{"id":"https://openalex.org/W1914733988","doi":"https://doi.org/10.1186/1471-2105-16-s10-s1","title":"Overview of the gene regulation network and the bacteria biotope tasks in BioNLP'13 shared task","display_name":"Overview of the gene regulation network and the bacteria biotope tasks in BioNLP'13 shared task","publication_year":2015,"publication_date":"2015-06-23","ids":{"openalex":"https://openalex.org/W1914733988","doi":"https://doi.org/10.1186/1471-2105-16-s10-s1","mag":"1914733988","pmid":"https://pubmed.ncbi.nlm.nih.gov/26202448"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-16-s10-s1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s10-s1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S10-S1","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/10.1186/1471-2105-16-S10-S1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5083008473","display_name":"Robert Bossy","orcid":"https://orcid.org/0000-0001-6652-9319"},"institutions":[{"id":"https://openalex.org/I1314251682","display_name":"Institut National de la Recherche Agronomique","ror":"https://ror.org/05y503v71","country_code":"MA","type":"facility","lineage":["https://openalex.org/I1314251682"]},{"id":"https://openalex.org/I4210159481","display_name":"Math\u00e9matiques et Informatique Appliqu\u00e9es du G\u00e9nome \u00e0 l'Environnement","ror":"https://ror.org/05qdnns64","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210159481"]}],"countries":["FR","MA"],"is_corresponding":true,"raw_author_name":"Robert Bossy","raw_affiliation_strings":["Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481"]},{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I1314251682"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017504390","display_name":"Wiktoria Golik","orcid":null},"institutions":[{"id":"https://openalex.org/I1314251682","display_name":"Institut National de la Recherche Agronomique","ror":"https://ror.org/05y503v71","country_code":"MA","type":"facility","lineage":["https://openalex.org/I1314251682"]},{"id":"https://openalex.org/I4210159481","display_name":"Math\u00e9matiques et Informatique Appliqu\u00e9es du G\u00e9nome \u00e0 l'Environnement","ror":"https://ror.org/05qdnns64","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210159481"]}],"countries":["FR","MA"],"is_corresponding":false,"raw_author_name":"Wiktoria Golik","raw_affiliation_strings":["Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481"]},{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I1314251682"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044671112","display_name":"Zorana Ratkovic","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I1314251682","display_name":"Institut National de la Recherche Agronomique","ror":"https://ror.org/05y503v71","country_code":"MA","type":"facility","lineage":["https://openalex.org/I1314251682"]},{"id":"https://openalex.org/I4210134114","display_name":"Langues, Textes, Traitements Informatiques, Cognition","ror":"https://ror.org/03ms1y683","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I182627622","https://openalex.org/I2746051580","https://openalex.org/I29607241","https://openalex.org/I4210134114","https://openalex.org/I4210150854"]},{"id":"https://openalex.org/I4210159481","display_name":"Math\u00e9matiques et Informatique Appliqu\u00e9es du G\u00e9nome \u00e0 l'Environnement","ror":"https://ror.org/05qdnns64","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210159481"]}],"countries":["FR","MA"],"is_corresponding":false,"raw_author_name":"Zorana Ratkovic","raw_affiliation_strings":["LaTTiCe UMR 8094 CNRS, 1 Rue Maurice Arnoux, F-92120, Montrouge, France","Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","LaTTiCe UMR 8094 CNRS, 1 Rue Maurice Arnoux, Montrouge, France","Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LaTTiCe UMR 8094 CNRS, 1 Rue Maurice Arnoux, F-92120, Montrouge, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210134114"]},{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481"]},{"raw_affiliation_string":"LaTTiCe UMR 8094 CNRS, 1 Rue Maurice Arnoux, Montrouge, France","institution_ids":["https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I1314251682"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073338227","display_name":"Dialekti Valsamou","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I1314251682","display_name":"Institut National de la Recherche Agronomique","ror":"https://ror.org/05y503v71","country_code":"MA","type":"facility","lineage":["https://openalex.org/I1314251682"]},{"id":"https://openalex.org/I4210115485","display_name":"Laboratoire