A weighted multipath measurement based on gene ontology for estimating gene products similarity.

ABSTRACT: Many different methods have been proposed for calculating the semantic similarity of term pairs based on gene ontology (GO). Most existing methods are based on information content (IC), and the methods based on IC are used more commonly than those based on the structure of GO. However, most IC-based methods not only fail to handle identical annotations but also show a strong bias toward well-annotated proteins. We propose a new method called weighted multipath measurement (WMM) for estimating the semantic similarity of gene products based on the structure of the GO. We not only considered the contribution of every path between two GO terms but also took the depth of the lowest common ancestors into account. We assigned different weights for different kinds of edges in GO graph. The similar

SUBMITTER: Liu L 

PROVIDER: S-EPMC4253309 | biostudies-literature | 2014 Dec

REPOSITORIES: biostudies-literature