{"id":"https://openalex.org/W2106797966","doi":"https://doi.org/10.1186/1471-2105-10-s9-s14","title":"Comparison of concept recognizers for building the Open Biomedical Annotator","display_name":"Comparison of concept recognizers for building the Open Biomedical Annotator","publication_year":2009,"publication_date":"2009-09-01","ids":{"openalex":"https://openalex.org/W2106797966","doi":"https://doi.org/10.1186/1471-2105-10-s9-s14","mag":"2106797966","pmid":"https://pubmed.ncbi.nlm.nih.gov/19761568"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-10-s9-s14","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-s9-s14","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-S9-S14","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/10.1186/1471-2105-10-S9-S14","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041175834","display_name":"Nigam H. Shah","orcid":"https://orcid.org/0000-0001-9385-7158"},"institutions":[{"id":"https://openalex.org/I4210137306","display_name":"Stanford Medicine","ror":"https://ror.org/03mtd9a03","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210137306","https://openalex.org/I97018004"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Nigam H Shah","raw_affiliation_strings":["Centre for Biomedical Informatics, Stanford University, Stanford, CA 94305, USA. nigam@stanford.edu","Centre for Biomedical Informatics, Stanford University, Stanford, USA"],"affiliations":[{"raw_affiliation_string":"Centre for Biomedical Informatics, Stanford University, Stanford, CA 94305, USA. nigam@stanford.edu","institution_ids":["https://openalex.org/I97018004","https://openalex.org/I4210137306"]},{"raw_affiliation_string":"Centre for Biomedical Informatics, Stanford University, Stanford, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091456918","display_name":"Nipun Bhatia","orcid":null},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nipun Bhatia","raw_affiliation_strings":["Department of Computer Science, Stanford University, Stanford, CA, 94305, USA","Department of Computer Science , Stanford University, Stanford, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Stanford University, Stanford, CA, 94305, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Department of Computer Science , Stanford University, Stanford, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064022148","display_name":"Cl\u00e9ment Jonquet","orcid":"https://orcid.org/0000-0002-2404-1582"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Clement Jonquet","raw_affiliation_strings":["Centre for Biomedical Informatics, Stanford University, Stanford, CA, 94305, USA","Centre for Biomedical Informatics, Stanford University, Stanford, USA"],"affiliations":[{"raw_affiliation_string":"Centre for Biomedical Informatics, Stanford University, Stanford, CA, 94305, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Centre for Biomedical Informatics, Stanford University, Stanford, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004965117","display_name":"Daniel L. Rubin","orcid":"https://orcid.org/0000-0001-5057-4369"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daniel Rubin","raw_affiliation_strings":["Centre for Biomedical Informatics, Stanford University, Stanford, CA, 94305, USA","Centre for Biomedical Informatics, Stanford University, Stanford, USA"],"affiliations":[{"raw_affiliation_string":"Centre for Biomedical Informatics, Stanford University, Stanford, CA, 94305, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Centre for Biomedical Informatics, Stanford University, Stanford, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068270301","display_name":"Annie Chiang","orcid":"https://orcid.org/0000-0003-0188-1586"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Annie P Chiang","raw_affiliation_strings":["Centre for Biomedical Informatics, Stanford University, Stanford, CA, 94305, USA","Centre for Biomedical Informatics, Stanford University, Stanford, USA"],"affiliations":[{"raw_affiliation_string":"Centre for Biomedical Informatics, Stanford University, Stanford, CA, 94305, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Centre for Biomedical Informatics, Stanford University, Stanford, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5009128820","display_name":"Mark A. Musen","orcid":"https://orcid.org/0000-0003-3325-793X"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mark A Musen","raw_affiliation_strings":["Centre for Biomedical Informatics, Stanford University, Stanford, CA, 94305, USA","Centre for Biomedical Informatics, Stanford University, Stanford, USA"],"affiliations":[{"raw_affiliation_string":"Centre for Biomedical Informatics, Stanford University, Stanford, CA, 94305, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Centre for Biomedical Informatics, Stanford