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ALMOB
2006

A phylogenetic generalized hidden Markov model for predicting alternatively spliced exons

9 years 9 months ago
A phylogenetic generalized hidden Markov model for predicting alternatively spliced exons
Background: An important challenge in eukaryotic gene prediction is accurate identification of alternatively spliced exons. Functional transcripts can go undetected in gene expression studies when alternative splicing only occurs under specific biological conditions. Non-expression based computational methods support identification of rarely expressed transcripts. Results: A non-expression based statistical method is presented to annotate alternatively spliced exons using a single genome sequence and evidence from cross-species sequence conservation. The computational method is implemented in the program ExAlt and an analysis of prediction accuracy is given for Drosophila melanogaster. Conclusion: ExAlt identifies the structure of most alternatively spliced exons in the test set and cross-species sequence conservation is shown to improve the precision of predictions. The software package is available to run on Drosophila genomes to search for new cases of alternative splicing. Backgro...
Jonathan E. Allen, Steven L. Salzberg
Added 10 Dec 2010
Updated 10 Dec 2010
Type Journal
Year 2006
Where ALMOB
Authors Jonathan E. Allen, Steven L. Salzberg
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