{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/bacteria-biotope-at-bionlp-open-shared-tasks","title":"Bacteria Biotope at BioNLP Open Shared Tasks 2019","arxiv_id":null,"date":"2019-11-01","proceeding":"WS 2019 11","authors":["Robert Bossy","Louise Del{\\'e}ger","Estelle Chaix","Mouhamadou Ba","Claire N{\\'e}dellec"],"abstract":"This paper presents the fourth edition of the Bacteria Biotope task at BioNLP Open Shared Tasks 2019. The task focuses on the extraction of the locations and phenotypes of microorganisms from PubMed abstracts and full-text excerpts, and the characterization of these entities with respect to reference knowledge sources (NCBI taxonomy, OntoBiotope ontology). The task is motivated by the importance of the knowledge on biodiversity for fundamental research and applications in microbiology. The paper describes the different proposed subtasks, the corpus characteristics, and the challenge organization. We also provide an analysis of the results obtained by participants, and inspect the evolution of the results since the last edition in 2016.","url_abs":"https://aclanthology.org/D19-5719","url_pdf":"https://aclanthology.org/D19-5719.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[],"tasks":[],"methods":[],"datasets_introduced":[{"slug":"bb","name":"BB","full_name":"Bacteria Biotope"},{"slug":"bb-norm-habitat","name":"BB-norm-habitat","full_name":"Bacteria Biotope -  entity normalization - bacterial habitat"},{"slug":"bb-norm-phenotype","name":"BB-norm-phenotype","full_name":"Bacteria Biotope - entity normalization - phenotype"}],"methods_introduced":[],"results":[],"syntology":{"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}