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FGENESH - Program for predicting multiple genes in genomic DNA sequences. FGENESH is the fastest (50-100 times faster than GenScan) and most accurate gene finder available - see the figure and the table below.
Gene identification, Fgenesh gene finder and Fgenesh++ genome annotation pipeline, 42 custom made gene-finding parameters. Largest Plant Gene Regulatory Elements database RegSite (~ 3000 entries).
Fgenesh - most accurate and fastest HMM-based gene prediction program; Fgenesh+ - gene prediction program that uses similar protein information; gene finding parameters for Fgenesh and Fgenesh+;
Gene finding with similarity. Operon and Gene Finding in Bacteria. Gene Finding in Viral Genomes. Next Generation. Alignment (sequences and genomes) Genome visualization tools. Search for promoters/functional motifs. Deep Learning Recognition. Protein Location.
FGENESH-2: Program for predicting multiple genes in genomic DNA sequences using HMM gene model and genomic sequences of two close organisms to increase reliability of true exon and gene identification.
FGENESH++ is our newest gene prediction program that works in following steps: (1) performs ab initio gene prediction using FGENESH algorithm; (2) runs predicted amino acid sequences of all potential exons through NR protein sequence database using DBSCAN-P engine; and (3) runs second round of gene prediction with higher scores assigned to ...
FGENESH_C - Program for predicting multiple genes in genomic DNA sequences using HMM gene model plus similarity with known mRNA/EST. The program can be used if you know mRNA/EST sequence that is homologous to that of predicted gene.
FGENESB_annotator is a package for automatic annotation of bacterial genomes and bacterial community sequences annotation developed in Softberry Inc. by Victor Solovyev and Asaf Salamov (modified by Peter Kosarev) * Initial predictions of long ORFs are used as a starting point for calculating parameters for gene prediction.
Searching Google Scholar by keywords Fgenesh and plant yields ~500 research publications that report using Fgenesh software for gene finding in plants (Arabidopsis, rice, maize, banana, medicago, poplar, tomato, and many other genomes).
... homologs of genes encoding NADPH oxidase. Identified sequences were then analyzed using FGENESH and FGENESH+ tools (Softberry, Inc., Mount Kisco, New York; www.softberry.com). ClustalW was used to perform the ...
