{"id":"https://openalex.org/W2122496897","doi":"https://doi.org/10.1186/1471-2105-13-s11-s2","title":"Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011","display_name":"Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011","publication_year":2012,"publication_date":"2012-06-01","ids":{"openalex":"https://openalex.org/W2122496897","doi":"https://doi.org/10.1186/1471-2105-13-s11-s2","mag":"2122496897","pmid":"https://pubmed.ncbi.nlm.nih.gov/22759456"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-13-s11-s2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-s11-s2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-S11-S2","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/10.1186/1471-2105-13-S11-S2","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5066925770","display_name":"Sampo Pyysalo","orcid":"https://orcid.org/0000-0002-6279-5000"},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Sampo Pyysalo","raw_affiliation_strings":["School of Computer Science, University of Manchester, Manchester, UK. sampo.pyysalo@gmail.com","School of Computer Science, University of Manchester, Manchester, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, University of Manchester, Manchester, UK. sampo.pyysalo@gmail.com","institution_ids":["https://openalex.org/I28407311"]},{"raw_affiliation_string":"School of Computer Science, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007825608","display_name":"Tomoko Ohta","orcid":"https://orcid.org/0000-0002-9418-8352"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Tomoko Ohta","raw_affiliation_strings":["Department of Computer Science, University of Tokyo, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, Tokyo, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071577126","display_name":"Rafa\u0142 Rak","orcid":"https://orcid.org/0000-0001-9780-4205"},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Rafal Rak","raw_affiliation_strings":["National Centre for Text Mining, University of Manchester, Manchester, UK","School of Computer Science, University of Manchester, Manchester, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Centre for Text Mining, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]},{"raw_affiliation_string":"School of Computer Science, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091318366","display_name":"Dan M. Sullivan","orcid":"https://orcid.org/0000-0002-8909-4634"},"institutions":[{"id":"https://openalex.org/I859038795","display_name":"Virginia Tech","ror":"https://ror.org/02smfhw86","country_code":"US","type":"education","lineage":["https://openalex.org/I859038795"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dan Sullivan","raw_affiliation_strings":["Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, USA","institution_ids":["https://openalex.org/I859038795"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108387571","display_name":"Chunhong Mao","orcid":null},"institutions":[{"id":"https://openalex.org/I859038795","display_name":"Virginia Tech","ror":"https://ror.org/02smfhw86","country_code":"US","type":"education","lineage":["https://openalex.org/I859038795"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chunhong Mao","raw_affiliation_strings":["Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, USA","institution_ids":["https://openalex.org/I859038795"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100749807","display_name":"Chunxia Wang","orcid":"https://orcid.org/0000-0003-0051-8144"},"institutions":[{"id":"https://openalex.org/I859038795","display_name":"Virginia Tech","ror":"https://ror.org/02smfhw86","country_code":"US","type":"education","lineage":["https://openalex.org/I859038795"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chunxia Wang","raw_affiliation_strings":["Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, USA","institution_ids":["https://openalex.org/I859038795"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058609337","display_name":"Bruno Sobral","orcid":"https://orcid.org/0000-0003-3908-577X"},"institutions":[{"id":"https://openalex.org/I859038795","display_name":"Virginia Tech","ror":"https://ror.org/02smfhw86","country_code":"US","type":"education","lineage":["https://openalex.org/I859038795"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bruno Sobral","raw_affiliation_strings":["Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, USA","institution_ids":["https://openalex.org/I859038795"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112241147","display_name":"Jun\u2019ichi