{"id":"https://openalex.org/W2564387948","doi":"https://doi.org/10.1093/database/baw161","title":"Pressing needs of biomedical text mining in biocuration and beyond: opportunities and challenges","display_name":"Pressing needs of biomedical text mining in biocuration and beyond: opportunities and challenges","publication_year":2016,"publication_date":"2016-01-01","ids":{"openalex":"https://openalex.org/W2564387948","doi":"https://doi.org/10.1093/database/baw161","mag":"2564387948","pmid":"https://pubmed.ncbi.nlm.nih.gov/28025348"},"language":"en","primary_location":{"id":"doi:10.1093/database/baw161","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baw161","pdf_url":null,"source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/database/baw161","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5036103922","display_name":"Ayush Singhal","orcid":"https://orcid.org/0000-0002-2378-3795"},"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"]},{"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"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ayush Singhal","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA","National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA,"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA,","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044947146","display_name":"Robert Leaman","orcid":"https://orcid.org/0000-0003-3296-5766"},"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"]},{"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"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Robert Leaman","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA","National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA,"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA,","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086348189","display_name":"Natalie L. Catlett","orcid":null},"institutions":[{"id":"https://openalex.org/I4210160988","display_name":"Selventa (United States)","ror":"https://ror.org/051d2r706","country_code":"US","type":"company","lineage":["https://openalex.org/I4210160988"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Natalie Catlett","raw_affiliation_strings":["Selventa, Cambridge, MA 02140, USA","Selventa, Cambridge, MA 02140, USA,"],"affiliations":[{"raw_affiliation_string":"Selventa, Cambridge, MA 02140, USA","institution_ids":[]},{"raw_affiliation_string":"Selventa, Cambridge, MA 02140, USA,","institution_ids":["https://openalex.org/I4210160988"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020988596","display_name":"Thomas Lemberger","orcid":"https://orcid.org/0000-0002-2499-4025"},"institutions":[{"id":"https://openalex.org/I1303691731","display_name":"European Molecular Biology Organization","ror":"https://ror.org/04wfr2810","country_code":"DE","type":"nonprofit","lineage":["https://openalex.org/I1303691731"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Thomas Lemberger","raw_affiliation_strings":["EMBO, Meyerhofstrasse 1, Heidelberg 69117, Germany","EMBO, Meyerhofstrasse 1, Heidelberg 69117, Germany,"],"affiliations":[{"raw_affiliation_string":"EMBO, Meyerhofstrasse 1, Heidelberg 69117, Germany","institution_ids":[]},{"raw_affiliation_string":"EMBO, Meyerhofstrasse 1, Heidelberg 69117, Germany,","institution_ids":["https://openalex.org/I1303691731"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055576279","display_name":"Johanna McEntyre","orcid":"https://orcid.org/0000-0002-1611-6935"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Johanna McEntyre","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK,"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK,","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082160609","display_name":"Shawn W. Polson","orcid":"https://orcid.org/0000-0002-3398-6932"},"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"]},{"id":"https://openalex.org/I1312106833","display_name":"Biotechnology Institute","ror":"https://ror.org/00s1jty20","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1312106833"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shawn Polson","raw_affiliation_strings":["Center for Bioinformatics and Computational Biology and Department of Computer and Information Sciences, Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA","Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA and","Center for Bioinformatics and Computational Biology and Department of Computer and Information Sciences,"],"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics and Computational Biology and Department of Computer and Information Sciences, Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA","institution_ids":[]},{"raw_affiliation_string":"Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA and","institution_ids":["https://openalex.org/I86501945","https://openalex.org/I1312106833"]},{"raw_affiliation_string":"Center for Bioinformatics and Computational Biology and Department of Computer and Information Sciences,","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065825020","display_name":"Ioannis X\u00e9narios","orcid":"https://orcid.org/0000-0002-3413-6841"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Ioannis Xenarios","raw_affiliation_strings":["SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"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"]},{"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/I1312106833","display_name":"Biotechnology Institute","ror":"https://ror.org/00s1jty20","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1312106833"]},{"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":"Cecilia Arighi","raw_affiliation_strings":["Center for Bioinformatics and Computational Biology and Department of Computer and Information Sciences, Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA","National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA