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GENSCAN was developed by Chris Burge in the research group of Samuel Karlin, Department of Mathematics, Stanford University. The program and the model that underlies it are described in: Burge, C. and Karlin, S. (1997) Prediction of complete gene structures in human genomic DNA.
In bioinformatics, GENSCAN is a program to identify complete gene structures in genomic DNA. It is a G HMM -based program that can be used to predict the location of genes and their exon - intron boundaries in genomic sequences from a variety of organisms. The GENSCAN Web server can be found at MIT.
The PROBABILITY of a predicted exon is the estimated probability under GENSCAN's model of genomic sequence structure that the exon is correct. This probability depends in general on global as well as local sequence properties, e.g., it depends on how well the exon fits with neighboring exons.
GENSCAN was developed by Chris Burge in the research group of Samuel Karlin, Department of Mathematics, Stanford University. The program and the model that underlies it are described in: Burge, C. and Karlin, S. (1997) Prediction of complete gene structures in human genomic DNA.
Aug 12, 2007 · GENSCAN was easy to use, very fast, and predicted genes in the long sequences of genomic DNA that would characterize the human genome project. Although subsequently shown to predict only 10-15% of genes correctly on realistic genome-wide datasets [4,5], GENSCAN remains a popular bioinformatics tool.
GENSCAN correctly predicts an ORF at ∼ 10% of human gene loci that contain a known ORF (gene sensitivity).
Sep 1, 2002 · In tests of this program, GRPL matches the performance of Genscan at the nucleotide level (with respect to the correct prediction of exons and introns), but does slightly worse than Genscan at...
Apr 25, 1997 · GENSCAN is shown to have substantially higher accuracy than existing methods when tested on standardized sets of human and vertebrate genes, with 75 to 80% of exons identified exactly. The program is also capable of indicating fairly accurately the reliability of each predicted exon.
Jul 1, 2001 · GENSCAN..... http://genes.mit.edu/GENSCAN.html. This is probably the most widely used gene-prediction program. It uses HMMs to predict the presence of a gene given the raw DNA sequence.
The GenScan program (Burge and Karlin 1997) predicts complete gene structure, including introns, exons, and the exon–intron boundaries, promoter sites, and poly-A signals in genome sequences of many different types of organisms. The gene structure model used by GenScan is a “probabilistic model” developed for human genes.
