A reference bacterial genome dataset generated on the MinION™ portable single-molecule nanopore sequencer

J Quick, AR Quinlan, NJ Loman - Gigascience, 2014 - academic.oup.com
… We present a read dataset from whole-genome shotgun sequencing of the model organism
Escherichia coli K-12 substr. MG1655 generated on a MinION™ device during the early-…

Nanopore sequencing data analysis: state of the art, applications and challenges

A Magi, R Semeraro, A Mingrino, B Giusti… - Briefings in …, 2018 - academic.oup.com
… generation of sequences for genomic analyses. Our analyses demonstrate that the use of
nanopore data dramatically improves the de novo assembly of genomes and allows for the …

Nanopore sequencing: Review of potential applications in functional genomics

N Kono, K Arakawa - Development, growth & differentiation, 2019 - Wiley Online Library
… molecular data and revealed genomic and … gene sequence obtained by nanopore
sequencer (Figure 2). Araneus ventricosus is an orb-weaving spider and has seven spidroin gene

A world of opportunities with nanopore sequencing

RM Leggett, MD Clark - Journal of experimental botany, 2017 - academic.oup.com
… of complex genomic structures. This review provides a brief overview of nanopore sequencing
… minoTour implements a web front-end to interact with nanopore sequencing data or to …

A complete bacterial genome assembled de novo using only nanopore sequencing data

NJ Loman, J Quick, JT Simpson - Nature methods, 2015 - nature.com
… long-read data from the Oxford Nanopore MinION can be … genomes to give an accurate
reconstruction of gene order and orientation, without the need to use data from other sequencing

[HTML][HTML] Nanopore sequencing and assembly of a human genome with ultra-long reads

M Jain, S Koren, KH Miga, J Quick, AC Rand… - Nature …, 2018 - nature.com
… We evaluated nanopore data for calling genotypes at known single-nucleotide
polymorphisms (SNPs) using the ionic current by calling genotypes at non-singleton SNPs on …

Readfish enables targeted nanopore sequencing of gigabase-sized genomes

A Payne, N Holmes, T Clarke, R Munro… - Nature …, 2021 - nature.com
… Using this approach, we generated 5.995 Gb of sequence data and identified all bacterial
genomes in the sample; although we observed enrichment, the flow cell became completely …

Improved data analysis for the MinION nanopore sequencer

M Jain, IT Fiddes, KH Miga, HE Olsen, B Paten… - Nature …, 2015 - nature.com
… make nanopores a promising technology for high-throughput sequencing. We evaluated
and optimized the performance of the MinION nanopore sequencer using M13 genomic DNA …

NanoSim: nanopore sequence read simulator based on statistical characterization

C Yang, J Chu, RL Warren, I Birol - GigaScience, 2017 - academic.oup.com
… Since ReadSim is not capable of simulating genomes with multiple chromosomes, for the
yeast dataset we linked the yeast chromosomes with a single “N” before simulation and …

Nanopore sequencing technology and tools for genome assembly: computational analysis of the current state, bottlenecks and future directions

D Senol Cali, JS Kim, S Ghose, C Alkan… - Briefings in …, 2019 - academic.oup.com
Genome assembly pipeline using nanopore sequence data We evaluate the genome
assembly pipeline using nanopore sequence data. Figure 1 shows each step of the pipeline and …