{"id":"https://openalex.org/W2117815774","doi":"https://doi.org/10.1186/1471-2105-12-218","title":"OntoCAT -- simple ontology search and integration in Java, R and REST/JavaScript","display_name":"OntoCAT -- simple ontology search and integration in Java, R and REST/JavaScript","publication_year":2011,"publication_date":"2011-05-29","ids":{"openalex":"https://openalex.org/W2117815774","doi":"https://doi.org/10.1186/1471-2105-12-218","mag":"2117815774","pmid":"https://pubmed.ncbi.nlm.nih.gov/21619703"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-12-218","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-218","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-218","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/counter/pdf/10.1186/1471-2105-12-218","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5007740400","display_name":"Tomasz Adamusiak","orcid":"https://orcid.org/0000-0002-0746-2916"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Tomasz Adamusiak","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK. tomasz@ebi.ac.uk","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK. tomasz@ebi.ac.uk","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007472686","display_name":"Tony Burdett","orcid":null},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Tony Burdett","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041480057","display_name":"Natalja Kurbatova","orcid":"https://orcid.org/0000-0002-3973-2909"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Natalja Kurbatova","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033039802","display_name":"K. Joeri van der Velde","orcid":"https://orcid.org/0000-0002-0934-8375"},"institutions":[{"id":"https://openalex.org/I1334415907","display_name":"University Medical Center Groningen","ror":"https://ror.org/03cv38k47","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I1334415907"]},{"id":"https://openalex.org/I169381384","display_name":"University of Groningen","ror":"https://ror.org/012p63287","country_code":"NL","type":"education","lineage":["https://openalex.org/I169381384"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"K Joeri van der Velde","raw_affiliation_strings":["Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, P.O. Box 30001, 9700 RB, Groningen, The Netherlands","Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, Groningen, the Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, P.O. Box 30001, 9700 RB, Groningen, The Netherlands","institution_ids":["https://openalex.org/I1334415907"]},{"raw_affiliation_string":"Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, Groningen, the Netherlands","institution_ids":["https://openalex.org/I1334415907","https://openalex.org/I169381384"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044746427","display_name":"Niran Abeygunawardena","orcid":null},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Niran Abeygunawardena","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066585319","display_name":"Despoina Antonakaki","orcid":"https://orcid.org/0000-0001-9081-6115"},"institutions":[{"id":"https://openalex.org/I1334415907","display_name":"University Medical Center Groningen","ror":"https://ror.org/03cv38k47","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I1334415907"]},{"id":"https://openalex.org/I169381384","display_name":"University of Groningen","ror":"https://ror.org/012p63287","country_code":"NL","type":"education","lineage":["https://openalex.org/I169381384"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Despoina Antonakaki","raw_affiliation_strings":["Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, P.O. Box 30001, 9700 RB, Groningen, The Netherlands","Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, Groningen, the Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, P.O. Box 30001, 9700 RB, Groningen, The Netherlands","institution_ids":["https://openalex.org/I1334415907"]},{"raw_affiliation_string":"Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, Groningen, the Netherlands","institution_ids":["https://openalex.org/I1334415907","https://openalex.org/I169381384"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077696689","display_name":"Misha Kapushesky","orcid":"https://orcid.org/0009-0000-8931-7132"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Misha Kapushesky","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020620537","display_name":"Helen Parkinson","orcid":"https://orcid.org/0000-0003-3035-4195"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Helen Parkinson","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge,","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5052368642","display_name":"Morris A. Swertz","orcid":"https://orcid.org/0000-0002-0979-3401"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I1334415907","display_name":"University Medical Center Groningen","ror":"https://ror.org/03cv38k47","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I1334415907"]},{"id":"https://openalex.org/I169381384","display_name":"University of Groningen","ror":"https://ror.org/012p63287","country_code":"NL","type":"education","lineage":["https://openalex.org/I169381384"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB","NL"],"is_corresponding":false,"raw_author_name":"Morris A Swertz","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, P.O. Box 30001, 9700 RB, Groningen, The Netherlands","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge","Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, Groningen, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, P.O. Box 30001, 9700 RB, Groningen, The