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Data from: A first look at the Oxford Nanopore MinION sequencer

Citation

Mikheyev, Alexander S.; Tin, Mandy M.Y.; Tin, Mandy M. Y. (2014), Data from: A first look at the Oxford Nanopore MinION sequencer, Dryad, Dataset, https://doi.org/10.5061/dryad.5p0c3

Abstract

Oxford Nanopore's third-generation, single-molecule sequencing platform promises to decrease costs for reagents and instrumentation. After a two-year hiatus following the initial announcement, the first devices have been released as part of an early access program. We explore the performance of this platform by re-sequencing the lambda phage genome, and amplicons from a snake venom gland transcriptome. Although the handheld MinION sequencer can generate more than 150 megabases of raw data in one run, at most a quarter of the resulting reads map to the reference, with less than average 10% identity. Much of the sequence consists of insertion/deletion errors, or is seemingly without similarity to the template. Using the lambda phage data as an example, although the reads are long, averaging 5kb, at best 890±1,932 bases per mapped read could be matched to the reference without soft clipping. In the course of a 36 hour run on the MinION it was possible to re-sequence the 48kb lambda phage reference at 16x coverage. Currently substantially larger projects would not be feasible using the MinION. Without increases in accuracy, which would be required for applications such as genome scaffolding and phasing, the current utility of the MinION appears limited. Library preparation requires access to a molecular lab, and is of similar complexity and cost to that of other next-generation sequencing platforms. The MinION is an exciting step in a new direction for single-molecule sequencing, though it will require dramatic decreases in error rates before it lives up to its promise.

Usage Notes

Location

Japan
Okinawa