Improving ancient DNA read mapping against modern reference genomes.

ABSTRACT:

Background

Next-Generation Sequencing has revolutionized our approach to ancient DNA (aDNA) research, by providing complete genomic sequences of ancient individuals and extinct species. However, the recovery of genetic material from long-dead organisms is still complicated by a number of issues, including post-mortem DNA damage and high levels of environmental contamination. Together with error profiles specific to the type of sequencing platforms used, these specificities could limit our ability to map sequencing reads against modern reference genomes and therefore limit our ability to identify endogenous ancient reads, reducing the efficiency of shotgun sequencing aDNA.

Results

In this study, we compare different computational methods for improving the accuracy and sensiti

SUBMITTER: Schubert M 

PROVIDER: S-EPMC3468387 | biostudies-literature | 2012 May

REPOSITORIES: biostudies-literature