GeneZilla (formerly known as TIGRscan) is a state-of-the-art program for computational prediction of protein-coding genes in eukaryotic DNA, and is based on the Generalized Hidden Markov Model (GHMM) framework, similar to GENSCAN and GENIE. It is highly reconfigurable and includes software for retraining by the end-user. Graph-theoretic representations of the high scoring open reading frames are provided, allowing for exploration of sub-optimal gene models. It utilizes Interpolated Markov Models (IMMs), Maximal Dependence Decomposition (MDD), and includes states for signal peptides, branch points, TATA boxes, CAP sites, and will soon model CpG islands as well.
Bill Majoros, now at Duke University.
- Linux / Mac OsX
:: MORE INFORMATION
Majoros W, et al. (2004) TIGRscan and GlimmerHMM: two open-source ab initio eukaryotic gene finders, Bioinformatics 20, 2878-2879.