{"id":"https://openalex.org/W2166337977","doi":"https://doi.org/10.1016/s1532-0464(03)00032-7","title":"Automatically identifying gene/protein terms in MEDLINE abstracts","display_name":"Automatically identifying gene/protein terms in MEDLINE abstracts","publication_year":2002,"publication_date":"2002-10-01","ids":{"openalex":"https://openalex.org/W2166337977","doi":"https://doi.org/10.1016/s1532-0464(03)00032-7","mag":"2166337977","pmid":"https://pubmed.ncbi.nlm.nih.gov/12968781"},"language":"en","primary_location":{"id":"doi:10.1016/s1532-0464(03)00032-7","is_oa":false,"landing_page_url":"https://doi.org/10.1016/s1532-0464(03)00032-7","pdf_url":null,"source":{"id":"https://openalex.org/S11622463","display_name":"Journal of Biomedical Informatics","issn_l":"1532-0464","issn":["1532-0464","1532-0480"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomedical Informatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.7916/d8w09gxd","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017601806","display_name":"Hong Yu","orcid":null},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Hong Yu","raw_affiliation_strings":["Department of Computer Science, Columbia University, 1214 Amsterdam Avenue, New York, NY 10027, USA. Hongyu@cs.columbia.edu","Department of Computer Science, Columbia University, 1214 Amsterdam Avenue, New York, NY 10027, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Columbia University, 1214 Amsterdam Avenue, New York, NY 10027, USA. Hongyu@cs.columbia.edu","institution_ids":["https://openalex.org/I78577930"]},{"raw_affiliation_string":"Department of Computer Science, Columbia University, 1214 Amsterdam Avenue, New York, NY 10027, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008449211","display_name":"Vasileios Hatzivassiloglou","orcid":null},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Vasileios Hatzivassiloglou","raw_affiliation_strings":["Department of Computer Science, Columbia University, 1214 Amsterdam Avenue, New York, NY 10027, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Columbia University, 1214 Amsterdam Avenue, New York, NY 10027, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004739989","display_name":"Andrey Rzhetsky","orcid":"https://orcid.org/0000-0001-6959-7405"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrey Rzhetsky","raw_affiliation_strings":["Department of Medical Informatics, Columbia Genome Center, Columbia University, 622 W, 168th St., VC-5, New York, NY 10032, USA"],"affiliations":[{"raw_affiliation_string":"Department of Medical Informatics, Columbia Genome Center, Columbia University, 622 W, 168th St., VC-5, New York, NY 10032, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5111895206","display_name":"W. John Wilbur","orcid":null},"institutions":[{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"W John Wilbur","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, NIH, Building 38A, Room 5S506, 8600 Rockville Pike, Bethesda, MD 20894, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, NIH, Building 38A, Room 5S506, 8600 Rockville Pike, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5017601806"],"corresponding_institution_ids":["https://openalex.org/I78577930"],"apc_list":{"value":2980,"currency":"USD","value_usd":2980},"apc_paid":null,"fwci":1.2603,"has_fulltext":false,"cited_by_count":44,"citation_normalized_percentile":{"value":0.79254992,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"35","issue":"5-6","first_page":"322","last_page":"330"},"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/T10181","display_name":"Natural Language Processing Techniques","score":0.993399977684021,"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/T10028","display_name":"Topic Modeling","score":0.9898999929428101,"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":0.6937289237976074},{"id":"https://openalex.org/keywords/gene-nomenclature","display_name":"Gene nomenclature","score":0.6559461951255798},{"id":"https://openalex.org/keywords/lexicon","display_name":"Lexicon","score":0.5915207266807556},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5652710795402527},{"id":"https://openalex.org/keywords/medline","display_name":"MEDLINE","score":0.5631492137908936},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.4484621286392212},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.43494710326194763},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.417949914932251},{"id":"https://openalex.org/keywords/genbank","display_name":"GenBank","score":0.4177195727825165},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3911694884300232},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3547576069831848},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.35433948040008545},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.17124027013778687},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.15275004506111145},{"id":"https://openalex.org/keywords/nomenclature","display_name":"Nomenclature","score":0.09760874509811401},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.07854911684989929}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6937289237976074},{"id":"https://openalex.org/C62177273","wikidata":"https://www.wikidata.org/wiki/Q5531556","display_name":"Gene