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Sequencing ultra-long DNA molecules with the Oxford Nanopore MinION

https://doi.org/10.1101/019281

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1038/521015aopenalex-snapshot

Pint-sized DNA sequencer impresses first users

inferredcites →https://doi.org/10.1038/nature.2012.10051openalex-snapshot

Nanopore genome sequencer makes its debut

inferredcites →https://doi.org/10.1038/nature.2014.14724openalex-snapshot

Data from pocket-sized genome sequencer unveiled

inferredcites →https://doi.org/10.1038/nbt.3103openalex-snapshot

MinION nanopore sequencing identifies the position and structure of a bacterial antibiotic resistance island

inferredcites →https://doi.org/10.1038/nbt.3360openalex-snapshot

De novo sequencing and variant calling with nanopores using PoreSeq

inferredcites →https://doi.org/10.1038/ncomms11307openalex-snapshot

Fast and sensitive mapping of nanopore sequencing reads with GraphMap

inferredcites →https://doi.org/10.1038/nmeth.3290openalex-snapshot

Improved data analysis for the MinION nanopore sequencer

inferredcites →https://doi.org/10.1038/nmeth.3327openalex-snapshot

Successful test launch for nanopore sequencing

inferredcites →https://doi.org/10.1038/nmeth.3444openalex-snapshot

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

inferredcites →https://doi.org/10.1093/bioinformatics/btq033openalex-snapshot

BEDTools: a flexible suite of utilities for comparing genomic features

inferredcites →https://doi.org/10.1093/bioinformatics/btu555openalex-snapshot

Poretools: a toolkit for analyzing nanopore sequence data

inferredcites →https://doi.org/10.1093/nar/gki609openalex-snapshot

Prevalence of quadruplexes in the human genome

inferredcites →https://doi.org/10.1101/013490openalex-snapshot

Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome

inferredcites →https://doi.org/10.1101/019356openalex-snapshot

Streaming algorithms for identification of pathogens and antibiotic resistance potential from real-time MinION TM sequencing

inferredcites →https://doi.org/10.1111/1755-0998.12324openalex-snapshot

A first look at the Oxford Nanopore MinION sequencer

inferredcites →https://doi.org/10.1111/j.1742-4658.2010.07758.xopenalex-snapshot

Structure, location and interactions of G‐quadruplexes

inferredcites →https://doi.org/10.1186/2047-217x-3-22openalex-snapshot

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

inferredcites →https://doi.org/10.1186/s12864-015-1519-zopenalex-snapshot

Genome assembly using Nanopore-guided long and error-free DNA reads

inferredcites →https://doi.org/10.1186/s13059-015-0677-2openalex-snapshot

Rapid draft sequencing and real-time nanopore sequencing in a hospital outbreak of Salmonella

inferredcites →https://doi.org/10.1186/s13059-015-0777-zopenalex-snapshot

Determining exon connectivity in complex mRNAs by nanopore sequencing

inferredcites →https://doi.org/10.1186/s13073-015-0220-9openalex-snapshot

Rapid metagenomic identification of viral pathogens in clinical samples by real-time nanopore sequencing analysis

inferredcites →https://doi.org/10.1186/s13742-015-0051-zopenalex-snapshot

Bacterial and viral identification and differentiation by amplicon sequencing on the MinION nanopore sequencer

inferredcites →https://doi.org/10.1186/s13742-015-0076-3openalex-snapshot

LINKS: Scalable, alignment-free scaffolding of draft genomes with long reads

inferredcites →https://doi.org/10.12688/f1000research.6037.1openalex-snapshot

Long read nanopore sequencing for detection of HLA and CYP2D6 variants and haplotypes

inferredcites →https://doi.org/10.32614/r.manualsopenalex-snapshot

R: A Language and Environment for Statistical Computing

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Nanopore-based metagenomics analysis reveals prevalence of mobile antibiotic and heavy metal resistome in wastewater

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Distinct biotic and abiotic factors influencing microbial diversity of soil: metagenomic tools and approaches employed

inferred← citeshttps://doi.org/10.1016/j.cpb.2016.09.001openalex-snapshot

Advances in genomics for adapting crops to climate change

inferred← citeshttps://doi.org/10.1016/j.jcv.2018.07.001openalex-snapshot

Combination random isothermal amplification and nanopore sequencing for rapid identification of the causative agent of an outbreak