Netherlands","institution_ids":["https://openalex.org/I1334415907"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"Genomics Coordination Center, Department of Genetics, University Medical Center Groningen and Groningen Bioinformatics Center, University of Groningen, Groningen, The Netherlands","institution_ids":["https://openalex.org/I1334415907","https://openalex.org/I169381384"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5007740400"],"corresponding_institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":2.6763,"has_fulltext":true,"cited_by_count":39,"citation_normalized_percentile":{"value":0.90772063,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"12","issue":"1","first_page":"218","last_page":"218"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.906499981880188,"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":0.906499981880188,"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":0.04280000180006027,"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":0.014100000262260437,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8006632328033447},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.7584660053253174},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.6415552496910095},{"id":"https://openalex.org/keywords/ontology-based-data-integration","display_name":"Ontology-based data integration","score":0.62174391746521},{"id":"https://openalex.org/keywords/upper-ontology","display_name":"Upper ontology","score":0.577106237411499},{"id":"https://openalex.org/keywords/open-biomedical-ontologies","display_name":"Open Biomedical Ontologies","score":0.5217198133468628},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.509250283241272},{"id":"https://openalex.org/keywords/prot\u00e9g\u00e9","display_name":"Prot\u00e9g\u00e9","score":0.5086801648139954},{"id":"https://openalex.org/keywords/process-ontology","display_name":"Process ontology","score":0.49353182315826416},{"id":"https://openalex.org/keywords/web-service","display_name":"Web service","score":0.4614936113357544},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.45093122124671936},{"id":"https://openalex.org/keywords/suggested-upper-merged-ontology","display_name":"Suggested Upper Merged Ontology","score":0.40130120515823364},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3598009943962097},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.24474674463272095},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.11527246236801147}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8006632328033447},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.7584660053253174},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.6415552496910095},{"id":"https://openalex.org/C22550185","wikidata":"https://www.wikidata.org/wiki/Q7095047","display_name":"Ontology-based data integration","level":3,"score":0.62174391746521},{"id":"https://openalex.org/C78726541","wikidata":"https://www.wikidata.org/wiki/Q3882785","display_name":"Upper ontology","level":3,"score":0.577106237411499},{"id":"https://openalex.org/C137982476","wikidata":"https://www.wikidata.org/wiki/Q7072326","display_name":"Open Biomedical Ontologies","level":5,"score":0.5217198133468628},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.509250283241272},{"id":"https://openalex.org/C2779247653","wikidata":"https://www.wikidata.org/wiki/Q2066865","display_name":"Prot\u00e9g\u00e9","level":3,"score":0.5086801648139954},{"id":"https://openalex.org/C137003198","wikidata":"https://www.wikidata.org/wiki/Q7247296","display_name":"Process ontology","level":3,"score":0.49353182315826416},{"id":"https://openalex.org/C35578498","wikidata":"https://www.wikidata.org/wiki/Q193424","display_name":"Web service","level":2,"score":0.4614936113357544},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.45093122124671936},{"id":"https://openalex.org/C50971890","wikidata":"https://www.wikidata.org/wiki/Q7635093","display_name":"Suggested Upper Merged Ontology","level":4,"score":0.40130120515823364},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3598009943962097},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.24474674463272095},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.11527246236801147},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","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}],"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":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014825","descriptor_name":"Vocabulary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014825","descriptor_name":"Vocabulary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014825","descriptor_name":"Vocabulary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-12-218","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-218","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-218","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:21619703","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21619703","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:pure.rug.nl:openaire/7705126c-59a3-4d35-9e1f-d5e83016e4e3","is_oa":true,"landing_page_url":"https://research.rug.nl/en/publications/7705126c-59a3-4d35-9e1f-d5e83016e4e3","pdf_url":null,"source":{"id":"https://openalex.org/S4306400420","display_name":"University of Groningen research database (University of Groningen / Centre for Information Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I169381384","host_organization_name":"University of Groningen","host_organization_lineage":["https://openalex.org/I169381384"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Adamusiak, T, Burdett, T, Kurbatova, N, van