Tsujii","orcid":null},"institutions":[{"id":"https://openalex.org/I4210113369","display_name":"Microsoft Research Asia (China)","ror":"https://ror.org/0300m5276","country_code":"CN","type":"company","lineage":["https://openalex.org/I1290206253","https://openalex.org/I4210113369"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jun'ichi Tsujii","raw_affiliation_strings":["Microsoft Research Asia, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Microsoft Research Asia, Beijing, China","institution_ids":["https://openalex.org/I4210113369"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077976343","display_name":"Sophia Ananiadou","orcid":"https://orcid.org/0000-0002-4097-9191"},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Sophia Ananiadou","raw_affiliation_strings":["National Centre for Text Mining, University of Manchester, Manchester, UK","School of Computer Science, University of Manchester, Manchester, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Centre for Text Mining, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]},{"raw_affiliation_string":"School of Computer Science, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5066925770"],"corresponding_institution_ids":["https://openalex.org/I28407311"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":5.3992,"has_fulltext":true,"cited_by_count":96,"citation_normalized_percentile":{"value":0.96922177,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"13","issue":"S11","first_page":"S2","last_page":"S2"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9991999864578247,"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":0.9991999864578247,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9962999820709229,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9944000244140625,"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/biomedical-text-mining","display_name":"Biomedical text mining","score":0.7612619996070862},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7593169212341309},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.6872590780258179},{"id":"https://openalex.org/keywords/relationship-extraction","display_name":"Relationship extraction","score":0.519811749458313},{"id":"https://openalex.org/keywords/event","display_name":"Event (particle physics)","score":0.5115140676498413},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.36507683992385864},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.3282940685749054},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.2922002673149109},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.12588971853256226}],"concepts":[{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.7612619996070862},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7593169212341309},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.6872590780258179},{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.519811749458313},{"id":"https://openalex.org/C2779662365","wikidata":"https://www.wikidata.org/wiki/Q5416694","display_name":"Event (particle physics)","level":2,"score":0.5115140676498413},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.36507683992385864},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.3282940685749054},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.2922002673149109},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.12588971853256226},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"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/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D003141","descriptor_name":"Communicable Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003141","descriptor_name":"Communicable Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003141","descriptor_name":"Communicable Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003141","descriptor_name":"Communicable Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003141","descriptor_name":"Communicable Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003141","descriptor_name":"Communicable Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008074","descriptor_name":"Lipoproteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008074","descriptor_name":"Lipoproteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008074","descriptor_name":"Lipoproteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008074","descriptor_name":"Lipoproteