Technical development of rapid whole genome nanopore sequencing and variant identification pipeline
Abstract
Whole genome sequencing can identify pathogenic variants for genetic disease but the time
required for sequencing and analysis has been a barrier to its use in acutely ill patients. Here,
we develop an approach to ultra-rapid nanopore whole genome sequencing that combines an
efficient sample preparation protocol, distributed sequencing over 48 flow cells, near real-time
base calling and alignment, accelerated variant calling, and fast variant filtration. We show
that this framework provides accurate variant prioritization in less than half the fastest time
recorded for an equivalent analysis to date.
required for sequencing and analysis has been a barrier to its use in acutely ill patients. Here,
we develop an approach to ultra-rapid nanopore whole genome sequencing that combines an
efficient sample preparation protocol, distributed sequencing over 48 flow cells, near real-time
base calling and alignment, accelerated variant calling, and fast variant filtration. We show
that this framework provides accurate variant prioritization in less than half the fastest time
recorded for an equivalent analysis to date.
Research Areas