der Velde, K J, Abeygunawardena, N, Antonakaki, D, Kapushesky, M, Parkinson, H & Swertz, M A 2011, 'OntoCAT - simple ontology search and integration in Java, R and REST/JavaScript', Bmc Bioinformatics, vol. 12, 218. https://doi.org/10.1186/1471-2105-12-218","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:doaj.org/article:a64fec7cf5a74a71ba4ca848866f3647","is_oa":true,"landing_page_url":"https://doaj.org/article/a64fec7cf5a74a71ba4ca848866f3647","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"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 12, Iss 1, p 218 (2011)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3129328","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3129328","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-12-218","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-218","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-218","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/9","score":0.49000000953674316,"display_name":"Industry, innovation and infrastructure"}],"awards":[{"id":"https://openalex.org/G2549354427","display_name":null,"funder_award_id":"825.09.008","funder_id":"https://openalex.org/F4320321800","funder_display_name":"Nederlandse Organisatie voor Wetenschappelijk Onderzoek"}],"funders":[{"id":"https://openalex.org/F4320314023","display_name":"European Molecular Biology Laboratory","ror":"https://ror.org/050589e39"},{"id":"https://openalex.org/F4320321800","display_name":"Nederlandse Organisatie voor Wetenschappelijk Onderzoek","ror":"https://ror.org/04jsz6e67"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2117815774.pdf","grobid_xml":"https://content.openalex.org/works/W2117815774.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W1508812357","https://openalex.org/W1597538863","https://openalex.org/W1757909678","https://openalex.org/W1871852719","https://openalex.org/W1998671175","https://openalex.org/W2040899072","https://openalex.org/W2046872827","https://openalex.org/W2054598634","https://openalex.org/W2084975981","https://openalex.org/W2087779040","https://openalex.org/W2096704019","https://openalex.org/W2108671185","https://openalex.org/W2113142309","https://openalex.org/W2116089212","https://openalex.org/W2126827435","https://openalex.org/W2130743074","https://openalex.org/W2131660156","https://openalex.org/W2133109597","https://openalex.org/W2137079713","https://openalex.org/W2146273255","https://openalex.org/W2147018385","https://openalex.org/W2148130205","https://openalex.org/W2159941448","https://openalex.org/W2160697532","https://openalex.org/W2162311237","https://openalex.org/W2171016123","https://openalex.org/W2293662598","https://openalex.org/W2294472426","https://openalex.org/W2399721281","https://openalex.org/W2419265482","https://openalex.org/W2604748391","https://openalex.org/W4246066782"],"related_works":["https://openalex.org/W2351536913","https://openalex.org/W26549824","https://openalex.org/W2732632690","https://openalex.org/W1506177826","https://openalex.org/W2726617685","https://openalex.org/W72173000","https://openalex.org/W1765551073","https://openalex.org/W178948522","https://openalex.org/W2302930475","https://openalex.org/W2124230432"],"abstract_inverted_index":{"BACKGROUND:":[0],"Ontologies":[1],"have":[2],"become":[3],"an":[4],"essential":[5],"asset":[6],"in":[7,38,125,170],"the":[8,23,30,171],"bioinformatics":[9],"toolbox":[10],"and":[11,29,43,63,89,97,110,117,136,155,165,175],"a":[12,78,132,137,145,162],"number":[13],"of":[14,41,65,119],"ontology":[15,44,54,85,120,151],"access":[16,52],"resources":[17,35,86],"are":[18],"now":[19],"available,":[20],"for":[21,149],"example,":[22],"EBI":[24],"Ontology":[25],"Lookup":[26],"Service":[27],"(OLS)":[28],"NCBO":[31],"BioPortal.":[32],"However,":[33],"these":[34],"differ":[36],"substantially":[37],"mode,":[39],"ease":[40],"access,":[42],"content.":[45],"This":[46],"makes":[47],"it":[48],"relatively":[49],"difficult":[50],"to":[51,60,82,106],"each":[53],"source":[55],"separately,":[56],"map":[57],"their":[58],"contents":[59],"research":[61,73],"data,":[62],"much":[64],"this":[66],"effort":[67],"is":[68,102,128,159],"being":[69],"replicated":[70],"across":[71],"different":[72],"groups.":[74],"RESULTS:":[75],"OntoCAT":[76,143],"provides":[77,144],"seamless":[79],"programming":[80],"interface":[81],"query":[83],"heterogeneous":[84],"including":[87],"OLS":[88],"BioPortal,":[90],"as":[91,93,131,161],"well":[92],"user-specified":[94],"local":[95],"OWL":[96],"OBO":[98],"files.":[99],"Each":[100],"resource":[101],"wrapped":[103],"behind":[104],"easy":[105],"learn":[107],"Java,":[108],"Bioconductor/R":[109],"REST":[111],"web":[112],"service":[113],"commands":[114],"enabling":[115],"reuse":[116],"integration":[118],"software":[121],"efforts":[122],"despite":[123],"variation":[124],"technologies.":[126],"It":[127],"also":[129],"available":[130,160],"stand-alone":[133,163],"MOLGENIS":[134],"database":[135],"Google":[138],"App":[139],"Engine":[140],"application.":[141],"CONCLUSIONS:":[142],"robust,":[146],"configurable":[147],"solution":[148],"accessing":[150],"terms":[152],"specified":[153],"locally":[154],"from":[156],"remote":[157],"services,":[158],"tool":[164],"has":[166],"been":[167],"tested":[168],"thoroughly":[169],"ArrayExpress,":[172],"MOLGENIS,":[173],"EFO":[174],"Gen2Phen":[176],"phenotype":[177],"use":[178],"cases.":[179],"AVAILABILITY:":[180],"http://www.ontocat.org.":[181]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":5},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":6},{"year":2012,"cited_by_count":9}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