nomenclature","level":4,"score":0.6559461951255798},{"id":"https://openalex.org/C2778121359","wikidata":"https://www.wikidata.org/wiki/Q8096","display_name":"Lexicon","level":2,"score":0.5915207266807556},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5652710795402527},{"id":"https://openalex.org/C2779473830","wikidata":"https://www.wikidata.org/wiki/Q1540899","display_name":"MEDLINE","level":2,"score":0.5631492137908936},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.4484621286392212},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.43494710326194763},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.417949914932251},{"id":"https://openalex.org/C79029880","wikidata":"https://www.wikidata.org/wiki/Q901755","display_name":"GenBank","level":3,"score":0.4177195727825165},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3911694884300232},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3547576069831848},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.35433948040008545},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.17124027013778687},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.15275004506111145},{"id":"https://openalex.org/C514705636","wikidata":"https://www.wikidata.org/wiki/Q863247","display_name":"Nomenclature","level":3,"score":0.09760874509811401},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.07854911684989929},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C58642233","wikidata":"https://www.wikidata.org/wiki/Q8269924","display_name":"Taxonomy (biology)","level":2,"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":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005796","descriptor_name":"Genes","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":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016239","descriptor_name":"MEDLINE","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016239","descriptor_name":"MEDLINE","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016239","descriptor_name":"MEDLINE","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1016/s1532-0464(03)00032-7","is_oa":false,"landing_page_url":"https://doi.org/10.1016/s1532-0464(03)00032-7","pdf_url":null,"source":{"id":"https://openalex.org/S11622463","display_name":"Journal of Biomedical Informatics","issn_l":"1532-0464","issn":["1532-0464","1532-0480"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomedical Informatics","raw_type":"journal-article"},{"id":"pmid:12968781","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/12968781","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":"Journal of biomedical informatics","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.60.5579","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.60.5579","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.cs.columbia.edu/%7Evh/Papers/2002/AbbreviationRules-JBI.pdf","raw_type":"text"},{"id":"pmh:oai:academiccommons.columbia.edu:10.7916/D8W09GXD","is_oa":false,"landing_page_url":"https://doi.org/10.7916/D8W09GXD","pdf_url":null,"source":{"id":"https://openalex.org/S4306402601","display_name":"Columbia Academic Commons (Columbia University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I78577930","host_organization_name":"Columbia University","host_organization_lineage":["https://openalex.org/I78577930"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Articles"},{"id":"doi:10.7916/d8w09gxd","is_oa":true,"landing_page_url":"https://doi.org/10.7916/d8w09gxd","pdf_url":null,"source":{"id":"https://openalex.org/S4306402601","display_name":"Columbia Academic Commons (Columbia University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I78577930","host_organization_name":"Columbia University","host_organization_lineage":["https://openalex.org/I78577930"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.7916/d8w09gxd","is_oa":true,"landing_page_url":"https://doi.org/10.7916/d8w09gxd","pdf_url":null,"source":{"id":"https://openalex.org/S4306402601","display_name":"Columbia Academic Commons (Columbia University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I78577930","host_organization_name":"Columbia University","host_organization_lineage":["https://openalex.org/I78577930"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","score":0.8299999833106995,"display_name":"Quality Education"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":38,"referenced_works":["https://openalex.org/W90158706","https://openalex.org/W178298440","https://openalex.org/W1525742988","https://openalex.org/W1584778245","https://openalex.org/W1592053870","https://openalex.org/W1601109742","https://openalex.org/W1759990168","https://openalex.org/W1977978118","https://openalex.org/W1981933378","https://openalex.org/W1989534258","https://openalex.org/W1991154713","https://openalex.org/W1991570251","https://openalex.org/W2032898843","https://openalex.org/W2037500862","https://openalex.org/W2050006154","https://openalex.org/W2083913609","https://openalex.org/W2093723065","https://openalex.org/W2095800292","https://openalex.org/W2096146054","https://openalex.org/W2096285464","https://openalex.org/W2117400858","https://openalex.org/W2123619788","https://openalex.org/W2125236358","https://openalex.org/W2130260860","https://openalex.org/W2134769633","https://openalex.org/W2140107851","https://openalex.org/W2142574443","https://openalex.org/W2144001613","https://openalex.org/W2152429541","https://openalex.org/W2152698860","https://openalex.org/W2158505321","https://openalex.org/W2162462731","https://openalex.org/W3147159644","https://openalex.org/W6635275303","https://openalex.org/W6638118764","https://openalex.org/W6645995274","https://openalex.org/W6677437730","https://openalex.org/W6682425626"],"related_works":["https://openalex.org/W2509269596","https://openalex.org/W2384888906","https://openalex.org/W2018803240","https://openalex.org/W2058354295","https://openalex.org/W3027466640","https://openalex.org/W1529136209","https://openalex.org/W4200090029","https://openalex.org/W2072771339","https://openalex.org/W2921012827","https://openalex.org/W2772272070"],"abstract_inverted_index":null,"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