d'Informatique pour la M\u00e9canique et les Sciences de l'Ing\u00e9nieur","ror":"https://ror.org/01raq4x89","country_code":"FR","type":"facility","lineage":["https://openalex.org/I102197404","https://openalex.org/I1294671590","https://openalex.org/I4210115485","https://openalex.org/I4210159245"]},{"id":"https://openalex.org/I4210159481","display_name":"Math\u00e9matiques et Informatique Appliqu\u00e9es du G\u00e9nome \u00e0 l'Environnement","ror":"https://ror.org/05qdnns64","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210159481"]}],"countries":["FR","MA"],"is_corresponding":false,"raw_author_name":"Dialekti Valsamou","raw_affiliation_strings":["LIMSI UPR3251 CNRS, BP 133, F-91403, Orsay, France","Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","LIMSI UPR3251 CNRS, Orsay, France","Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LIMSI UPR3251 CNRS, BP 133, F-91403, Orsay, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210115485"]},{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481"]},{"raw_affiliation_string":"LIMSI UPR3251 CNRS, Orsay, France","institution_ids":["https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I1314251682"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068002461","display_name":"Philippe Bessi\u00e8res","orcid":null},"institutions":[{"id":"https://openalex.org/I1314251682","display_name":"Institut National de la Recherche Agronomique","ror":"https://ror.org/05y503v71","country_code":"MA","type":"facility","lineage":["https://openalex.org/I1314251682"]},{"id":"https://openalex.org/I4210159481","display_name":"Math\u00e9matiques et Informatique Appliqu\u00e9es du G\u00e9nome \u00e0 l'Environnement","ror":"https://ror.org/05qdnns64","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210159481"]}],"countries":["FR","MA"],"is_corresponding":false,"raw_author_name":"Philippe Bessi\u00e8res","raw_affiliation_strings":["Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481"]},{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I1314251682"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5063577222","display_name":"Claire N\u00e9dellec","orcid":"https://orcid.org/0000-0002-0577-0595"},"institutions":[{"id":"https://openalex.org/I1314251682","display_name":"Institut National de la Recherche Agronomique","ror":"https://ror.org/05y503v71","country_code":"MA","type":"facility","lineage":["https://openalex.org/I1314251682"]},{"id":"https://openalex.org/I4210159481","display_name":"Math\u00e9matiques et Informatique Appliqu\u00e9es du G\u00e9nome \u00e0 l'Environnement","ror":"https://ror.org/05qdnns64","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210159481"]}],"countries":["FR","MA"],"is_corresponding":false,"raw_author_name":"Claire N\u00e9dellec","raw_affiliation_strings":["Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, F-78352, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481"]},{"raw_affiliation_string":"Unit\u00e9 Math\u00e9matique, Informatique et G\u00e9nome MIG INRA UR1077, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I1314251682"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5083008473"],"corresponding_institution_ids":["https://openalex.org/I1314251682","https://openalex.org/I4210159481"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":2.7567,"has_fulltext":true,"cited_by_count":38,"citation_normalized_percentile":{"value":0.9073835,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"16","issue":"S10","first_page":"S1","last_page":"S1"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.8123999834060669,"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":0.8123999834060669,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.16750000417232513,"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":0.002899999963119626,"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":0.7891713380813599},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7609647512435913},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.6870315074920654},{"id":"https://openalex.org/keywords/biotope","display_name":"Biotope","score":0.4461178779602051},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.42930835485458374},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.42301270365715027},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.4184499680995941},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.366721510887146},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.33629316091537476},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3223443031311035},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.21477875113487244},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.1369362771511078},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.10027366876602173},{"id":"https://openalex.org/keywords/systems-engineering","display_name":"Systems