ArticleAlgorithms for molecular biology : AMB2006
A phylogenetic generalized hidden Markov model for predicting alternatively spliced exons.
Article in Algorithms for molecular biology : AMB, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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Who cites it
3 citing papers in PubMed.
- Complexity of the 5'UTR region of the CLCN5 gene: eleven 5'UTR ends are differentially expressed in the human kidney.BMC medical genomics · 2014Article
- Function of alternative splicing.Gene · 2013Review
- Strategies for identifying RNA splicing regulatory motifs and predicting alternative splicing events.PLoS computational biology · 2008Review
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
backgroundAn 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.
resultsA 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.
conclusionExAlt 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.
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Registered trials
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