{"id":"https://openalex.org/W2518463060","doi":"https://doi.org/10.18653/v1/w16-3002","title":"Overview of the Bacteria Biotope Task at BioNLP Shared Task 2016","display_name":"Overview of the Bacteria Biotope Task at BioNLP Shared Task 2016","publication_year":2016,"publication_date":"2016-01-01","ids":{"openalex":"https://openalex.org/W2518463060","doi":"https://doi.org/10.18653/v1/w16-3002","mag":"2518463060"},"language":"en","primary_location":{"id":"doi:10.18653/v1/w16-3002","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/w16-3002","pdf_url":"https://www.aclweb.org/anthology/W16-3002.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 4th BioNLP Shared Task Workshop","raw_type":"proceedings-article"},"type":"preprint","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.aclweb.org/anthology/W16-3002.pdf","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5059209944","display_name":"Louise Del\u00e9ger","orcid":"https://orcid.org/0000-0003-1399-4828"},"institutions":[{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"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/I4210099460","https://openalex.org/I4210159481"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Louise Del\u0117ger","raw_affiliation_strings":["MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France"],"affiliations":[{"raw_affiliation_string":"MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481","https://openalex.org/I277688954"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083008473","display_name":"Robert Bossy","orcid":"https://orcid.org/0000-0001-6652-9319"},"institutions":[{"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/I4210099460","https://openalex.org/I4210159481"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Robert Bossy","raw_affiliation_strings":["MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France"],"affiliations":[{"raw_affiliation_string":"MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481","https://openalex.org/I277688954"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018451398","display_name":"Estelle Chaix","orcid":"https://orcid.org/0000-0003-0975-7854"},"institutions":[{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"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/I4210099460","https://openalex.org/I4210159481"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Estelle Chaix","raw_affiliation_strings":["MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France"],"affiliations":[{"raw_affiliation_string":"MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481","https://openalex.org/I277688954"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009068115","display_name":"Mouhamadou Ba","orcid":"https://orcid.org/0000-0001-7233-7831"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"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/I4210099460","https://openalex.org/I4210159481"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Mouhamadou Ba","raw_affiliation_strings":["LIMSI, CNRS, Universit Paris-Saclay, 91405 Orsay, France","MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France"],"affiliations":[{"raw_affiliation_string":"LIMSI, CNRS, Universit Paris-Saclay, 91405 Orsay, France","institution_ids":["https://openalex.org/I277688954","https://openalex.org/I4210115485","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481","https://openalex.org/I277688954"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006669344","display_name":"Arnaud Ferr\u00e9","orcid":"https://orcid.org/0000-0001-9115-8222"},"institutions":[{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"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/I4210099460","https://openalex.org/I4210159481"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Arnaud Ferr\u0117","raw_affiliation_strings":["MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France"],"affiliations":[{"raw_affiliation_string":"MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481","https://openalex.org/I277688954"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068002461","display_name":"Philippe Bessi\u00e8res","orcid":null},"institutions":[{"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/I4210099460","https://openalex.org/I4210159481"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Philippe Bessi\u00e8res","raw_affiliation_strings":["MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France"],"affiliations":[{"raw_affiliation_string":"MaIAGE, INRA, Universit Paris-Saclay, 78350 Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481","https://openalex.org/I277688954"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5063577222","display_name":"Claire N\u00e9dellec","orcid":"https://orcid.org/0000-0002-0577-0595"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Claire