{"id":"https://openalex.org/W4283318325","doi":"https://doi.org/10.1093/bib/bbac282","title":"BioRED: a rich biomedical relation extraction dataset","display_name":"BioRED: a rich biomedical relation extraction dataset","publication_year":2022,"publication_date":"2022-07-18","ids":{"openalex":"https://openalex.org/W4283318325","doi":"https://doi.org/10.1093/bib/bbac282","pmid":"https://pubmed.ncbi.nlm.nih.gov/35849818"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac282","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac282","pdf_url":"https://academic.oup.com/bib/article-pdf/23/5/bbac282/45936115/bbac282.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["arxiv","crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bib/article-pdf/23/5/bbac282/45936115/bbac282.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100619435","display_name":"Ling Luo","orcid":"https://orcid.org/0000-0002-5141-0259"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"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":"Ling Luo","raw_affiliation_strings":["National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH) , Bethesda, MD 20894, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH) , Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016587469","display_name":"Po\u2010Ting Lai","orcid":"https://orcid.org/0000-0003-2025-318X"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"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":"Po-Ting Lai","raw_affiliation_strings":["National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH) , Bethesda, MD 20894, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH) , Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058918482","display_name":"Chih-Hsuan Wei","orcid":"https://orcid.org/0000-0001-5094-7321"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"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":"Chih-Hsuan Wei","raw_affiliation_strings":["National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH) , Bethesda, MD 20894, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH) , Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001355963","display_name":"Cecilia N. Arighi","orcid":"https://orcid.org/0000-0002-0803-4817"},"institutions":[{"id":"https://openalex.org/I86501945","display_name":"University of Delaware","ror":"https://ror.org/01sbq1a82","country_code":"US","type":"education","lineage":["https://openalex.org/I86501945"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Cecilia N Arighi","raw_affiliation_strings":["University of Delaware , Newark, DE 19716, USA"],"affiliations":[{"raw_affiliation_string":"University of Delaware , Newark, DE 19716, USA","institution_ids":["https://openalex.org/I86501945"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101305795","display_name":"Zhiyong Lu","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"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":true,"raw_author_name":"Zhiyong Lu","raw_affiliation_strings":["National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH) , Bethesda, MD 20894, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH) , Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5101305795"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":11.5518,"has_fulltext":true,"cited_by_count":139,"citation_normalized_percentile":{"value":0.99250694,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"23","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9998000264167786,"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":0.9998000264167786,"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/T10028","display_name":"Topic Modeling","score":0.9986000061035156,"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":0.991599977016449,"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":0.807561457157135},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.7828171849250793},{"id":"https://openalex.org/keywords/relationship-extraction","display_name":"Relationship extraction","score":0.778871476650238},{"id":"https://openalex.org/keywords/named-entity-recognition","display_name":"Named-entity recognition","score":0.7389470934867859},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.7329983711242676},{"id":"https://openalex.org/keywords/biomedicine","display_name":"Biomedicine","score":0.6440346837043762},{"id":"https://openalex.org/keywords/relation","display_name":"Relation (database)","score":0.5514706373214722},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.5257217288017273},{"id":"https://openalex.org/keywords/coreference","display_name":"Coreference","score":0.4993295669555664},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.49790167808532715},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.48427146673202515},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4467848539352417},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.44141528010368347},{"id":"https://openalex.org/keywords/sentence","display_name":"Sentence","score":0.4191226661205292},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.39215952157974243},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.3730415105819702},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.34759464859962463},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.22486844658851624},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.20387262105941772}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.807561457157135},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.7828171849250793},{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.778871476650238},{"id":"https://openalex.org/C2779135771","wikidata":"https://www.wikidata.org/wiki/Q403574","display_name":"Named-entity recognition","level":3,"score":0.7389470934867859},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.7329983711242676},{"id":"https://openalex.org/C66782513","wikidata":"https://www.wikidata.org/wiki/Q864601","display_name":"Biomedicine","level":2,"score":0.6440346837043762},{"id":"https://openalex.org/C25343380","wikidata":"https://www.wikidata.org/wiki/Q277521","display_name":"Relation (database)","level":2,"score":0.5514706373214722},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.5257217288017273},{"id":"https://openalex.org/C28076734","wikidata":"https://www.wikidata.org/wiki/Q63087","display_name":"Coreference","level":3,"score":0.4993295669555664},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.49790167808532715},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.48427146673202515},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4467848539352417},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.44141528010368347},{"id":"https://openalex.org/C2777530160","wikidata":"https://www.wikidata.org/wiki/Q41796","display_name":"Sentence","level":2,"score":0.4191226661205292},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.39215952157974243},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.3730415105819702},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.34759464859962463},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.22486844658851624},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.20387262105941772},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0},{"id":"https://openalex.org/C138268822","wikidata":"https://www.wikidata.org/wiki/Q1051925","display_name":"Resolution (logic)","level":2,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbac282","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac282","pdf_url":"https://academic.oup.com/bib/article-pdf/23/5/bbac282/45936115/bbac282.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35849818","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35849818","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:arXiv.org:2204.04263","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2204.04263","pdf_url":"https://arxiv.org/pdf/2204.04263","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},{"id":"pmh:oai:pubmedcentral.nih.gov:9487702","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9487702","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbac282","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac282","pdf_url":"https://academic.oup.com/bib/article-pdf/23/5/bbac282/45936115/bbac282.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5199999809265137,"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4"}],"awards":[{"id":"https://openalex.org/G6776115363","display_name":null,"funder_award_id":"2U24HG007822-08","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"},{"id":"https://openalex.org/F4320337472","display_name":"National Center for Advancing Translational Sciences","ror":"https://ror.org/04pw6fb54"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4283318325.pdf","grobid_xml":"https://content.openalex.org/works/W4283318325.grobid-xml"},"referenced_works_count":64,"referenced_works":["https://openalex.org/W1034019924","https://openalex.org/W1610821757","https://openalex.org/W1679133234","https://openalex.org/W1850865022","https://openalex.org/W2040298461","https://openalex.org/W2061166439","https://openalex.org/W2064675550","https://openalex.org/W2071879021","https://openalex.org/W2097960255","https://openalex.org/W2100627415","https://openalex.org/W2101727078","https://openalex.org/W2129113459","https://openalex.org/W2131285447","https://openalex.org/W2147880316","https://openalex.org/W2149369282","https://openalex.org/W2155518941","https://openalex.org/W2163107094","https://openalex.org/W2164394614","https://openalex.org/W2166111585","https://openalex.org/W2166474856","https://openalex.org/W2169099542","https://openalex.org/W2169974160","https://