By Topic

GOMIT: a generic and adaptive annotation algorithm based on gene ontology term distributions

Sign In

Cookies must be enabled to login.After enabling cookies , please use refresh or reload or ctrl+f5 on the browser for the login options.

Formats Non-Member Member
$31 $13
Learn how you can qualify for the best price for this item!
Become an IEEE Member or Subscribe to
IEEE Xplore for exclusive pricing!
close button

puzzle piece

IEEE membership options for an individual and IEEE Xplore subscriptions for an organization offer the most affordable access to essential journal articles, conference papers, standards, eBooks, and eLearning courses.

Learn more about:

IEEE membership

IEEE Xplore subscriptions

3 Author(s)
In-Yee Lee ; Dept. of Electr. Eng., Nat. Taiwan Univ., Taipei, Taiwan ; Jan-Ming Ho ; Ming-Syan Chen

We address the issue of providing highly informative annotations using information revealed by the structured vocabularies of gene ontology (GO). For a target, a set of candidate terms used to infer the target's property is collected and forms a unique distribution on the GO directed acyclic graph (DAG). We propose a generic and adaptive algorithm - GOMIT, which bases on term distributions and GO hierarchical characteristics to assign correct annotations for a target. We establish a quantitative model with parameters that can be framed for optimal performance for different applications. We propose several criteria for evaluating GOMIT's performance, and conducted three experiments involving a) automated functional annotations, b) biological annotations of microarray data clusters and c) protein family GO assignments. In these experiments, we used our proposed criteria to compare GOMIT with other algorithms. Results not only reflect GOMIT's generality and adaptability, but also suggest that GOMIT is better or comparable to other works for assigning correct annotations.

Published in:

Bioinformatics and Bioengineering, 2005. BIBE 2005. Fifth IEEE Symposium on

Date of Conference:

19-21 Oct. 2005