Reproducibility of SNV-calling in multiple sequencing runs from single tumors.
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ABSTRACT:
SUBMITTER: Derryberry DZ
PROVIDER: S-EPMC4741064 | biostudies-literature | 2016
REPOSITORIES: biostudies-literature
Publications
Reproducibility of SNV-calling in multiple sequencing runs from single tumors.
Derryberry Dakota Z DZ Cowperthwaite Matthew C MC Wilke Claus O CO
PeerJ 20160104
We examined 55 technical sequencing replicates of Glioblastoma multiforme (GBM) tumors from The Cancer Genome Atlas (TCGA) to ascertain the degree of repeatability in calling single-nucleotide variants (SNVs). We used the same mutation-calling pipeline on all pairs of samples, and we measured the extent of the overlap between two replicates; that is, how many specific point mutations were found in both replicates. We further tested whether additional filtering increased or decreased the size of ...[more]
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