BioCreAtIvE workshop
These workshops have been organized since 2004, with BioCreative VI happening February 2017 and the BioCreative/OHNLP Challenge held in 2018. See Datasets below.
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BioCreative VI CHEMPROT Corpus biocreative.bioinformatics.udel.edu
paper - >2,400 articles annotated with chemical-protein interactions of a variety of relation types. Requires registration.
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BioCreAtIvE V CDR Task Corpus (BC5CDR) biocreative.bioinformatics.udel.edu
paper - 1,500 articles (title and abstract) published in 2014 or later, annotated for 4,409 chemicals, 5,818 diseases and 3116 chemical–disease interactions. Requires registration.
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BioC-BioGRID bioc.sourceforge.net
paper - 120 full text articles annotated for PPI and genetic interactions. Used in the BioCreative V BioC task.
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BioNLP ST 2013 datasets 2013.bionlp-st.org
data from six shared tasks, though some may not be easily accessible; try the CG task set (BioNLP2013CG) for extensive entity and event annotations.
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BioCreAtIvE 1 sourceforge.net
paper - 15,000 sentences (10,000 training and 5,000 test) annotated for protein and gene names. 1,000 full text biomedical research articles annotated with protein names and Gene Ontology terms.
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NIH VideoCasting and Podcasting youtube.com
Biomedical Information Extraction › Journals and Events > Challenges: “These workshops have been organized since 2004, with BioCreative VI happening February 2017 and the BioCreative/OHNLP Challenge held in 2018. See Datasets below.”