Evaluation of gene ontology semantic similarities on protein interaction datasets Online publication date: Sat, 06-Sep-2014
by Gang Chen; Jianhuang Li; Jianxin Wang
International Journal of Bioinformatics Research and Applications (IJBRA), Vol. 9, No. 2, 2013
Abstract: Background - Because of the importance of protein interactions in organisms, researchers are interested in the functional similarity between interacted proteins. Gene ontology semantic similarity provides a novel way to measure the similarity between gene products, including proteins. Various methods have been proposed for calculating the semantic similarity between GO terms and gene products, therefore evaluating these measurements on protein interaction data is helpful and necessary for related studies. Results - 35 different definitions of GO semantic similarity are evaluated by receiver operating characteristic analysis, information gain and Chi-square on core PPIs of four organisms, human, rat, mouse and fruit fly, from DIP database. Conclusions - For the identification of interacted proteins, CoutoEnriched is the best definition of the similarity between GO terms, and there is no significant difference between most methods calculating the semantic similarity between two sets of GO terms.
Existing subscribers:
Go to Inderscience Online Journals to access the Full Text of this article.
If you are not a subscriber and you just want to read the full contents of this article, buy online access here.Complimentary Subscribers, Editors or Members of the Editorial Board of the International Journal of Bioinformatics Research and Applications (IJBRA):
Login with your Inderscience username and password:
Want to subscribe?
A subscription gives you complete access to all articles in the current issue, as well as to all articles in the previous three years (where applicable). See our Orders page to subscribe.
If you still need assistance, please email subs@inderscience.com
Our Blog 
Follow us on Twitter 
Visit us on Facebook