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008074","descriptor_name":"Lipoproteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008074","descriptor_name":"Lipoproteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":7,"locations":[{"id":"doi:10.1186/1471-2105-13-s11-s2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-s11-s2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-S11-S2","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:22759456","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22759456","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:doaj.org/article:1ed1f1b2648140deb04f6e96ea358264","is_oa":true,"landing_page_url":"https://doaj.org/article/1ed1f1b2648140deb04f6e96ea358264","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 13, Iss Suppl 11, p S2 (2012)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2387590","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3384257","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:pure.atira.dk:openaire_cris_publications/4c4bb3b9-d8df-4514-b89c-27107f99b14b","is_oa":true,"landing_page_url":"http://www.biomedcentral.com/1471-2105/13/S11/S2","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"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":"Pyysalo, S, Ohta, T, Rak, R, Sullivan, D, Mao, C, Wang, C, Sobral, B, Tsujii, J & Ananiadou, S 2012, 'Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011.', BMC Bioinformatics, vol. 13, pp. S2. https://doi.org/10.1186/1471-2105-13-S11-S2","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pure.atira.dk:publications/4c4bb3b9-d8df-4514-b89c-27107f99b14b","is_oa":false,"landing_page_url":"https://research.manchester.ac.uk/en/publications/4c4bb3b9-d8df-4514-b89c-27107f99b14b","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Pyysalo, S, Ohta, T, Rak, R, Sullivan, D, Mao, C, Wang, C, Sobral, B, Tsujii, J & Ananiadou, S 2012, 'Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011.', BMC Bioinformatics, vol. 13, pp. S2. https://doi.org/10.1186/1471-2105-13-S11-S2","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:vtechworks.lib.vt.edu:10919/18724","is_oa":true,"landing_page_url":"http://hdl.handle.net/10919/18724","pdf_url":null,"source":{"id":"https://openalex.org/S4306400248","display_name":"VTechWorks (Virginia Tech)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I859038795","host_organization_name":"Virginia Tech","host_organization_lineage":["https://openalex.org/I859038795"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Article - Refereed"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-13-s11-s2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-s11-s2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-S11-S2","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/G1686462611","display_name":"Automated Biological Event Extraction from the Literature for Drug Discovery","funder_award_id":"BB/G013160/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G4836905161","display_name":null,"funder_award_id":"HHSN272200900040C","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5081952056","display_name":null,"funder_award_id":"HHSN272200900040C","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G5246379475","display_name":null,"funder_award_id":"BB/G013160/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320306085","display_name":"U.S. Department of Health and Human Services","ror":"https://ror.org/033jnv181"},{"id":"https://openalex.org/F4320320309","display_name":"Joint Information Systems Committee","ror":"https://ror.org/01rv9gx86"},{"id":"https://openalex.org/F4320320912","display_name":"Ministry of Education, Culture, Sports, Science and Technology","ror":"https://ror.org/048rj2z13"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2122496897.pdf","grobid_xml":"https://content.openalex.org/works/W2122496897.grobid-xml"},"referenced_works_count":139,"referenced_works":["https://openalex.org/W8550301","https://openalex.org/W59466250","https://openalex.org/W76749362","https://openalex.org/W97427318","https://openalex.org/W102233799","https://openalex.org/W122290181","https://openalex.org/W136394213","https://openalex.org/W142474614","https://openalex.org/W154351976","https://openalex.org/W165790511","https://openalex.org/W329789229","https://openalex.org/W986082353","https://openalex.org/W1482328859","https://openalex.org/W1483135926","https://openalex.org/W1502957213","https://openalex.org/W1508671669","https://openalex.org/W1508977358