As 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.This work is supported by grants from the Spanish Ministry of Economy
and Competitiveness (BIO2014-57291-R) and co-funded
with European Regional Development Funds (ERDF), AECID
(D/016099/08) and from the Conselleria d’Educacio of the Valencian
Community (PROMETEOII/2014/025). This work has been carried
out in the context of the HPC4G initiative (http://www.hpc4g.org)
and the Bull-CIPF Chair for Computational Genomics. Funding to
pay the Open Access publication charges for this article was provided
by grant BIO2014-57291-R from the Spanish Ministry of Economy
and Competitiveness (MINECO), co-funded with European Regional
Development Funds (ERDF)