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Real-time, portable genome sequencing for Ebola surveillance

inferred← citeshttps://doi.org/10.1038/nmeth.3930openalex-snapshot

Real-time selective sequencing using nanopore technology

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Lineage dynamics of the endosymbiotic cell type in the soft coral Xenia

inferred← citeshttps://doi.org/10.1038/s41598-017-05503-wopenalex-snapshot

ConcatSeq: A method for increasing throughput of single molecule sequencing by concatenating short DNA fragments

inferred← citeshttps://doi.org/10.1038/s41598-017-07650-6openalex-snapshot

Rapid de novo assembly of the European eel genome from nanopore sequencing reads

inferred← citeshttps://doi.org/10.1038/s41598-018-21484-wopenalex-snapshot

Systematic and stochastic influences on the performance of the MinION nanopore sequencer across a range of nucleotide bias

inferred← citeshttps://doi.org/10.1038/s41598-018-23641-7openalex-snapshot

Unbiased Strain-Typing of Arbovirus Directly from Mosquitoes Using Nanopore Sequencing: A Field-forward Biosurveillance Protocol

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

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The assembled and annotated genome of the pigeon louse Columbicola columbae , a model ectoparasite

inferred← citeshttps://doi.org/10.1093/jac/dkw397openalex-snapshot

Identification of bacterial pathogens and antimicrobial resistance directly from clinical urines by nanopore-based metagenomic sequencing

inferred← citeshttps://doi.org/10.1093/nar/gkw1328openalex-snapshot

Rapid resistome mapping using nanopore sequencing

inferred← citeshttps://doi.org/10.1099/mgen.0.000118openalex-snapshot

Resolving plasmid structures in Enterobacteriaceae using the MinION nanopore sequencer: assessment of MinION and MinION/Illumina hybrid data assembly approaches

inferred← citeshttps://doi.org/10.1101/413534openalex-snapshot

HLA RNAseq reveals high allele-specific variability in mRNA expression

inferred← citeshttps://doi.org/10.1101/483248openalex-snapshot

NanoARG: A web service for identification of antimicrobial resistance elements from nanopore-derived environmental metagenomes

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Chromosome‐level hybrid de novo genome assemblies as an attainable option for nonmodel insects

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Characterisation of the Novel HLA ‐C*04:538 Allele by Third‐Generation Sequencing

inferred← citeshttps://doi.org/10.1186/s12864-021-07926-2openalex-snapshot

High contiguity de novo genome assembly and DNA modification analyses for the fungus fly, Sciara coprophila, using single-molecule sequencing

inferred← citeshttps://doi.org/10.1186/s13742-015-0101-6openalex-snapshot

A single chromosome assembly of Bacteroides fragilis strain BE1 from Illumina and MinION nanopore sequencing data

inferred← citeshttps://doi.org/10.1186/s13742-016-0140-7openalex-snapshot

INC-Seq: accurate single molecule reads using nanopore sequencing

inferred← citeshttps://doi.org/10.1186/s40168-019-0703-9openalex-snapshot

NanoARG: a web service for detecting and contextualizing antimicrobial resistance genes from nanopore-derived metagenomes

inferred← citeshttps://doi.org/10.12688/f1000research.11146.1openalex-snapshot

De novo whole-genome assembly of a wild type yeast isolate using nanopore sequencing

inferred← citeshttps://doi.org/10.12688/f1000research.11146.2openalex-snapshot

De novo whole-genome assembly of a wild type yeast isolate using nanopore sequencing

inferred← citeshttps://doi.org/10.12688/f1000research.11547.1openalex-snapshot

Investigation of chimeric reads using the MinION

inferred← citeshttps://doi.org/10.12688/f1000research.7201.1openalex-snapshot

MinION Analysis and Reference Consortium: Phase 1 data release and analysis

inferred← citeshttps://doi.org/10.1534/genetics.115.182311openalex-snapshot

Rapid Short-Read Sequencing and Aneuploidy Detection Using MinION Nanopore Technology

inferred← citeshttps://doi.org/10.26508/lsa.202201744openalex-snapshot

A practical comparison of the next-generation sequencing platform and assemblers using yeast genome

inferred← citeshttps://doi.org/10.3311/ppee.10015openalex-snapshot

Beyond Homopolymer Errors: a Systematic Investigation of Nanopore-based DNA Sequencing Characteristics Using HLA-DQA2

inferred← citeshttps://doi.org/10.3389/fgene.2017.00023openalex-snapshot

A Review of Bioinformatics Tools for Bio-Prospecting from Metagenomic Sequence Data

inferred← citeshttps://doi.org/10.3389/fgene.2018.00152openalex-snapshot

Multiplexed Nanopore Sequencing of HLA-B Locus in Māori and Pacific Island Samples

inferred← citeshttps://doi.org/10.4167/jbv.2015.45.4.285openalex-snapshot

MinION™: New, Long Read, Portable Nucleic Acid Sequencing Device

inferred← citeshttps://doi.org/10.53846/goediss-7568openalex-snapshot

High resolution differentiation of infectious agents at the level of antibody and nucleic acid by using peptide microarray and nanopore sequencing

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