{"id":"https://openalex.org/W2126608188","doi":"https://doi.org/10.1109/iri.2008.4583056","title":"Modular ontology techniques and their applications in the biomedical domain","display_name":"Modular ontology techniques and their applications in the biomedical domain","publication_year":2008,"publication_date":"2008-01-01","ids":{"openalex":"https://openalex.org/W2126608188","doi":"https://doi.org/10.1109/iri.2008.4583056","mag":"2126608188","pmid":"https://pubmed.ncbi.nlm.nih.gov/21625409"},"language":"en","primary_location":{"id":"doi:10.1109/iri.2008.4583056","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iri.2008.4583056","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 IEEE International Conference on Information Reuse and Integration","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3101570","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5051691741","display_name":"Jyotishman Pathak","orcid":"https://orcid.org/0000-0002-4856-410X"},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"funder","lineage":["https://openalex.org/I1330342723"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jyotishman Pathak","raw_affiliation_strings":["Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN, USA","Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN 55905, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN, USA","institution_ids":["https://openalex.org/I1330342723"]},{"raw_affiliation_string":"Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN 55905, USA","institution_ids":["https://openalex.org/I1330342723"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001552829","display_name":"Thomas M. Johnson","orcid":"https://orcid.org/0000-0001-8325-0803"},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"funder","lineage":["https://openalex.org/I1330342723"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Thomas M. Johnson","raw_affiliation_strings":["Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN, USA","Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN 55905, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN, USA","institution_ids":["https://openalex.org/I1330342723"]},{"raw_affiliation_string":"Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN 55905, USA","institution_ids":["https://openalex.org/I1330342723"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5060390916","display_name":"Christopher G. Chute","orcid":"https://orcid.org/0000-0001-5437-2545"},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"funder","lineage":["https://openalex.org/I1330342723"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christopher G. Chute","raw_affiliation_strings":["Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN, USA","Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN 55905, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN, USA","institution_ids":["https://openalex.org/I1330342723"]},{"raw_affiliation_string":"Division of Biomedical Informatics, Mayo Clinic College of Medicine, Rochester, MN 55905, USA","institution_ids":["https://openalex.org/I1330342723"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5051691741"],"corresponding_institution_ids":["https://openalex.org/I1330342723"],"apc_list":null,"apc_paid":null,"fwci":1.7598,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.88162733,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"3298","issue":null,"first_page":"351","last_page":"356"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10215","display_name":"Semantic Web and Ontologies","score":0.9993000030517578,"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"}},"topics":[{"id":"https://openalex.org/T10215","display_name":"Semantic Web and Ontologies","score":0.9993000030517578,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9990000128746033,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9908999800682068,"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":0.8092485666275024},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7868160009384155},{"id":"https://openalex.org/keywords/rotation-formalisms-in-three-dimensions","display_name":"Rotation formalisms in three dimensions","score":0.7553952932357788},{"id":"https://openalex.org/keywords/upper-ontology","display_name":"Upper ontology","score":0.6946454048156738},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.6945571899414062},{"id":"https://openalex.org/keywords/ontology-based-data-integration","display_name":"Ontology-based data integration","score":0.67107093334198},{"id":"https://openalex.org/keywords/process-ontology","display_name":"Process ontology","score":0.6647704839706421},{"id":"https://openalex.org/keywords/open-biomedical-ontologies","display_name":"Open Biomedical Ontologies","score":0.5997958183288574},{"id":"https://openalex.org/keywords/modular-design","display_name":"Modular design","score":0.5964455604553223},{"id":"https://openalex.org/keywords/ontology-components","display_name":"Ontology components","score":0.5201185941696167},{"id":"https://openalex.org/keywords/formal-ontology","display_name":"Formal ontology","score":0.5167745351791382},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.4716326892375946},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.4660530984401703},{"id":"https://openalex.org/keywords/ontology-alignment","display_name":"Ontology alignment","score":0.4624581038951874},{"id":"https://openalex.org/keywords/suggested-upper-merged-ontology","display_name":"Suggested Upper Merged Ontology","score":0.4342518448829651},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4278546869754791},{"id":"https://openalex.org/keywords/domain-knowledge","display_name":"Domain knowledge","score":0.3055807650089264},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.20910826325416565},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.13687506318092346}],"concepts":[{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.8092485666275024},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7868160009384155},{"id":"https://openalex.org/C171018156","wikidata":"https://www.wikidata.org/wiki/Q7370306","display_name":"Rotation formalisms in three dimensions","level":2,"score":0.7553952932357788},{"id":"https://openalex.org/C78726541","wikidata":"https://www.wikidata.org/wiki/Q3882785","display_name":"Upper ontology","level":3,"score":0.6946454048156738},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.6945571899414062},{"id":"https://openalex.org/C22550185","wikidata":"https://www.wikidata.org/wiki/Q7095047","display_name":"Ontology-based data integration","level":3,"score":0.67107093334198},{"id":"https://openalex.org/C137003198","wikidata":"https://www.wikidata.org/wiki/Q7247296","display_name":"Process