engineering","score":0.08868423104286194}],"concepts":[{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.7891713380813599},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7609647512435913},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.6870315074920654},{"id":"https://openalex.org/C112149622","wikidata":"https://www.wikidata.org/wiki/Q175208","display_name":"Biotope","level":3,"score":0.4461178779602051},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.42930835485458374},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.42301270365715027},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.4184499680995941},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.366721510887146},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.33629316091537476},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3223443031311035},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21477875113487244},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.1369362771511078},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.10027366876602173},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","level":1,"score":0.08868423104286194},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0},{"id":"https://openalex.org/C185933670","wikidata":"https://www.wikidata.org/wiki/Q52105","display_name":"Habitat","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004783","descriptor_name":"Environmental Microbiology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004783","descriptor_name":"Environmental Microbiology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004783","descriptor_name":"Environmental Microbiology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","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":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":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-16-s10-s1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s10-s1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S10-S1","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:26202448","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26202448","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:HAL:hal-01222411v1","is_oa":true,"landing_page_url":"https://hal.science/hal-01222411","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.biomedcentral.com/1471-2105/16/S10/S1","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:europepmc.org:3492653","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4511173","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"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-16-s10-s1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s10-s1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S10-S1","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/G1079602649","display_name":null,"funder_award_id":"ANR-10-IDEX-0003-02","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G2899587936","display_name":null,"funder_award_id":"10-IDEX-0003","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G471331628","display_name":null,"funder_award_id":"ANR-10-IDEX","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G619511658","display_name":"Initiative d\u2019excellence de l\u2019Universit\u00e9 de Bordeaux","funder_award_id":"ANR-10-IDEX-0003","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G7240651115","display_name":null,"funder_award_id":"ANR-10","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320323910","display_name":"Institut National de la Recherche Agronomique","ror":"https://ror.org/01x3gbx83"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1914733988.pdf","grobid_xml":"https://content.openalex.org/works/W1914733988.