Highly sensitive and ultrafast read mapping for RNA-seq analysis.

TitleHighly sensitive and ultrafast read mapping for RNA-seq analysis.
Publication TypeJournal Article
Year of Publication2016
AuthorsMedina I, Tárraga J, Martínez H, Barrachina S, Castillo MI, Paschall J, Salavert-Torres J, Blanquer-Espert I, Hernández-García V, Quintana-Ortí ES, Dopazo J
Journal TitleDNA research : an international journal for rapid publication of reports on genes and genomes
Journal Date2016 Jan 5
ISSN1756-1663
KeywordsHPC, NGS, RNA-seq, short read mapping
AbstractAs sequencing technologies progress, the amount of data produced grows exponentially, shifting the bottleneck of discovery towards the data analysis phase. In particular, currently available mapping solutions for RNA-seq leave room for improvement in terms of sensitivity and performance, hindering an efficient analysis of transcriptomes by massive sequencing. Here, we present an innovative approach that combines re-engineering, optimization and parallelization. This solution results in a significant increase of mapping sensitivity over a wide range of read lengths and substantial shorter runtimes when compared with current RNA-seq mapping methods available.
URLhttp://dnaresearch.oxfordjournals.org/content/early/2016/01/05/dnares.dsv039.long
DOI10.1093/dnares/dsv039
Alternate JournalDNA Res.