Comparison of feature selection techniques for viral DNA replication origin prediction

Authors:
Raul Cruz-Cano;Ming-Ying Leung
Affiliations:
Texas A&M University-Texarkana, Texarkana, TX;The University of Texas at El Paso, El Paso, TX
Venue:
CIBCB'09 Proceedings of the 6th Annual IEEE conference on Computational Intelligence in Bioinformatics and Computational Biology
Year:
2009

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Abstract

As the replication of their DNA genomes is a central step in the reproduction of many viruses, procedures to find replication origins, which are initiation sites of the DNA replication process, are of great importance for controlling the growth and spread of such viruses. Existing computational methods for viral replication origin prediction have mostly been designed to use only the composition of a region of viral DNA to predict if such region is an ORI or not. This paper proposes the application of several feature selection techniques to help find the most significant features of the replication origins in herpesviruses. The results suggest that features based on the relative positions of the regions in the genomes containing replication origins and the information about the subfamily of the virus can be highly useful features to be incorporated into the computational tools for viral replication origin prediction.