ontology","level":3,"score":0.6647704839706421},{"id":"https://openalex.org/C137982476","wikidata":"https://www.wikidata.org/wiki/Q7072326","display_name":"Open Biomedical Ontologies","level":5,"score":0.5997958183288574},{"id":"https://openalex.org/C101468663","wikidata":"https://www.wikidata.org/wiki/Q1620158","display_name":"Modular design","level":2,"score":0.5964455604553223},{"id":"https://openalex.org/C154210476","wikidata":"https://www.wikidata.org/wiki/Q7095057","display_name":"Ontology components","level":5,"score":0.5201185941696167},{"id":"https://openalex.org/C2778177438","wikidata":"https://www.wikidata.org/wiki/Q1437388","display_name":"Formal ontology","level":4,"score":0.5167745351791382},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.4716326892375946},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.4660530984401703},{"id":"https://openalex.org/C98893333","wikidata":"https://www.wikidata.org/wiki/Q4339878","display_name":"Ontology alignment","level":4,"score":0.4624581038951874},{"id":"https://openalex.org/C50971890","wikidata":"https://www.wikidata.org/wiki/Q7635093","display_name":"Suggested Upper Merged Ontology","level":4,"score":0.4342518448829651},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4278546869754791},{"id":"https://openalex.org/C207685749","wikidata":"https://www.wikidata.org/wiki/Q2088941","display_name":"Domain knowledge","level":2,"score":0.3055807650089264},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.20910826325416565},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.13687506318092346},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"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/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1109/iri.2008.4583056","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iri.2008.4583056","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 IEEE International Conference on Information Reuse and Integration","raw_type":"proceedings-article"},{"id":"pmid:21625409","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21625409","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":"Proceedings of the ... IEEE International Conference on Information Reuse and Integration. IEEE International Conference on Information Reuse and Integration","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.172.6567","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.172.6567","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.cs.iastate.edu/%7Ejpathak/publications_files/IRI-2008-Published.pdf","raw_type":"text"},{"id":"pmh:oai:pubmedcentral.nih.gov:3101570","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3101570","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proc IEEE Int Conf Inf Reuse Integr","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:3101570","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3101570","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proc IEEE Int Conf Inf Reuse Integr","raw_type":"Text"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W93175922","https://openalex.org/W112686205","https://openalex.org/W264967705","https://openalex.org/W1212604327","https://openalex.org/W1484429151","https://openalex.org/W1538467105","https://openalex.org/W1577703384","https://openalex.org/W1605764012","https://openalex.org/W1699724838","https://openalex.org/W1732024542","https://openalex.org/W1866502235","https://openalex.org/W2036614464","https://openalex.org/W2039386673","https://openalex.org/W2074188997","https://openalex.org/W2104181470","https://openalex.org/W2112977402","https://openalex.org/W2126094608","https://openalex.org/W2137429365","https://openalex.org/W2138314466","https://openalex.org/W2160522235","https://openalex.org/W2162438644","https://openalex.org/W2163272338","https://openalex.org/W2911401876","https://openalex.org/W2982887048","https://openalex.org/W6603810107","https://openalex.org/W6604624940","https://openalex.org/W6627947497","https://openalex.org/W6629127419","https://openalex.org/W6632427633","https://openalex.org/W6634671687","https://openalex.org/W6636060977","https://openalex.org/W6637680678","https://openalex.org/W6638933105","https://openalex.org/W6683942942"],"related_works":["https://openalex.org/W1506177826","https://openalex.org/W2732632690","https://openalex.org/W4206428734","https://openalex.org/W2102229151","https://openalex.org/W1794266373","https://openalex.org/W2012420033","https://openalex.org/W2365397974","https://openalex.org/W2138664789","https://openalex.org/W1838034317","https://openalex.org/W13910993"],"abstract_inverted_index":{"In":[0,122],"the":[1,11,55,84,90,164,173,176],"past":[2],"several":[3],"years,":[4],"various":[5,45],"ontologies":[6,59,88,131],"and":[7,34,40,68,96,114,150,161,180],"terminologies":[8],"such":[9,153],"as":[10,142,144],"Gene":[12],"Ontology":[13],"have":[14],"been":[15],"developed":[16],"to":[17,71,103,185],"enable":[18],"interoperability":[19],"across":[20],"multiple":[21],"diverse":[22],"medical":[23],"information":[24],"systems.":[25],"They":[26],"provide":[27],"a":[28,76,104,117],"standard":[29],"way":[30],"of":[31,42,57,79,86,99,172,175],"representing":[32],"terms":[33],"concepts":[35],"thereby":[36],"supporting":[37],"easy":[38],"transmission":[39],"interpretation":[41],"data":[43],"for":[44],"applications.":[46],"However,":[47],"with":[48],"their":[49,187],"growing":[50,77],"utilization,":[51],"not":[52],"only":[53],"has":[54],"number":[56],"available":[58],"increased":[60],"considerably,":[61],"but":[62],"they":[63],"are":[64,136],"also":[65],"becoming":[66],"larger":[67,118],"more":[69],"complex":[70],"manage.":[72],"Toward":[73],"this":[74,123],"end,":[75],"body":[78],"work":[80],"is":[81,92],"emerging":[82],"in":[83,129,158,163],"area":[85],"modular":[87,130,177],"where":[89],"emphasis":[91],"on":[93,133,138],"either":[94],"extracting":[95],"managing":[97],"\"modules\"":[98],"an":[100],"ontology":[101,119,178],"relevant":[102],"particular":[105],"application":[106],"scenario":[107],"(ontology":[108,120],"decomposition)":[109],"or":[110],"developing":[111,159],"them":[112],"independently":[113],"integrating":[115],"into":[116],"composition).":[121],"paper,":[124],"we":[125],"investigate":[126],"state-of-the-art":[127],"approaches":[128,154],"focusing":[132],"techniques":[134],"that":[135],"based":[137],"rigorous":[139],"logical":[140],"formalisms":[141,179],"well":[143],"well-studied":[145],"graph":[146],"theories.":[147],"We":[148,167],"analyze":[149],"compare":[151],"how":[152],"can":[155],"be":[156],"leveraged":[157],"tools":[160],"applications":[162],"biomedical":[165],"domain.":[166],"conclude":[168],"by":[169],"highlighting":[170],"some":[171],"limitations":[174],"put":[181],"forward":[182],"additional":[183],"requirements":[184],"steer":[186],"future":[188],"development.":[189]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
