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

Research output: Contribution to journalArticlepeer-review

9 Scopus citations


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.

Original languageEnglish (US)
Article number6654138
Pages (from-to)1234-1240
Number of pages7
JournalIEEE/ACM Transactions on Computational Biology and Bioinformatics
Issue number5
StatePublished - Sep 2013


  • Algorithms
  • Biology and genetics
  • Computer applications
  • Medicine and science

ASJC Scopus subject areas

  • Biotechnology
  • Genetics
  • Applied Mathematics


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