Sequencing DNA with nanopores: Troubles and biases

C Delahaye, J Nicolas - PloS one, 2021 - journals.plos.org
Oxford Nanopore Technologies'(ONT) long read sequencers offer access to longer DNA
fragments than previous sequencer generations, at the cost of a higher error rate. While …

From squiggle to basepair: computational approaches for improving nanopore sequencing read accuracy

FJ Rang, WP Kloosterman, J de Ridder - Genome biology, 2018 - Springer
Nanopore sequencing is a rapidly maturing technology delivering long reads in real time on
a portable instrument at low cost. Not surprisingly, the community has rapidly taken up this …

[HTML][HTML] Robust long-read native DNA sequencing using the ONT CsgG Nanopore system

JM Carter, S Hussain - Wellcome open research, 2017 - ncbi.nlm.nih.gov
Background: The ability to obtain long read lengths during DNA sequencing has several
potentially important practical applications. Especially long read lengths have been reported …

Oxford Nanopore sequencing, hybrid error correction, and de novo assembly of a eukaryotic genome

S Goodwin, J Gurtowski, S Ethe-Sayers… - Genome …, 2015 - genome.cshlp.org
Monitoring the progress of DNA molecules through a membrane pore has been postulated
as a method for sequencing DNA for several decades. Recently, a nanopore-based …

Benchmarking of long-read correction methods

JC Dohm, P Peters, N Stralis-Pavese… - NAR Genomics and …, 2020 - academic.oup.com
Third-generation sequencing technologies provided by Pacific Biosciences and Oxford
Nanopore Technologies generate read lengths in the scale of kilobasepairs. However, these …

[PDF][PDF] pycoQC, interactive quality control for Oxford Nanopore Sequencing

A Leger, T Leonardi - Journal of Open Source Software, 2019 - joss.theoj.org
Nanopore sequencing of nucleic acids took nearly 30 years to develop and is now firmly
established as an alternative to sequencing by synthesis methods (Deamer, Akeson, & …

NanoSim: nanopore sequence read simulator based on statistical characterization

C Yang, J Chu, RL Warren, I Birol - GigaScience, 2017 - academic.oup.com
Abstract Background The MinION sequencing instrument from Oxford Nanopore
Technologies (ONT) produces long read lengths from single-molecule sequencing–valuable …

BulkVis: a graphical viewer for Oxford nanopore bulk FAST5 files

A Payne, N Holmes, V Rakyan, M Loose - Bioinformatics, 2019 - academic.oup.com
Abstract Motivation The Oxford Nanopore Technologies (ONT) MinION is used for
sequencing a wide variety of sample types with diverse methods of sample extraction …

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
The nanopore sequencing process is based on the transit of a DNA molecule through a
nanoscopic pore, and since the 90s is considered as one of the most promising approaches …

Poretools: a toolkit for analyzing nanopore sequence data

NJ Loman, AR Quinlan - Bioinformatics, 2014 - academic.oup.com
Motivation: Nanopore sequencing may be the next disruptive technology in genomics, owing
to its ability to detect single DNA molecules without prior amplification, lack of reliance on …