{"id":"https://openalex.org/W2165057277","doi":"https://doi.org/10.1186/s12859-015-0488-1","title":"OTO: Ontology Term Organizer","display_name":"OTO: Ontology Term Organizer","publication_year":2015,"publication_date":"2015-02-15","ids":{"openalex":"https://openalex.org/W2165057277","doi":"https://doi.org/10.1186/s12859-015-0488-1","mag":"2165057277","pmid":"https://pubmed.ncbi.nlm.nih.gov/25887779"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-015-0488-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0488-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0488-1","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/s12859-015-0488-1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5068762317","display_name":"Fengqiong Huang","orcid":null},"institutions":[{"id":"https://openalex.org/I138006243","display_name":"University of Arizona","ror":"https://ror.org/03m2x1q45","country_code":"US","type":"education","lineage":["https://openalex.org/I138006243"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Fengqiong Huang","raw_affiliation_strings":["School of Information Resources and Library Science, University of Arizona, Tucson, USA. huangfq@email.arizona.edu","School of Information Resources and Library Science, University of Arizona, Tucson, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information Resources and Library Science, University of Arizona, Tucson, USA. huangfq@email.arizona.edu","institution_ids":["https://openalex.org/I138006243"]},{"raw_affiliation_string":"School of Information Resources and Library Science, University of Arizona, Tucson, USA","institution_ids":["https://openalex.org/I138006243"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029605705","display_name":"James Macklin","orcid":"https://orcid.org/0000-0001-9508-1349"},"institutions":[{"id":"https://openalex.org/I1331897569","display_name":"Agriculture and Agri-Food Canada","ror":"https://ror.org/051dzs374","country_code":"CA","type":"government","lineage":["https://openalex.org/I1331897569","https://openalex.org/I2802286613"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"James A Macklin","raw_affiliation_strings":["Agriculture Agri-Food Canada, Ottawa, Canada. James.Macklin@agr.gc.ca","Agriculture Agri-Food Canada, Ottawa, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Agriculture Agri-Food Canada, Ottawa, Canada. James.Macklin@agr.gc.ca","institution_ids":["https://openalex.org/I1331897569"]},{"raw_affiliation_string":"Agriculture Agri-Food Canada, Ottawa, Canada","institution_ids":["https://openalex.org/I1331897569"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044387303","display_name":"Hong Cui","orcid":"https://orcid.org/0000-0001-6218-283X"},"institutions":[{"id":"https://openalex.org/I138006243","display_name":"University of Arizona","ror":"https://ror.org/03m2x1q45","country_code":"US","type":"education","lineage":["https://openalex.org/I138006243"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Hong Cui","raw_affiliation_strings":["School of Information Resources and Library Science, University of Arizona, Tucson, USA. hongcui@email.arizona.edu","School of Information Resources and Library Science, University of Arizona, Tucson, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information Resources and Library Science, University of Arizona, Tucson, USA. hongcui@email.arizona.edu","institution_ids":["https://openalex.org/I138006243"]},{"raw_affiliation_string":"School of Information Resources and Library Science, University of Arizona, Tucson, USA","institution_ids":["https://openalex.org/I138006243"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003143622","display_name":"Heather Cole","orcid":"https://orcid.org/0000-0002-8890-1748"},"institutions":[{"id":"https://openalex.org/I1331897569","display_name":"Agriculture and Agri-Food Canada","ror":"https://ror.org/051dzs374","country_code":"CA","type":"government","lineage":["https://openalex.org/I1331897569","https://openalex.org/I2802286613"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Heather A Cole","raw_affiliation_strings":["Agriculture Agri-Food Canada, Ottawa, Canada. heather.cole@agr.gc.ca","Agriculture Agri-Food Canada, Ottawa, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Agriculture Agri-Food Canada, Ottawa, Canada. heather.cole@agr.gc.ca","institution_ids":["https://openalex.org/I1331897569"]},{"raw_affiliation_string":"Agriculture Agri-Food Canada, Ottawa, Canada","institution_ids":["https://openalex.org/I1331897569"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068273422","display_name":"Lorena Endara","orcid":"https://orcid.org/0000-0003-2834-7412"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lorena Endara","raw_affiliation_strings":["Department of Biology, University of Florida, Gainesville, USA. lendara@flmnh.ufl.edu","Department of Biology, University of Florida, Gainesville, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, University of