TY  - JOUR
A1  - Allen, Jonathan E.
A1  - Pertea, Mihaela
A1  - Salzberg, Steven L.
T1  - Computational Gene Prediction Using Multiple Sources of Evidence
Y1  - 2004/01/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 142 
EP  - 148 
DO  - 10.1101/gr.1562804 
VL  - 14 
IS  - 1 
UR  - http://genome.cshlp.org/content/14/1/142.abstract 
N2  - This article describes a computational method to construct gene models by using evidence generated from a diverse set of sources, including those typical of a genome annotation pipeline. The program, called Combiner, takes as input a genomic sequence and the locations of gene predictions from ab initio gene finders, protein sequence alignments, expressed sequence tag and cDNA alignments, splice site predictions, and other evidence. Three different algorithms for combining evidence in the Combiner were implemented and tested on 1783 confirmed genes in Arabidopsis thaliana. Our results show that combining gene prediction evidence consistently outperforms even the best individual gene finder and, in some cases, can produce dramatic improvements in sensitivity and specificity. 
ER  -