-9","title":"Multi-domain semantic similarity in biomedical research","display_name":"Multi-domain semantic similarity in biomedical research","publication_year":2019,"publication_date":"2019-05-01","ids":{"openalex":"https://openalex.org/W2947536453","doi":"https://doi.org/10.1186/s12859-019-2810-9","mag":"2947536453","pmid":"https://pubmed.ncbi.nlm.nih.gov/31138117"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-019-2810-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2810-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-2810-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"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":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-2810-9","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5114374455","display_name":"Jo\u00e3o D. Ferreira","orcid":"https://orcid.org/0000-0002-6900-3168"},"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":"Jo\u00e3o D. Ferreira","raw_affiliation_strings":["LASIGE, Faculdade de Ci\u00eancias, Universidade de Lisboa, Lisboa, Portugal. jdferreira@fc.ul.pt","LASIGE, Faculdade de Ci\u00eancias, Universidade de Lisboa, Lisboa, Portugal"],"affiliations":[{"raw_affiliation_string":"LASIGE, Faculdade de Ci\u00eancias, Universidade de Lisboa, Lisboa, Portugal. jdferreira@fc.ul.pt","institution_ids":[]},{"raw_affiliation_string":"LASIGE, Faculdade de Ci\u00eancias, Universidade de Lisboa, Lisboa, Portugal","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, Faculdade de Ci\u00eancias, Universidade de Lisboa, Lisboa, Portugal"],"affiliations":[{"raw_affiliation_string":"LASIGE, Faculdade de Ci\u00eancias, Universidade de Lisboa, Lisboa, Portugal","institution_ids":["https://openalex.org/I141596103"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5114374455"],"corresponding_institution_ids":["https://openalex.org/I141596103"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.1718,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.52198359,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":95},"biblio":{"volume":"20","issue":"S10","first_page":"246","last_page":"246"},"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":0.9955000281333923,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9948999881744385,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.7548353672027588},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7540382146835327},{"id":"https://openalex.org/keywords/semantic-similarity","display_name":"Semantic similarity","score":0.7082359790802002},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.6608235836029053},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.5791705250740051},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.5204375386238098},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.4878830909729004},{"id":"https://openalex.org/keywords/lift","display_name":"Lift (data mining)","score":0.4532431960105896},{"id":"https://openalex.org/keywords/open-biomedical-ontologies","display_name":"Open Biomedical Ontologies","score":0.4456753730773926},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.4288710057735443},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4280547797679901},{"id":"https://openalex.org/keywords/ontology-alignment","display_name":"Ontology alignment","score":0.41200608015060425},{"id":"https://openalex.org/keywords/upper-ontology","display_name":"Upper ontology","score":0.38073018193244934},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.30924472212791443},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.23048698902130127},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.12806332111358643}],"concepts":[{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.7548353672027588},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7540382146835327},{"id":"https://openalex.org/C130318100","wikidata":"https://www.wikidata.org/wiki/Q2268914","display_name":"Semantic similarity","level":2,"score":0.7082359790802002},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.6608235836029053},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5791705250740051},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.5204375386238098},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.4878830909729004},{"id":"https://openalex.org/C139002025","wikidata":"https://www.wikidata.org/wiki/Q3001212","display_name":"Lift (data mining)","level":2,"score":0.4532431960105896},{"id":"https://openalex.org/C137982476","wikidata":"https://www.wikidata.org/wiki/Q7072326","display_name":"Open Biomedical Ontologies","level":5,"score":0.4456753730773926},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.4288710057735443},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4280547797679901},{"id":"https://openalex.org/C98893333","wikidata":"https://www.wikidata.org/wiki/Q4339878","display_name":"Ontology alignment","level":4,"score":0.41200608015060425},{"id":"https://openalex.org/C78726541","wikidata":"https://www.wikidata.org/wiki/Q3882785","display_name":"Upper