Summarizing specific profiles in Illumina sequencing from whole-genome amplified DNA.

ABSTRACT: Advances in both high-throughput sequencing and whole-genome amplification (WGA) protocols have allowed genomes to be sequenced from femtograms of DNA, for example from individual cells or from precious clinical and archived samples. Using the highly curated Caenorhabditis elegans genome as a reference, we have sequenced and identified errors and biases associated with Illumina library construction, library insert size, different WGA methods and genome features such as GC bias and simple repeat content. Detailed analysis of the reads from amplified libraries revealed characteristics suggesting that majority of amplified fragment ends are identical but inverted versions of each other. Read coverage in amplified libraries is correlated with both tandem and inverted repeat content, while GC c

SUBMITTER: Tsai IJ 

PROVIDER: S-EPMC4060946 | biostudies-literature | 2014 Jun

REPOSITORIES: biostudies-literature