Interpreting whole genome and exome sequencing data of individual gastric cancer samples.

ABSTRACT:

Background

Gastric cancer is the fourth most common cancer and the second leading cause of cancer death worldwide. In order to understand the genetic background, we sequenced the whole exome and the whole genome of one microsatellite stable as well as one microsatellite unstable tumor and the matched healthy tissue on two different NGS platforms. We here aimed to provide a comparative approach for individual clinical tumor sequencing and annotation using different sequencing technologies and mutation calling algorithms.

Results

We applied a population-based whole genome resource as a novel pathway-based filter for interpretation of genomic alterations from single nucleotide variations (SNV), indels, and large structural variations. In addition to a comparison with tumor geno

SUBMITTER: Esser D 

PROVIDER: S-EPMC5501078 | biostudies-literature | 2017 Jul

REPOSITORIES: biostudies-literature