Ontologies et Corpus

Corpus and ontologies are distributed under the Creative Commons CC-BY-SA license

• Corpus LLL (Learning Language is Logic): the corpus is the original corpus of the LLL challenge. The goal of the LLL challenge is to evaluate the ability of the participating Information Extraction systems to identify directed interactions and the gene/proteins that interact (the named entities must detected). The on-line evaluation service is still available. Note that the LLL corpus differs from the BioInfer LLL corpus. The Bioinfer corpus is a transformation of the original LLL corpus where the IE task has been made much easier: the relation arguments are given and the relation is not directed.

• Corpus BI : the corpus is part of the Bacteria Interaction task in the BioNLP Shared Task 2011. The goal is to extract complex interaction events from Pubmed references.

• Corpus GRN : the corpus is part of the Gene Regulation Network in Bacteria task in the BioNLP Shared Task 2013. The goal is to extract the full regulation network of Bacillus subtilis sporulation. The on-line evaluation service is still available.

• Corpus BB'11 : the corpus is part of the Bacteria Biotope Task in the BioNLP Shared Task 2011. The goal is (1) to identify the bacteria and their habitat that have to be categorized in seven different types and (2) to extract relations between bacteria and their habitat.

• Corpus BB'13 : the corpus is part of the Bacteria Biotope Task in the BioNLP Shared Task 2011. The goal is (1) to identify the bacteria and their habitat that have to be categorized by the concept of the OntoBiotope ontologies and (2) to extract relations between bacteria and their habitat. The on-line evaluation service is still available.

• Ontologie OntoBiotope : The ontology OntoBiotope describes microorganismes habitats in the form of hierarchy. It contains 1700 concepts in Obo format.

• ATOL Ontology : The Animal Trait Ontology for Livestock describes the characters of livestock animals.