University, Stanford, USA","institution_ids":["https://openalex.org/I97018004"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5041175834"],"corresponding_institution_ids":["https://openalex.org/I4210137306","https://openalex.org/I97018004"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":4.0439,"has_fulltext":true,"cited_by_count":131,"citation_normalized_percentile":{"value":0.94589667,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":100},"biblio":{"volume":"10","issue":"S9","first_page":"S14","last_page":"S14"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9998999834060669,"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":0.9998999834060669,"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":0.998199999332428,"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/T10181","display_name":"Natural Language Processing Techniques","score":0.9024999737739563,"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":0.8524879217147827},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.742939293384552},{"id":"https://openalex.org/keywords/unified-medical-language-system","display_name":"Unified Medical Language System","score":0.7424237132072449},{"id":"https://openalex.org/keywords/metadata","display_name":"Metadata","score":0.7023452520370483},{"id":"https://openalex.org/keywords/search-engine-indexing","display_name":"Search engine indexing","score":0.6855476498603821},{"id":"https://openalex.org/keywords/open-biomedical-ontologies","display_name":"Open Biomedical Ontologies","score":0.6474097371101379},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.6209700107574463},{"id":"https://openalex.org/keywords/controlled-vocabulary","display_name":"Controlled vocabulary","score":0.5778180360794067},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.568011462688446},{"id":"https://openalex.org/keywords/service","display_name":"Service (business)","score":0.4830194413661957},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.4819224178791046},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.46954545378685},{"id":"https://openalex.org/keywords/upper-ontology","display_name":"Upper ontology","score":0.4205728769302368},{"id":"https://openalex.org/keywords/suggested-upper-merged-ontology","display_name":"Suggested Upper Merged Ontology","score":0.27531862258911133},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.24480685591697693},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.2103956639766693}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8524879217147827},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.742939293384552},{"id":"https://openalex.org/C69505689","wikidata":"https://www.wikidata.org/wiki/Q455338","display_name":"Unified Medical Language System","level":2,"score":0.7424237132072449},{"id":"https://openalex.org/C93518851","wikidata":"https://www.wikidata.org/wiki/Q180160","display_name":"Metadata","level":2,"score":0.7023452520370483},{"id":"https://openalex.org/C75165309","wikidata":"https://www.wikidata.org/wiki/Q2258979","display_name":"Search engine indexing","level":2,"score":0.6855476498603821},{"id":"https://openalex.org/C137982476","wikidata":"https://www.wikidata.org/wiki/Q7072326","display_name":"Open Biomedical Ontologies","level":5,"score":0.6474097371101379},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.6209700107574463},{"id":"https://openalex.org/C110615152","wikidata":"https://www.wikidata.org/wiki/Q1469824","display_name":"Controlled vocabulary","level":2,"score":0.5778180360794067},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.568011462688446},{"id":"https://openalex.org/C2780378061","wikidata":"https://www.wikidata.org/wiki/Q25351891","display_name":"Service (business)","level":2,"score":0.4830194413661957},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.4819224178791046},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.46954545378685},{"id":"https://openalex.org/C78726541","wikidata":"https://www.wikidata.org/wiki/Q3882785","display_name":"Upper ontology","level":3,"score":0.4205728769302368},{"id":"https://openalex.org/C50971890","wikidata":"https://www.wikidata.org/wiki/Q7635093","display_name":"Suggested Upper Merged Ontology","level":4,"score":0.27531862258911133},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.24480685591697693},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.2103956639766693},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"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/C136264566","wikidata":"https://www.wikidata.org/wiki/Q159810","display_name":"Economy","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","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":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","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},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-10-s9-s14","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-s9-s14","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-S9-S14","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:19761568","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19761568","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:HAL:hal-00492026v1","is_oa":true,"landing_page_url":"https://hal.science/hal-00492026","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, 2009, 10 (9:S14), pp.9:S14. &#x27E8;10.1186/1471-2105-10-S9-S14&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:doaj.org/article:83b99ee76629488cbc4686c7db811ea0","is_oa":true,"landing_page_url":"https://doaj.org/article/83b99ee76629488cbc4686c7db811ea0","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 10, Iss Suppl 9, p S14 (2009)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2745685","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2745685","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":"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:10.1186/1471-2105-10-s9-s14","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-s9-s14","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-S9-S14","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/G1857259337","display_name":null,"funder_award_id":"U54 HG004028","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320308571","display_name":"North Carolina Biotechnology Center","ror":"https://ror.org/03hj4jr80"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2106797966.pdf","grobid_xml":"https://content.openalex.org/works/W2106797966.grobid-xml"},"referenced_works_count":22,"referenced_works":["https://openalex.org/W18286363","https://openalex.org/W64604996","https://openalex.org/W102787101","https://openalex.org/W1550258693","https://openalex.org/W1730875596","https://openalex.org/W1994306321","https://openalex.org/W2045016337","https://openalex.org/W2049657209","https://openalex.org/W2053673723","https://openalex.org/W2058987494","https://openalex.org/W2067819940","https://openalex.org/W2090566980","https://openalex.org/W2126276057","https://openalex.org/W2131660156","https://openalex.org/W2134015035","https://openalex.org/W2134725489","https://openalex.org/W2142741334","https://openalex.org/W2148130205","https://openalex.org/W2151698208","https://openalex.org/W2154708031","https://openalex.org/W2158789585","https://openalex.org/W2169918010"],"related_works":["https://openalex.org/W2409065517","https://openalex.org/W2509297716","https://openalex.org/W1508778694","https://openalex.org/W206173097","https://openalex.org/W138082899","https://openalex.org/W1998735789","https://openalex.org/W4251503124","https://openalex.org/W2064177607","https://openalex.org/W2157272674","https://openalex.org/W2068800403"],"abstract_inverted_index":{"The":[0,36,168,191,207],"National":[1],"Center":[2],"for":[3,11,28,138,154,220],"Biomedical":[4,165],"Ontology":[5],"(NCBO)":[6],"is":[7,210],"developing":[8],"a":[9,70,87,104,133,174,216],"system":[10],"automated,":[12],"ontology-based":[13,222],"access":[14,172],"to":[15,54,73,111,161,173,204,212],"online":[16],"biomedical":[17,178],"resources":[18,46],"(Shah":[19],"NH,":[20],"et":[21],"al.:":[22],"Ontology-driven":[23],"indexing":[24,38,65],"of":[25,44,69,89,99,106,118,122,151,177,198,224],"public":[26],"datasets":[27,49],"translational":[29],"bioinformatics.":[30],"BMC":[31],"Bioinformatics":[32],"2009,":[33],"10(Suppl":[34],"2):S1).":[35],"system's":[37],"workflow":[39],"processes":[40],"the":[41,67,78,97,113,163,182,195,199,213],"text":[42],"metadata":[43],"diverse":[45],"such":[47],"as":[48,215],"from":[50,61,181],"GEO":[51],"and":[52,56,96,109,125,188,201],"ArrayExpress":[53],"annotate":[55],"index":[57],"them":[58],"with":[59],"concepts":[60,76],"appropriate":[62],"ontologies.":[63,190],"This":[64],"requires":[66],"use":[68],"concept-recognition":[71],"tool":[72],"identify":[74],"ontology":[75],"in":[77,116],"resource's":[79],"textual":[80],"metadata.":[81],"In":[82],"this":[83],"paper,":[84],"we":[85,147],"present":[86],"comparison":[88],"two":[90],"concept":[91,114],"recognizers":[92,115],"-":[93],"NLM's":[94],"MetaMap":[95,137],"University":[98],"Michigan's":[100],"Mgrep.":[101,155],"We":[102,156],"utilize":[103],"number":[105],"data":[107],"sources":[108],"dictionaries":[110],"evaluate":[112],"terms":[117,179],"precision,":[119],"recall,":[120],"speed":[121],"execution,":[123],"scalability":[124],"customizability.":[126],"Our":[127],"evaluations":[128],"demonstrate":[129],"that":[130],"Mgrep":[131,160],"has":[132,171],"clear":[134],"edge":[135],"over":[136],"large-scale":[139],"service":[140,170,209,219],"oriented":[141],"applications.":[142],"Based":[143],"on":[144],"our":[145],"analysis":[146],"also":[148,193],"suggest":[149],"areas":[150],"potential":[152],"improvements":[153],"have":[157],"subsequently":[158],"used":[159],"build":[162],"Open":[164],"Annotator":[166,169,192,208],"service.":[167],"large":[175],"dictionary":[176],"derived":[180],"United":[183],"Medical":[184],"Language":[185],"System":[186],"(UMLS)":[187],"NCBO":[189],"leverages":[194],"hierarchical":[196],"structure":[197],"ontologies":[200],"their":[202,225],"mappings":[203],"expand":[205],"annotations.":[206],"available":[211],"community":[214],"REST":[217],"Web":[218],"creating":[221],"annotations":[223],"data.":[226]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":7},{"year":2018,"cited_by_count":12},{"year":2017,"cited_by_count":9},{"year":2016,"cited_by_count":9},{"year":2015,"cited_by_count":10},{"year":2014,"cited_by_count":14},{"year":2013,"cited_by_count":14},{"year":2012,"cited_by_count":14}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
