A text-mining system for extracting metabolic reactions from full-text articles.

ABSTRACT:

Background

Increasingly biological text mining research is focusing on the extraction of complex relationships relevant to the construction and curation of biological networks and pathways. However, one important category of pathway - metabolic pathways - has been largely neglected.Here we present a relatively simple method for extracting metabolic reaction information from free text that scores different permutations of assigned entities (enzymes and metabolites) within a given sentence based on the presence and location of stemmed keywords. This method extends an approach that has proved effective in the context of the extraction of protein-protein interactions.

Results

When evaluated on a set of manually-curated metabolic pathways using standard performance criteria, our

SUBMITTER: Czarnecki J 

PROVIDER: S-EPMC3475109 | biostudies-literature | 2012 Jul

REPOSITORIES: biostudies-literature