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Curr Protoc Bioinformatics. 2011 Sep;Chapter 4:Unit 4.6.1-10. doi: 10.1002/0471250953.bi0406s35.

Eukaryotic gene prediction using GeneMark.hmm-E and GeneMark-ES.

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  • 1Georgia Institute of Technology, Atlanta, Georgia, USA.


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).

© 2011 by John Wiley & Sons, Inc.

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