Work

GlimmerM, Exonomy and Unveil: three ab initio eukaryotic genefinders

Year: 2003

Type: article

Abstract: We present three programs for ab initio gene prediction in eukaryotes: Exonomy, Unveil and GlimmerM. Exonomy is a 23-state Generalized Hidden Markov Model (GHMM), Unveil is a 283-state standard Hidden Markov Model (HMM) and GlimmerM is a previously-described genefinder which utilizes decision trees and Interpolated Markov Models (IMMs). All three are readily re-trainable for new organisms and have been found to perform well compared to other genefinders. Results are presented for Arabidopsis thaliana. Cases have been found where each of the genefinders outperforms each of the others, demonstrating the collective value of this ensemble of genefinders. These programs are all accessible through webservers at http://www.tigr.org/software.

Source: Nucleic Acids Research

DOI: 10.1093/nar/gkg527

Author: W. H. Majoros

Language: English

Topic: Genomics and Phylogenetic Studies

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: bronze

Funders: National Science Foundation, National Institutes of Health, U.S. National Library of Medicine

Awards: Computational Gene Modeling and Genome Sequence Assembly, Arabidopsis 2010: Pre-mRNA Splicing Signals in Arabidopsis, KDI: Intelligent Computational Genomic Analysis

OpenAlex ID: W2117135157