Work

Eukaryotic Gene Prediction Using GeneMark.hmm‐E and GeneMark‐ES

Year: 2011

Type: article

Abstract: This unit describes how to use the gene-finding programs GeneMark.hmm-E and GeneMark-ES for finding protein-coding genes in the genomic DNA of eukaryotic organisms. These bioinformatics tools have been demonstrated to have state-of-the-art accuracy for many fungal, plant, and animal genomes, and have frequently been used for gene annotation in novel genomic sequences. An additional advantage of GeneMark-ES is that the problem of algorithm parameterization is solved automatically, with parameters estimated by iterative self-training (unsupervised training).

Source: Current Protocols in Bioinformatics

DOI: 10.1002/0471250953.bi0406s35

Authors: Mark Borodovsky, Alex Lomsadze

Institution: Georgia Institute of Technology

Language: English

Topic: Genomics and Phylogenetic Studies

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: green

Funders: National Institutes of Health, National Human Genome Research Institute

Awards: G3031498855, Gene Prediction by Markov Models and Complementary Methods