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W25733797","https://openalex.org/W609313809","https://openalex.org/W1990928629","https://openalex.org/W2031647041","https://openalex.org/W2044482436","https://openalex.org/W2045299822","https://openalex.org/W2046620928","https://openalex.org/W2051718393","https://openalex.org/W2058221907","https://openalex.org/W2065807795","https://openalex.org/W2092269560","https://openalex.org/W2101292724","https://openalex.org/W2112404034","https://openalex.org/W2119002042","https://openalex.org/W2121365413","https://openalex.org/W2122402213","https://openalex.org/W2126276057","https://openalex.org/W2128049108","https://openalex.org/W2135411671","https://openalex.org/W2142135462","https://openalex.org/W2143784594","https://openalex.org/W2169542313","https://openalex.org/W2182314358","https://openalex.org/W2183090796","https://openalex.org/W2250204381","https://openalex.org/W2250469303","https://openalex.org/W2250765544","https://openalex.org/W2250930171","https://openalex.org/W2251279337","https://openalex.org/W2251814321","https://openalex.org/W2252057336","https://openalex.org/W2252145363","https://openalex.org/W2252163153","https://openalex.org/W2252186967","https://openalex.org/W2608050011","https://openalex.org/W2612649659","https://openalex.org/W2738143918","https://openalex.org/W2914431807","https://openalex.org/W2916355958","https://openalex.org/W4327534168"],"related_works":["https://openalex.org/W2916147465","https://openalex.org/W1757434866","https://openalex.org/W3004288456","https://openalex.org/W4362496998","https://openalex.org/W2250232417","https://openalex.org/W2184397297","https://openalex.org/W2251431888","https://openalex.org/W1663435917","https://openalex.org/W2107530479","https://openalex.org/W2810079151"],"abstract_inverted_index":{"We":[0],"present":[1],"the":[2,27,66,72,83,93,96,107,115,130,143,161,165,173,177,186,195,202,206,209,217,228,234,254,263,286,305,313,317],"two":[3,196],"Bacteria":[4,18,30,33,38,42,299],"Track":[5,31,43,300],"tasks":[6,22,63,221,301],"of":[7,90,95,117,132,138,148,194,201,208,233,241,262,290],"BioNLP":[8,52,210],"2013":[9,62],"Shared":[10],"Task":[11],"(ST):":[12],"Gene":[13,34],"Regulation":[14],"Network":[15],"(GRN)":[16],"and":[17,37,150,176,184,219,271,288,295,316],"Biotope":[19,39],"(BB).":[20,40],"These":[21],"were":[23,80],"previously":[24],"introduced":[25],"in":[26,58,157,192,230,236,243],"2011":[28,67],"BioNLP-ST":[29,306],"as":[32,125,140,180,182],"Interaction":[35],"(BI)":[36],"The":[41,61,146,198,213,238,260,278,298],"was":[44,126,249],"motivated":[45],"by":[46,69,142,154,164,227],"a":[47,88,102,135,250],"need":[48],"to":[49,100,114,134,159,224],"develop":[50],"specific":[51],"tools":[53],"for":[54,82,216,253,257,285,293],"fine-grained":[55],"event":[56],"extraction":[57,116],"bacteria":[59,118],"biology.":[60,297],"expand":[64],"on":[65],"version":[68],"better":[70],"addressing":[71],"biological":[73],"knowledge":[74],"modeling":[75],"needs.":[76],"New":[77],"evaluation":[78,178,279,311,318],"metrics":[79],"designed":[81],"new":[84,282],"goals.":[85],"Moving":[86],"beyond":[87],"list":[89],"gene":[91,103,109],"interactions,":[92],"goal":[94],"GRN":[97,218],"task":[98],"is":[99,112,152],"build":[101],"regulation":[104],"network":[105],"from":[106],"extracted":[108],"interactions.":[110],"BB'13":[111,128,220,264],"dedicated":[113],"biotopes,":[119,139],"i.e":[120],".":[121],"bacterial":[122],"environmental":[123,296],"information,":[124],"BB'11.":[127],"extends":[129],"typology":[131],"BB'11":[133],"large":[136],"diversity":[137,200],"defined":[141],"OntoBiotope":[144],"ontology.":[145],"detection":[147,274],"entities":[149],"events":[151,242],"tackled":[153],"distinct":[155],"subtasks":[156],"order":[158],"measure":[160],"progress":[162],"achieved":[163],"participant":[166,187,203],"systems":[167,256],"since":[168],"2011.":[169],"This":[170],"paper":[171],"details":[172],"corpus":[174],"preparations":[175],"metrics,":[179],"well":[181],"summarizing":[183],"discussing":[185],"results.":[188],"Five":[189],"groups":[190],"participated":[191],"each":[193],"tasks.":[197,259],"high":[199,239],"methods":[204],"reflects":[205],"dynamism":[207],"research":[211,283],"community.":[212],"highest":[214],"scores":[215],"are":[222],"similar":[223],"those":[225],"obtained":[226],"participants":[229],"2011,":[231],"despite":[232],"increase":[235],"difficulty.":[237],"density":[240],"short":[244],"text":[245],"segments":[246],"(multi-event":[247],"extraction)":[248],"difficult":[251],"issue":[252],"participating":[255],"both":[258],"analysis":[261],"results":[265,280],"also":[266],"shows":[267],"that":[268],"co-reference":[269],"resolution":[270],"entity":[272],"boundary":[273],"remain":[275,302],"major":[276],"hindrances.":[277],"suggest":[281],"directions":[284],"improvement":[287],"development":[289],"Information":[291],"Extraction":[292],"molecular":[294],"publicly":[303],"open;":[304],"website":[307],"provides":[308],"an":[309],"online":[310],"service,":[312],"reference":[314],"corpora":[315],"tools.":[319]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":9},{"year":2015,"cited_by_count":5}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}
