ETOPE: Evolutionary test of predicted exons.
Since a large number of computationally predicted exons are not supported by existing sequence (e.g. ESTs) or experimental (e.g. expression analysis) data they need to be validated by other methods. ETOPE is designed to test computational predictions by using signals that have not been included in any current computational prediction method. The test is based on the ratio of non-synonymous to synonymous substitution rates between sequences from different genomes. It has been previously shown, by empirical data and computer simulation, to be a powerful criterion for identifying protein-coding regions. The ETOPE is available at http://nekrut.uchicago.edu/etope/.
Nekrutenko
Anton
A
Department of Ecology and Evolution, The University of Chicago, 1101 East 57th Street, Chicago, IL 60637, USA. aun1@psu.edu
Chung
Wen-Yu
WY
Li
Wen-Hsiung
WH
D019943:Amino Acid Substitution; D000818:Animals; D019143:Evolution, Molecular; D005091:Exons; D023281:Genomics / Q000379:methods; D006801:Humans; D020407:Internet; D051379:Mice; D009154:Mutation; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software; D014584:User-Computer Interface