openalex.org/W2170189740","https://openalex.org/W2171374484","https://openalex.org/W2335791510","https://openalex.org/W2346452181","https://openalex.org/W2389836769","https://openalex.org/W2414378847","https://openalex.org/W2559034752","https://openalex.org/W2607303097","https://openalex.org/W2752636837","https://openalex.org/W2804425727","https://openalex.org/W2883380892","https://openalex.org/W2904726360","https://openalex.org/W2911489562","https://openalex.org/W2912026815","https://openalex.org/W2912512851","https://openalex.org/W2914431807","https://openalex.org/W2923652028","https://openalex.org/W2946690328","https://openalex.org/W2963020213","https://openalex.org/W2969181382","https://openalex.org/W2979250794","https://openalex.org/W3000469142","https://openalex.org/W3004541293","https://openalex.org/W3023249475","https://openalex.org/W3046375318","https://openalex.org/W3094725485","https://openalex.org/W3120223152","https://openalex.org/W3137481621","https://openalex.org/W3156936474","https://openalex.org/W3183859557","https://openalex.org/W3207190097","https://openalex.org/W4241901867","https://openalex.org/W4256647194","https://openalex.org/W4285651992","https://openalex.org/W4320013820","https://openalex.org/W6637341562","https://openalex.org/W6679124146","https://openalex.org/W6679464483","https://openalex.org/W6682172958","https://openalex.org/W6684211172","https://openalex.org/W6784773856","https://openalex.org/W6791630749"],"related_works":["https://openalex.org/W2152228269","https://openalex.org/W2251332378","https://openalex.org/W2134429551","https://openalex.org/W3004288456","https://openalex.org/W2548624545","https://openalex.org/W3095980030","https://openalex.org/W122651434","https://openalex.org/W4286980122","https://openalex.org/W2339319059","https://openalex.org/W4379379356"],"abstract_inverted_index":{"Automated":[0],"relation":[1,74,87,107],"extraction":[2,75],"(RE)":[3],"from":[4,145],"biomedical":[5,27,73],"literature":[6],"is":[7,174],"critical":[8],"for":[9,26,177,179,213],"many":[10],"downstream":[11],"text":[12],"mining":[13],"applications":[14],"in":[15,51],"both":[16],"research":[17],"and":[18,65,86,126,152,209,219],"real-world":[19],"settings.":[20],"However,":[21],"most":[22],"existing":[23,138,160],"benchmarking":[24,136],"datasets":[25],"RE":[28,49,66,153,181,211],"only":[29],"focus":[30],"on":[31,96,149,166],"relations":[32,187],"of":[33,48,99,133,171,189,205],"a":[34,71,97,111,197],"single":[35],"type":[36],"(e.g.":[37,82,89],"protein-protein":[38],"interactions)":[39],"at":[40,92,225],"the":[41,46,93,131,150,167,180,203],"sentence":[42],"level,":[43,95],"greatly":[44],"limiting":[45],"development":[47,204],"systems":[50,212],"biomedicine.":[52,214],"In":[53],"this":[54],"work,":[55],"we":[56,69,104],"first":[57],"review":[58],"commonly":[59],"used":[60],"named":[61],"entity":[62,80],"recognition":[63],"(NER)":[64],"datasets.":[67],"Then,":[68],"present":[70],"first-of-its-kind":[72],"dataset":[76,199,218],"(BioRED)":[77],"with":[78],"multiple":[79],"types":[81],"gene/protein,":[83],"disease,":[84],"chemical)":[85],"pairs":[88],"gene-disease;":[90],"chemical-chemical)":[91],"document":[94],"set":[98],"600":[100],"PubMed":[101],"abstracts.":[102],"Furthermore,":[103],"label":[105],"each":[106],"as":[108],"describing":[109],"either":[110],"novel":[112,125,186],"finding":[113],"or":[114],"previously":[115],"known":[116],"background":[117,127],"knowledge,":[118],"enabling":[119],"automated":[120],"algorithms":[121],"to":[122],"differentiate":[123],"between":[124],"information.":[128],"We":[129],"assess":[130],"utility":[132],"BioRED":[134,217],"by":[135],"several":[137],"state-of-the-art":[139],"methods,":[140],"including":[141],"Bidirectional":[142],"Encoder":[143],"Representations":[144],"Transformers":[146],"(BERT)-based":[147],"models,":[148],"NER":[151,168],"tasks.":[154],"Our":[155,191],"results":[156],"show":[157],"that":[158,195],"while":[159],"approaches":[161],"can":[162,200],"reach":[163],"high":[164],"performance":[165],"task":[169],"(F-score":[170,188],"89.3%),":[172],"there":[173],"much":[175],"room":[176],"improvement":[178],"task,":[182],"especially":[183],"when":[184],"extracting":[185],"47.7%).":[190],"experiments":[192],"also":[193],"demonstrate":[194],"such":[196],"rich":[198],"successfully":[201],"facilitate":[202],"more":[206],"accurate,":[207],"efficient":[208],"robust":[210],"Availability:":[215],"The":[216],"annotation":[220],"guidelines":[221],"are":[222],"freely":[223],"available":[224],"https://ftp.ncbi.nlm.nih.gov/pub/lu/BioRED/.":[226]},"counts_by_year":[{"year":2026,"cited_by_count":8},{"year":2025,"cited_by_count":40},{"year":2024,"cited_by_count":55},{"year":2023,"cited_by_count":33},{"year":2022,"cited_by_count":3}],"updated_date":"2026-04-03T22:45:19.894376","created_date":"2025-10-10T00:00:00"}
