Next-generation transcriptome assembly - PubMed (original) (raw)

Review

. 2011 Sep 7;12(10):671-82.

doi: 10.1038/nrg3068.

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Review

Next-generation transcriptome assembly

Jeffrey A Martin et al. Nat Rev Genet. 2011.

Abstract

Transcriptomics studies often rely on partial reference transcriptomes that fail to capture the full catalogue of transcripts and their variations. Recent advances in sequencing technologies and assembly algorithms have facilitated the reconstruction of the entire transcriptome by deep RNA sequencing (RNA-seq), even without a reference genome. However, transcriptome assembly from billions of RNA-seq reads, which are often very short, poses a significant informatics challenge. This Review summarizes the recent developments in transcriptome assembly approaches - reference-based, de novo and combined strategies - along with some perspectives on transcriptome assembly in the near future.

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References

    1. PLoS Biol. 2010 Sep 07;8(9): - PubMed
    1. Nucleic Acids Res. 1999 Apr 15;27(8):1847-53 - PubMed
    1. PLoS One. 2010 Oct 18;5(10):e13381 - PubMed
    1. Nucleic Acids Res. 2000 Nov 1;28(21):4364-75 - PubMed
    1. Methods. 2009 Jul;48(3):249-57 - PubMed

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