Sequencing error correction without a reference genome.

ABSTRACT:

Background

Next (second) generation sequencing is an increasingly important tool for many areas of molecular biology, however, care must be taken when interpreting its output. Even a low error rate can cause a large number of errors due to the high number of nucleotides being sequenced. Identifying sequencing errors from true biological variants is a challenging task. For organisms without a reference genome this difficulty is even more challenging.

Results

We have developed a method for the correction of sequencing errors in data from the Illumina Solexa sequencing platforms. It does not require a reference genome and is of relevance for microRNA studies, unsequenced genomes, variant detection in ultra-deep sequencing and even for RNA-Seq studies of organisms with sequenced

SUBMITTER: Sleep JA 

PROVIDER: S-EPMC3879328 | biostudies-literature | 2013 Dec

REPOSITORIES: biostudies-literature