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IEEE/ACM Trans Comput Biol Bioinform. 2013 Sep-Oct;10(5):1234-40.

Genome-guided transcriptome assembly in the age of next-generation sequencing.

Abstract

Next-generation sequencing technologies provide unprecedented power to explore the repertoire of genes and their alternative splice variants, collectively defining the transcriptome of a species in great detail. However, assembling the short reads into full-length gene and transcript models presents significant computational challenges. We review current algorithms for assembling transcripts and genes from next-generation sequencing reads aligned to a reference genome, and lay out areas for future improvements.

PMID:
24524156
PMCID:
PMC4086730
[Indexed for MEDLINE]
Free PMC Article
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