Quantifying the effect of Oxford Nanopore technology sequencing error rate on variant calling

We have used Oxford Nanopore Technology (ONT) long read sequencing assessing the error rate in allelic composition at variant loci, which is crucial to accurate SNV/CNA calling in all cancer genomics or other somatic analyses and thus likely to be of interest to the wider community. By using a novel genome-wide SNP-centric approach, we not only confirm the higher error rate in ONT, but we also computationally demonstrate that at coverage >300X, the ONT error rate is comparable with short-read sequencing.