Florida, Gainesville, USA. lendara@flmnh.ufl.edu","institution_ids":["https://openalex.org/I33213144"]},{"raw_affiliation_string":"Department of Biology, University of Florida, Gainesville, USA","institution_ids":["https://openalex.org/I33213144"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5044387303"],"corresponding_institution_ids":["https://openalex.org/I138006243"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":1.6527,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.83795265,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"16","issue":"1","first_page":"47","last_page":"47"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.6477000117301941,"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":0.6477000117301941,"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":0.06700000166893005,"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/T10895","display_name":"Species Distribution and Climate Change","score":0.022700000554323196,"subfield":{"id":"https://openalex.org/subfields/2302","display_name":"Ecological Modeling"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/term","display_name":"Term (time)","score":0.7350189089775085},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.5987831354141235},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5378232598304749},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5208004713058472},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.4898631274700165},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.45451778173446655},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.41067180037498474},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3875631093978882},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.37691110372543335},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3465183973312378},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3423108458518982},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20337465405464172},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08357983827590942},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.07270234823226929}],"concepts":[{"id":"https://openalex.org/C61797465","wikidata":"https://www.wikidata.org/wiki/Q1188986","display_name":"Term (time)","level":2,"score":0.7350189089775085},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.5987831354141235},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5378232598304749},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5208004713058472},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4898631274700165},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.45451778173446655},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.41067180037498474},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3875631093978882},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.37691110372543335},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3465183973312378},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3423108458518982},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20337465405464172},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08357983827590942},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.07270234823226929},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"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/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","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":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","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":"D009626","descriptor_name":"Terminology as Topic","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":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","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":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":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":4,"locations":[{"id":"doi:10.1186/s12859-015-0488-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0488-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0488-1","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:25887779","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25887779","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:repository.arizona.edu:10150/610269","is_oa":true,"landing_page_url":"http://hdl.handle.net/10150/610269","pdf_url":"https://repository.arizona.edu/bitstream/10150/610269/1/s12859-015-0488-1.pdf","source":{"id":"https://openalex.org/S4306400271","display_name":"UA Campus Repository (The University of Arizona)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I138006243","host_organization_name":"University of Arizona","host_organization_lineage":["https://openalex.org/I138006243"],"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":"Article"},{"id":"pmh:oai:europepmc.org:3304161","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4339750","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/s12859-015-0488-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0488-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0488-1","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":[],"awards":[{"id":"https://openalex.org/G247860501","display_name":"Fine-Grained