zhiyong.lu@nih.gov","Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA and","National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA,","Center for Bioinformatics and Computational Biology and Department of Computer and Information Sciences,"],"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics and Computational Biology and Department of Computer and Information Sciences, Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA","institution_ids":[]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA zhiyong.lu@nih.gov","institution_ids":[]},{"raw_affiliation_string":"Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA and","institution_ids":["https://openalex.org/I86501945","https://openalex.org/I1312106833"]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA,","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]},{"raw_affiliation_string":"Center for Bioinformatics and Computational Biology and Department of Computer and Information Sciences,","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083081872","display_name":"Zhiyong Lu","orcid":"https://orcid.org/0000-0001-9998-916X"},"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"]},{"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"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhiyong Lu","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA zhiyong.lu@nih.gov","National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA,"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA zhiyong.lu@nih.gov","institution_ids":[]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA,","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5036103922"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":3.3122,"has_fulltext":false,"cited_by_count":47,"citation_normalized_percentile":{"value":0.92532576,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":99},"biblio":{"volume":"2016","issue":null,"first_page":"baw161","last_page":"baw161"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9997000098228455,"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":0.9997000098228455,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.9423999786376953,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9291999936103821,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6909101009368896},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.6329010128974915},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.6105897426605225},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.5801766514778137},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.5320077538490295},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.5173653960227966},{"id":"https://openalex.org/keywords/data-curation","display_name":"Data curation","score":0.44377249479293823},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.4401341378688812},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.40683645009994507},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.33904948830604553},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.20660454034805298}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6909101009368896},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.6329010128974915},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.6105897426605225},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.5801766514778137},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.5320077538490295},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.5173653960227966},{"id":"https://openalex.org/C91632574","wikidata":"https://www.wikidata.org/wiki/Q15088675","display_name":"Data curation","level":2,"score":0.44377249479293823},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.4401341378688812},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.40683645009994507},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.33904948830604553},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.20660454034805298},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/database/baw161","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baw161","pdf_url":null,"source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:28025348","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28025348","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":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:open-archive.highwire.org:databa:2016/0/baw161","is_oa":false,"landing_page_url":"http://database.oxfordjournals.org/cgi/content/short/2016/0/baw161","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"},{"id":"pmh:oai:osti.gov:1360097","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1360097","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"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":null},{"id":"pmh:oai:pubmedcentral.nih.gov:5199160","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5199160","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database (Oxford)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/baw161","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baw161","pdf_url":null,"source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G201069090","display_name":"Collaborative Research: ABI Development:  VIROME, bioinformatics cyberinfrastructure for the next wave of scientific advancements in microbiome research","funder_award_id":"1356374","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3617311256","display_name":null,"funder_award_id":"P20-GM103446","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6296234239","display_name":null,"funder_award_id":"M1096","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7089253139","display_name":null,"funder_award_id":"GM103446","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8594253470","display_name":null,"funder_award_id":"DBI-1356374","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"},{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320315885","display_name":"Australian