A method for integrating and ranking the evidence for biochemical pathways by mining reactions from text.

ABSTRACT:

Motivation

To create, verify and maintain pathway models, curators must discover and assess knowledge distributed over the vast body of biological literature. Methods supporting these tasks must understand both the pathway model representations and the natural language in the literature. These methods should identify and order documents by relevance to any given pathway reaction. No existing system has addressed all aspects of this challenge.

Method

We present novel methods for associating pathway model reactions with relevant publications. Our approach extracts the reactions directly from the models and then turns them into queries for three text mining-based MEDLINE literature search systems. These queries are executed, and the resulting documents are combined and ranked a

SUBMITTER: Miwa M 

PROVIDER: S-EPMC3694679 | biostudies-literature | 2013 Jul

REPOSITORIES: biostudies-literature