N\u0117dellec","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5059209944"],"corresponding_institution_ids":["https://openalex.org/I277688954","https://openalex.org/I4210159481"],"apc_list":null,"apc_paid":null,"fwci":10.4585,"has_fulltext":true,"cited_by_count":100,"citation_normalized_percentile":{"value":0.98654241,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":100},"biblio":{"volume":null,"issue":null,"first_page":"12","last_page":"22"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9721999764442444,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9620000123977661,"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":0.7688306570053101},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.7589319944381714},{"id":"https://openalex.org/keywords/biotope","display_name":"Biotope","score":0.7496095895767212},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.6457624435424805},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.2706761658191681},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.11226978898048401},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.10334333777427673},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.07951867580413818},{"id":"https://openalex.org/keywords/systems-engineering","display_name":"Systems engineering","score":0.05575522780418396},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.053202033042907715}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7688306570053101},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.7589319944381714},{"id":"https://openalex.org/C112149622","wikidata":"https://www.wikidata.org/wiki/Q175208","display_name":"Biotope","level":3,"score":0.7496095895767212},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.6457624435424805},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.2706761658191681},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.11226978898048401},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.10334333777427673},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.07951867580413818},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","level":1,"score":0.05575522780418396},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.053202033042907715},{"id":"https://openalex.org/C185933670","wikidata":"https://www.wikidata.org/wiki/Q52105","display_name":"Habitat","level":2,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.18653/v1/w16-3002","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/w16-3002","pdf_url":"https://www.aclweb.org/anthology/W16-3002.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 4th BioNLP Shared Task Workshop","raw_type":"proceedings-article"},{"id":"pmh:oai:HAL:hal-01455857v1","is_oa":false,"landing_page_url":"https://hal.science/hal-01455857","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://archives-publications.inrae.fr/385970.pdf","raw_type":"Conference papers"}],"best_oa_location":{"id":"doi:10.18653/v1/w16-3002","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/w16-3002","pdf_url":"https://www.aclweb.org/anthology/W16-3002.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 4th BioNLP Shared Task Workshop","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2518463060.pdf","grobid_xml":"https://content.openalex.org/works/W2518463060.grobid-xml"},"referenced_works_count":21,"referenced_works":["https://openalex.org/W76749362","https://openalex.org/W79139011","https://openalex.org/W609313809","https://openalex.org/W1547034848","https://openalex.org/W1914733988","https://openalex.org/W1999590523","https://openalex.org/W2031647041","https://openalex.org/W2032566933","https://openalex.org/W2077991901","https://openalex.org/W2096765155","https://openalex.org/W2097877306","https://openalex.org/W2127304021","https://openalex.org/W2128049108","https://openalex.org/W2128386749","https://openalex.org/W2135411671","https://openalex.org/W2142678031","https://openalex.org/W2182314358","https://openalex.org/W2252145363","https://openalex.org/W2515729969","https://openalex.org/W2916355958","https://openalex.org/W3209971456"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2427798806","https://openalex.org/W1965419689","https://openalex.org/W311807596","https://openalex.org/W2916147465","https://openalex.org/W2518463060","https://openalex.org/W1757434866","https://openalex.org/W2250232417","https://openalex.org/W2251431888","https://openalex.org/W2107530479"],"abstract_inverted_index":{"This":[0],"paper":[1,79],"presents":[2],"the":[3,8,15,25,28,40,63,66,81,85,88,92,101],"Bacteria":[4],"Biotope":[5],"task":[6,22,59],"of":[7,27,34,42,65,100],"BioNLP":[9],"Shared":[10],"Task":[11],"2016,":[12],"which":[13],"follows":[14],"previous":[16],"2013":[17],"and":[18,31,39,44,74,91],"2011":[19],"editions.":[20],"The":[21,58,78],"focuses":[23],"on":[24,68],"extraction":[26],"locations":[29],"(biotopes":[30],"geographical":[32],"places)":[33],"bacteria":[35,43,69],"from":[36],"PubMed":[37],"abstracts":[38],"characterization":[41],"their":[45],"associated":[46],"habitats":[47,70],"with":[48],"respect":[49],"to":[50],"reference":[51],"knowledge":[52,67],"sources":[53],"(NCBI":[54],"taxonomy,":[55],"OntoBiotope":[56],"ontology).":[57],"is":[60],"motivated":[61],"by":[62,104],"importance":[64],"for":[71],"fundamental":[72],"research":[73],"applications":[75],"in":[76],"microbiology.":[77],"describes":[80],"different":[82],"proposed":[83],"subtasks,":[84],"corpus":[86],"characteristics,":[87],"challenge":[89],"organization,":[90],"evaluation":[93],"metrics.":[94],"We":[95],"also":[96],"provide":[97],"an":[98],"analysis":[99],"results":[102],"obtained":[103],"participants.":[105]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":10},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":17},{"year":2019,"cited_by_count":34},{"year":2018,"cited_by_count":11},{"year":2017,"cited_by_count":9},{"year":2016,"cited_by_count":6}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