ontology","level":3,"score":0.38073018193244934},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.30924472212791443},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.23048698902130127},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.12806332111358643},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","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/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0}],"mesh":[{"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":"D012660","descriptor_name":"Semantics","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":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058872","descriptor_name":"Epidemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058872","descriptor_name":"Epidemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058872","descriptor_name":"Epidemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-019-2810-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2810-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-2810-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"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":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31138117","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31138117","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:e4f5331a245040679b79e2d345959aab","is_oa":true,"landing_page_url":"https://doaj.org/article/e4f5331a245040679b79e2d345959aab","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 20, Iss S10, Pp 23-31 (2019)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5523896","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6538554","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-019-2810-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2810-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-2810-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"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":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","score":0.7200000286102295,"display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G4384961418","display_name":null,"funder_award_id":"PTDC/CCI-BIO/28685/2017","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G5454278309","display_name":null,"funder_award_id":"/2017","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G6128949145","display_name":null,"funder_award_id":"UID/CEC/00408/2013","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G6299983296","display_name":null,"funder_award_id":"PTDC/","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"}],"funders":[{"id":"https://openalex.org/F4320334779","display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","ror":"https://ror.org/00snfqn58"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2947536453.pdf","grobid_xml":"https://content.openalex.org/works/W2947536453.grobid-xml"},"referenced_works_count":43,"referenced_works":["https://openalex.org/W57993918","https://openalex.org/W1519875250","https://openalex.org/W1598875832","https://openalex.org/W1647729745","https://openalex.org/W1958717431","https://openalex.org/W1964808688","https://openalex.org/W1979573244","https://openalex.org/W1980948656","https://openalex.org/W2012361142","https://openalex.org/W2028133290","https://openalex.org/W2052684427","https://openalex.org/W2083475779","https://openalex.org/W2084168100","https://openalex.org/W2084377579","https://openalex.org/W2097624459","https://openalex.org/W2113142309","https://openalex.org/W2120255849","https://openalex.org/W2124834853","https://openalex.org/W2127536416","https://openalex.org/W2127563440","https://openalex.org/W2134126205","https://openalex.org/W2136853888","https://openalex.org/W2140735141","https://openalex.org/W2144949988","https://openalex.org/W2154923366","https://openalex.org/W2159917467","https://openalex.org/W2161919540","https://openalex.org/W2274476059","https://openalex.org/W2293690484","https://openalex.org/W2303098424","https://openalex.org/W2338910273","https://openalex.org/W2405721538","https://openalex.org/W2488352285","https://openalex.org/W2492836473","https://openalex.org/W2512938483","https://openalex.org/W2547331894","https://openalex.org/W2596568673","https://openalex.org/W2749464300","https://openalex.org/W2782565892","https://openalex.org/W2899766488","https://openalex.org/W2901463740","https://openalex.org/W2950225692","https://openalex.org/W6713935422"],"related_works":["https://openalex.org/W2102229151","https://openalex.org/W2608149786","https://openalex.org/W2732632690","https://openalex.org/W4206428734","https://openalex.org/W149627178","https://openalex.org/W152870918","https://openalex.org/W2138664789","https://openalex.org/W22148886","https://openalex.org/W2365397974","https://openalex.org/W2396086199"],"abstract_inverted_index":{"We":[0],"evaluated":[1],"the":[2,12,15,24,36,40,44,48,64],"two":[3],"approaches":[4],"in":[5,33,43],"a":[6,30,67],"multidisciplinary":[7],"epidemiology":[8],"dataset":[9],"by":[10,63],"evaluating":[11],"capacity":[13],"of":[14,35,47],"similarity":[16,76],"measures":[17,38,55],"to":[18,70],"predict":[19],"new":[20],"annotations":[21],"based":[22],"on":[23],"existing":[25],"ones.":[26],"The":[27],"results":[28,51],"show":[29,52],"promising":[31],"increase":[32],"performance":[34],"multi-domain":[37,54,74],"over":[39],"single-ontology":[41],"ones":[42],"vast":[45],"majority":[46],"cases.":[49],"These":[50],"that":[53],"outperform":[56],"single-domain":[57],"ones,":[58],"and":[59],"should":[60],"be":[61],"considered":[62],"community":[65],"as":[66],"starting":[68],"point":[69],"study":[71],"more":[72],"efficient":[73],"semantic":[75],"measures.":[77]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
