ESTGenes: Alternative splicing from ESTs in Ensembl

Eduardo Eyras*, Mario Caccamo, Val Curwen, Michele Clamp

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

67 Citations (Scopus)

Abstract

We describe a novel algorithm for deriving the minimal set of nonredundant transcripts compatible with the splicing structure of a set of ESTs mapped on a genome. Sets of ESTs with compatible splicing are represented by a special type of graph. We describe the algorithms for building the graphs and for deriving the minimal set of transcripts from the graphs that are compatible with the evidence. These algorithms are part of the Ensembl automatic gene annotation system, and its results, using ESTs, are provided at www.ensembl.org as ESTgenes for the mosquito, Caenorhabditis briggsae, C. elegans, zebrafish, human, mouse, and rat genomes. Here we also report on the results of this method applied to the human and mouse genomes.

Original languageEnglish
Pages (from-to)976-987
Number of pages12
JournalGenome Research
Volume14
Issue number5
DOIs
Publication statusPublished - May 2004
Externally publishedYes

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