GeneWise and Genomewise
Abstract
We present two algorithms in this paper: GeneWise, which predicts gene structure using similar protein sequences, and Genomewise, which provides a gene structure final parse across cDNA- and EST-defined spliced structure. Both algorithms are heavily used by the Ensembl annotation system. The GeneWise algorithm was developed from a principled combination of hidden Markov models (HMMs). Both algorithms are highly accurate and can provide both accurate and complete gene structures when used with the correct evidence.
Footnotes
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Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.1865504.
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↵3 Corresponding author. E-MAIL birney{at}ebi.ac.uk; FAX 44 1223 494468.
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- Accepted January 13, 2004.
- Received August 8, 2003.
- Cold Spring Harbor Laboratory Press