Semantic Markup of Descriptive Data for Knowledge Applications in Biodiversity Domains","funder_award_id":"0849982","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2891145013","display_name":"BCSP:  Collaborative Research:   ABI Development: Exploring Taxon Concepts (ETC) through analyzing fine-grained semantic markup of descriptive literature","funder_award_id":"1147266","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3070783403","display_name":null,"funder_award_id":"EF-0849982","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2165057277.pdf","grobid_xml":"https://content.openalex.org/works/W2165057277.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W31461794","https://openalex.org/W179541448","https://openalex.org/W1595210948","https://openalex.org/W1967218992","https://openalex.org/W1988148643","https://openalex.org/W2018002298","https://openalex.org/W2049625541","https://openalex.org/W2061809273","https://openalex.org/W2075182631","https://openalex.org/W2116034137","https://openalex.org/W2123152121","https://openalex.org/W2137362149","https://openalex.org/W2159583324","https://openalex.org/W2314523768","https://openalex.org/W2412893045","https://openalex.org/W2797434816","https://openalex.org/W4235637596"],"related_works":["https://openalex.org/W2003333417","https://openalex.org/W42295635","https://openalex.org/W1973996291","https://openalex.org/W2378862226","https://openalex.org/W118236634","https://openalex.org/W2355326633","https://openalex.org/W2330575325","https://openalex.org/W4388747848","https://openalex.org/W2804669904","https://openalex.org/W2393581236"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,51,116,152,203],"need":[2,25],"to":[3,49,100,108,149,176,212,229,249,277],"create":[4],"controlled":[5],"vocabularies":[6],"such":[7,162],"as":[8,163],"ontologies":[9,211],"for":[10,36,41,46,110,140,156,283],"knowledge":[11,29,42,161],"organization":[12,281],"and":[13,44,60,89,96,106,112,121,146,181,197,242,265],"access":[14],"has":[15,226],"been":[16,227],"widely":[17],"recognized":[18],"in":[19,30,53,61,65,123,186,194,247],"various":[20],"domains.":[21,285],"Despite":[22],"the":[23,54,62,81,102,191,231,261,272],"indispensable":[24],"of":[26,56,86,237,239,244,253],"thorough":[27],"domain":[28,47,58,142,160,188],"ontology":[31,37,168],"construction,":[32],"most":[33],"software":[34,76,87,117],"tools":[35],"construction":[38,169],"are":[39,68,94,221],"designed":[40,155],"engineers":[43],"not":[45,166],"experts":[48,59],"use.":[50],"differences":[52],"opinions":[55],"different":[57,254,284],"terminology":[63,192],"usages":[64],"source":[66,120,138,195,270],"literature":[67,196],"rarely":[69],"addressed":[70],"by":[71,144],"existing":[72,97],"software.":[73],"METHODS:":[74],"OTO":[75,172,220,225],"was":[77],"developed":[78],"based":[79,198],"on":[80,199,219],"Agile":[82],"principles.":[83],"Through":[84],"iterations":[85],"release":[88],"user":[90,266],"feedback,":[91],"new":[92],"features":[93,98],"added":[95],"modified":[99,276],"make":[101],"tool":[103,262],"more":[104],"intuitive":[105],"efficient":[107,264],"use":[109],"small":[111],"large":[113],"data":[114],"sets.":[115],"is":[118,132,154,263],"open":[119,137,269],"built":[122],"Java.":[124],"RESULTS:":[125],"Ontology":[126],"Term":[127],"Organizer":[128],"(OTO;":[129],"http://biosemantics.arizona.edu/OTO/":[130],")":[131],"a":[133],"user-friendly,":[134],"web-based,":[135],"consensus-promoting,":[136],"application":[139,153,273],"organizing":[141],"terms":[143,148,185,205,232],"dragging":[145],"dropping":[147],"appropriate":[150],"locations.":[151],"users":[157],"with":[158],"specific":[159],"biology":[164],"but":[165],"in-depth":[167],"skills.":[170],"Specifically":[171],"can":[173,274],"be":[174,207,275],"used":[175,228],"establish":[177],"is_a,":[178],"part_of,":[179],"synonym,":[180],"order":[182],"relationships":[183],"among":[184],"any":[187],"that":[189,260],"reflects":[190],"usage":[193],"multiple":[200],"experts'":[201],"opinions.":[202],"organized":[204,218],"may":[206],"fed":[208],"into":[209],"formal":[210],"boost":[213],"their":[214],"coverage.":[215],"All":[216],"datasets":[217,252],"publicly":[222],"available.":[223],"CONCLUSION:":[224],"organize":[230],"extracted":[233],"from":[234],"thirty":[235],"volumes":[236],"Flora":[238,243],"North":[240],"America":[241],"China":[245],"combined,":[246],"addition":[248],"some":[250],"smaller":[251],"taxon":[255],"groups.":[256],"User":[257],"feedback":[258],"indicates":[259],"friendly.":[267],"Being":[268],"software,":[271],"fit":[278],"varied":[279],"term":[280],"needs":[282]},"counts_by_year":[{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":5}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
