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Genomes Fish, Aspergillus, Diatom new

Genomes Fish, Aspergillus, Diatom new - Zebrafish Forum

Genomes Fish, Aspergillus, Diatom new - Zebrafish Danio Rerio Forum. Discuss zebrafish, aquarium culture and molecular biology lab specimens.


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Old 09-09-2003, 03:30 PM
softberry@softberry.com
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Default Genomes Fish, Aspergillus, Diatom new



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:

[Only registered users see links. ]
ubgro up=gfind

[Only registered users see links. ]
topic=fgenes_plus&group=programs&subgroup=gfs

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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