Genomes Fish, Aspergillus, Diatom new gene-finding parameters for FGENESH suit
A new parameter set for gene annotation in Fish, Diatom, Aspergillus genomes
is presented for FGENESH program suit. Accuracy of coding region
identification
by Fgenesh is about 98% on the nucleotide level.
New parameters can be used with:
FGENESH / HMM-based gene structure prediction (multiple genes, both chains)
BESTORF / Finding potential coding fragment EST/mRNA
FEX / Finding potential 5'-, internal and 3'-coding exons
FGENESH+ / HMM plus similar protein-based gene prediction
FGENESH_C / HMM plus similar cDNA-based gene structure prediction (multiple
genes, both chains)
FGENESH-2 / HMM gene prediction using two genomic sequences of close organisms
(as Human and Mouse)
the programs with parameters for major model organisms
is available for on line usage at:
http://www.softberry.com/berry.phtml?topic=index&group=programs&subgroup=gfind
Totally specific parameters of gene-finding is available for
Human, Mouse, Drosophila, C.elegans, Dicots (Arabidopsis), Nicotiana tabacum,
Monocots (Corn, Rice, Wheat, Barley), Schizosaccharomyces pombe, Neurospora
crassa,
Plasmodium falciparum, Anopheles gambiae, Fish, Diatom, Aspergillus
FGENESH is the fastest and most accurate ab initio gene prediction program
available based on HMM approach.
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