","https://openalex.org/W1516184288","https://openalex.org/W1519629411","https://openalex.org/W1524134026","https://openalex.org/W1524281572","https://openalex.org/W1543515964","https://openalex.org/W1553452033","https://openalex.org/W1565521925","https://openalex.org/W1580714437","https://openalex.org/W1607035479","https://openalex.org/W1630427015","https://openalex.org/W1757434866","https://openalex.org/W1777768792","https://openalex.org/W1823934166","https://openalex.org/W1850865022","https://openalex.org/W1877040722","https://openalex.org/W1898214464","https://openalex.org/W1934889228","https://openalex.org/W1952814327","https://openalex.org/W1958077162","https://openalex.org/W1963925644","https://openalex.org/W1967064280","https://openalex.org/W1973568443","https://openalex.org/W1977748891","https://openalex.org/W1982464493","https://openalex.org/W1991903527","https://openalex.org/W1999189021","https://openalex.org/W2003185534","https://openalex.org/W2003601914","https://openalex.org/W2003619089","https://openalex.org/W2018874418","https://openalex.org/W2032566933","https://openalex.org/W2038037963","https://openalex.org/W2044867337","https://openalex.org/W2047782770","https://openalex.org/W2048059249","https://openalex.org/W2048140075","https://openalex.org/W2051406511","https://openalex.org/W2051718393","https://openalex.org/W2056478778","https://openalex.org/W2056567523","https://openalex.org/W2060942759","https://openalex.org/W2069713835","https://openalex.org/W2074640468","https://openalex.org/W2075655036","https://openalex.org/W2078288474","https://openalex.org/W2093509030","https://openalex.org/W2093896423","https://openalex.org/W2096876337","https://openalex.org/W2098162425","https://openalex.org/W2099369363","https://openalex.org/W2100276951","https://openalex.org/W2100627415","https://openalex.org/W2101265630","https://openalex.org/W2101727078","https://openalex.org/W2101819947","https://openalex.org/W2102563561","https://openalex.org/W2103017472","https://openalex.org/W2103320915","https://openalex.org/W2103397879","https://openalex.org/W2104965688","https://openalex.org/W2106197985","https://openalex.org/W2106921868","https://openalex.org/W2107005506","https://openalex.org/W2107093868","https://openalex.org/W2108791029","https://openalex.org/W2110871096","https://openalex.org/W2117770626","https://openalex.org/W2117962961","https://openalex.org/W2121075355","https://openalex.org/W2122496897","https://openalex.org/W2123273303","https://openalex.org/W2123439964","https://openalex.org/W2123939104","https://openalex.org/W2125712079","https://openalex.org/W2126276057","https://openalex.org/W2129113459","https://openalex.org/W2129769245","https://openalex.org/W2131887446","https://openalex.org/W2131924932","https://openalex.org/W2136449704","https://openalex.org/W2139031446","https://openalex.org/W2141119565","https://openalex.org/W2146086501","https://openalex.org/W2149803936","https://openalex.org/W2150123812","https://openalex.org/W2150131767","https://openalex.org/W2152228269","https://openalex.org/W2152398020","https://openalex.org/W2155598164","https://openalex.org/W2159583324","https://openalex.org/W2164666853","https://openalex.org/W2165372747","https://openalex.org/W2166057395","https://openalex.org/W2170953709","https://openalex.org/W2171283231","https://openalex.org/W2171469918","https://openalex.org/W2173988953","https://openalex.org/W2236252949","https://openalex.org/W2250892234","https://openalex.org/W2251450145","https://openalex.org/W2252132714","https://openalex.org/W2252226131","https://openalex.org/W2289614966","https://openalex.org/W2408224326","https://openalex.org/W2600566248","https://openalex.org/W2614322402","https://openalex.org/W2781804600","https://openalex.org/W2801356492","https://openalex.org/W2893578842","https://openalex.org/W2913379451","https://openalex.org/W2914431807","https://openalex.org/W2917915395","https://openalex.org/W2923652028","https://openalex.org/W2989631226","https://openalex.org/W3089319657","https://openalex.org/W3154566661","https://openalex.org/W4211082359","https://openalex.org/W4247198512","https://openalex.org/W4249236394","https://openalex.org/W4250861602","https://openalex.org/W4285719527","https://openalex.org/W4300022934"],"related_works":["https://openalex.org/W2064314529","https://openalex.org/W842810586","https://openalex.org/W4319940250","https://openalex.org/W2352298027","https://openalex.org/W2888033806","https://openalex.org/W2092