Government","ror":"https://ror.org/0314h5y94"},{"id":"https://openalex.org/F4320320869","display_name":"Robert Bosch Stiftung","ror":"https://ror.org/012kqkf58"},{"id":"https://openalex.org/F4320327577","display_name":"SystemsX.ch","ror":"https://ror.org/02s09gf16"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320335238","display_name":"Staatssekretariat f\u00fcr Bildung, Forschung und Innovation","ror":"https://ror.org/01kw63t33"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":61,"referenced_works":["https://openalex.org/W183866246","https://openalex.org/W1938650849","https://openalex.org/W1964670939","https://openalex.org/W1982265452","https://openalex.org/W1987522618","https://openalex.org/W1989842786","https://openalex.org/W2010347687","https://openalex.org/W2017285544","https://openalex.org/W2018686814","https://openalex.org/W2020357318","https://openalex.org/W2022484638","https://openalex.org/W2035356097","https://openalex.org/W2036282244","https://openalex.org/W2074425838","https://openalex.org/W2074640468","https://openalex.org/W2075322787","https://openalex.org/W2092001531","https://openalex.org/W2094344445","https://openalex.org/W2094726706","https://openalex.org/W2096525273","https://openalex.org/W2096797897","https://openalex.org/W2096951189","https://openalex.org/W2097877306","https://openalex.org/W2100627415","https://openalex.org/W2100644624","https://openalex.org/W2104035127","https://openalex.org/W2104148262","https://openalex.org/W2109801072","https://openalex.org/W2112012991","https://openalex.org/W2112227057","https://openalex.org/W2118582067","https://openalex.org/W2120890012","https://openalex.org/W2121652122","https://openalex.org/W2121893605","https://openalex.org/W2123097904","https://openalex.org/W2123579157","https://openalex.org/W2127546476","https://openalex.org/W2128769815","https://openalex.org/W2129113459","https://openalex.org/W2145383760","https://openalex.org/W2146486983","https://openalex.org/W2146679517","https://openalex.org/W2147154106","https://openalex.org/W2150850055","https://openalex.org/W2151375739","https://openalex.org/W2152143870","https://openalex.org/W2159070430","https://openalex.org/W2163411228","https://openalex.org/W2164394614","https://openalex.org/W2166240318","https://openalex.org/W2253345706","https://openalex.org/W2275721306","https://openalex.org/W2284907005","https://openalex.org/W2414378847","https://openalex.org/W2435667220","https://openalex.org/W2516150684","https://openalex.org/W2594814704","https://openalex.org/W2739999456","https://openalex.org/W2952465807","https://openalex.org/W4234303025","https://openalex.org/W4237629094"],"related_works":["https://openalex.org/W3185751515","https://openalex.org/W1479703980","https://openalex.org/W2749535755","https://openalex.org/W1553529581","https://openalex.org/W4206039273","https://openalex.org/W4232119327","https://openalex.org/W2911489562","https://openalex.org/W2134429551","https://openalex.org/W3183808544","https://openalex.org/W2188854577"],"abstract_inverted_index":{"Text":[0],"mining":[1,103],"in":[2,27,174,190],"the":[3,48,94,99,111,125,129,151,159,170,179,183,194],"biomedical":[4,29],"sciences":[5],"is":[6],"rapidly":[7],"transitioning":[8],"from":[9,105],"small-scale":[10],"evaluation":[11],"to":[12,61,70,98,135,192],"large-scale":[13],"application.":[14],"In":[15],"this":[16,175],"article,":[17],"we":[18,205],"argue":[19],"that":[20,76,138,167],"text-mining":[21,68,117,152,187,199,211],"technologies":[22],"have":[23,198],"become":[24],"essential":[25],"tools":[26],"real-world":[28],"research.":[30],"We":[31,53,74,145,165],"describe":[32,147],"four":[33],"large":[34],"scale":[35],"applications":[36,57],"of":[37,102,107,114,131,162,186],"text":[38,136],"mining,":[39],"as":[40,58],"showcased":[41],"during":[42,143],"a":[43,80,155],"recent":[44],"panel":[45],"discussion":[46],"at":[47],"BioCreative":[49,160],"V":[50],"Challenge":[51],"Workshop.":[52],"draw":[54],"on":[55,128,158,169],"these":[56],"case":[59],"studies":[60],"characterize":[62],"common":[63,86],"requirements":[64],"for":[65,202,207],"successfully":[66],"applying":[67,132],"techniques":[69],"practical":[71,203],"biocuration":[72],"needs.":[73],"note":[75],"system":[77],"'accuracy'":[78],"remains":[79],"challenge":[81,163],"and":[82,88,123,197,213,219],"identify":[83],"several":[84],"additional":[85],"difficulties":[87],"potential":[89],"research":[90],"directions":[91],"including":[92,216],"(i)":[93],"'scalability'":[95],"issue":[96,113,127],"due":[97],"increasing":[100],"need":[101],"information":[104],"millions":[106],"full-text":[108],"articles,":[109],"(ii)":[110],"'interoperability'":[112],"integrating":[115],"various":[116,214],"systems":[118,134,200],"into":[119],"existing":[120],"curation":[121,195],"workflows":[122],"(iii)":[124],"'reusability'":[126],"difficulty":[130],"trained":[133],"genres":[137],"are":[139],"not":[140],"seen":[141],"previously":[142],"development.":[144],"then":[146],"related":[148],"efforts":[149],"within":[150],"community,":[153],"with":[154],"special":[156],"focus":[157],"series":[161],"workshops.":[164],"believe":[166],"focusing":[168],"near-term":[171],"challenges":[172],"identified":[173],"work":[176],"will":[177],"amplify":[178],"opportunities":[180],"afforded":[181],"by":[182],"continued":[184],"adoption":[185],"tools.":[188],"Finally,":[189],"order":[191],"sustain":[193],"ecosystem":[196],"adopted":[201],"benefits,":[204],"call":[206],"increased":[208],"collaboration":[209],"between":[210],"researchers":[212],"stakeholders,":[215],"researchers,":[217],"publishers":[218],"biocurators.":[220]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":8},{"year":2019,"cited_by_count":7},{"year":2018,"cited_by_count":8},{"year":2017,"cited_by_count":4}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
