Computational identification of protein-coding sequences by comparative analysis.
Gene prediction is an essential step in understanding the genome of a species once it has been sequenced. For that, a promising direction in current research on gene finding is a comparative genomics approach. In this paper, we present a novel approach to identifying evolutionarily conserved protein-coding sequences in genomes. The method takes advantage of the specific substitution pattern of coding sequences together with the consistency of reading frames. It has been implemented in a software called PROTEA. Large-scale experimentation shows good results. PROTEA is intended to be a useful complement to existing tools based on homology search or statistical properties of the sequences.
Fontaine
Arnaud
A
LIFL-UMR CNRS 8022 University Lille 1, INRIA Lille Nord Europe, France. arnaud.fontaine@lifl.fr
Touzet
Hélène
H
D001483:Base Sequence; D019295:Computational Biology / Q000379:methods*; D023281:Genomics; D008969:Molecular Sequence Data; D016366:Open Reading Frames; D012984:Software