919065","https://openalex.org/W3138801416","https://openalex.org/W4385572368","https://openalex.org/W2572241437","https://openalex.org/W4379379356"],"abstract_inverted_index":{"We":[0,324,349],"present":[1],"the":[2,12,17,31,45,51,68,78,90,109,127,141,173,181,190,216,230,248,251,259,263,268,271,278,318,321,353,364,389],"preparation,":[3],"resources,":[4,377],"results":[5,312],"and":[6,24,26,30,84,118,177,196,214,223,284,313,341,378,388],"analysis":[7,345],"of":[8,11,44,61,70,81,92,95,111,116,130,172,192,281,291,298,317,320,330,346,355],"three":[9],"tasks":[10,19,41,176,383,390],"BioNLP":[13,52],"Shared":[14,53],"Task":[15,54],"2011:":[16],"main":[18,40,139,175],"on":[20,34,89,123,309,328,363],"Infectious":[21],"Diseases":[22],"(ID)":[23],"Epigenetics":[25],"Post-translational":[27],"Modifications":[28],"(EPI),":[29],"supporting":[32,182,231,376],"task":[33,76,105,143,232],"Entity":[35],"Relations":[36],"(REL).":[37],"The":[38,74,103,184,225,372],"two":[39,58,137,174],"represent":[42],"extensions":[43],"event":[46,193],"extraction":[47,110,147,194,218,245,282,293,356],"model":[48],"introduced":[49],"in":[50,87,101,148,170,180,189,199,229,370],"2009":[55],"(ST'09)":[56],"to":[57,108,126,135,145,154,204,211,220,258,334,361],"new":[59,212],"areas":[60],"biomedical":[62],"scientific":[63],"literature,":[64],"each":[65,171],"motivated":[66],"by":[67,150,164,367],"needs":[69],"specific":[71,326],"biocuration":[72],"tasks.":[73,246],"ID":[75,249],"concerns":[77],"molecular":[79],"mechanisms":[80],"infection,":[82],"virulence":[83],"resistance,":[85],"focusing":[86],"particular":[88,121],"functions":[91],"a":[93,158,288,296],"class":[94],"signaling":[96],"systems":[97,186,357],"that":[98,160,352],"are":[99,384],"ubiquitous":[100],"bacteria.":[102],"EPI":[104,269],"is":[106,236],"dedicated":[107],"statements":[112],"regarding":[113],"chemical":[114],"modifications":[115],"DNA":[117],"proteins,":[119],"with":[120,239],"emphasis":[122,327],"changes":[124],"relating":[125,153,333],"epigenetic":[128],"control":[129],"gene":[131],"expression.":[132],"By":[133],"contrast":[134],"these":[136],"application-oriented":[138],"tasks,":[140],"REL":[142],"seeks":[144],"support":[146],"general":[149],"separating":[151],"challenges":[152,394],"part-of":[155],"relations":[156],"into":[157],"subproblem":[159],"can":[161,358],"be":[162,359],"addressed":[163],"independent":[165],"systems.":[166,323],"Seven":[167],"groups":[168,179],"participated":[169],"four":[178],"task.":[183,266],"participating":[185,322],"indicated":[187],"advances":[188],"capability":[191],"methods":[195],"demonstrated":[197],"generalization":[198],"many":[200],"aspects:":[201],"from":[202,207,215,386],"abstracts":[203],"full":[205,279],"texts,":[206],"previously":[208,310],"considered":[209],"subdomains":[210],"ones,":[213],"ST'09":[217,265],"targets":[219,283],"other":[221,243],"entities":[222],"events.":[224],"highest":[226],"performance":[227,261,299,332,365],"achieved":[228,254,366],"REL,":[233],"58%":[234],"F-score,":[235,256],"broadly":[237],"comparable":[238,257],"levels":[240],"reported":[241,311],"for":[242,277,287,301,381,395],"relation":[244],"For":[247],"task,":[250,270],"highest-performing":[252],"system":[253,331,347,369],"56%":[255],"state-of-the-art":[260],"at":[262],"established":[264],"In":[267,304],"best":[272],"result":[273],"was":[274],"53%":[275],"F-score":[276,286],"set":[280,290],"69%":[285],"reduced":[289],"core":[292],"targets,":[294],"approaching":[295],"level":[297],"sufficient":[300],"user-facing":[302],"applications.":[303],"this":[305],"study,":[306],"we":[307],"extend":[308],"perform":[314],"further":[315,350],"analyses":[316],"outputs":[319],"place":[325],"aspects":[329],"real-world":[335],"applicability,":[336],"considering":[337],"alternate":[338],"evaluation":[339,379],"metrics":[340],"performing":[342],"additional":[343],"manual":[344],"outputs.":[348],"demonstrate":[351],"strengths":[354],"combined":[360],"improve":[362],"any":[368],"isolation.":[371],"manually":[373],"annotated":[374],"corpora,":[375],"tools":[380],"all":[382,396],"available":[385],"http://www.bionlp-st.org":[387],"continue":[391],"as":[392],"open":[393],"interested":[397],"parties.":[398]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":11},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":15},{"year":2014,"cited_by_count":10},{"year":2013,"cited_by_count":12},{"year":2012,"cited_by_count":7}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}
