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Getting started guides

Two-page image of the targeted sequencing getting started guideGetting started guide

A guide to targeted sequencing with Oxford Nanopore

This guide provides an introduction to performing targeted nanopore sequencing.


Most viewed

PromethION 24 flyer cover imageBrochure

PromethION 24: sequencing to the power of 24

Multiply your insights with PromethION 24, the production-scale nanopore sequencer that puts you in control of up to 24 high-output flow cells. Discover more.
PromethION 2 Integrated flyer cover imageBrochure

PromethION 2 Integrated: small box, big picture

Explore the PromethION 2 Integrated and bring high-output Oxford Nanopore sequencing to your lab. Run up to two independent flow cells with onboard compute for real-time insights. Discover more.

Workflow overview

Image of plant assembly workflowWorkflow overview

Assembling high-quality plant genomes with Oxford Nanopore

This end-to-end workflow introduces how to generate a high-quality plant genome assembly from a leaf sample.


Preview image for the plant, animal, and environmental sequencing white paper, 'Genomics for a changing planet'.White paper

Genomics for a changing planet: sequencing the living world

Discover how a global community of researchers are harnessing Oxford Nanopore sequencing to study the far-reaching impacts of climate change, revealing deep insights across environmental research, agriculture, and pathogen surveillance.
Analyse_Oxford_Nanopore_sequencing_data_without_specialist_trainingEvent video

How do I analyse my Oxford Nanopore sequencing data without specialist training?

In this beginner-friendly masterclass, discover how to analyse your Oxford Nanopore sequencing data. Find out how basecalling works, the common file formats you’ll encounter, and how to use MinKNOW to set up and monitor your sequencing run. Then, discover how to analyse your data with EPI2ME — no pr
Which_library_prep_workflow_is_right_for_my_experimentEvent video

Which library prep workflow is right for my experiment?

Whether you’re sequencing DNA, RNA, or cDNA, a single sample or many in multiplex, there’s an Oxford Nanopore library prep kit for you. In this masterclass, discover how to choose the right one for your workflow. In this masterclass, discover: • The range of Oxford Nanopore library prep solutions av
Extract_high-quality_DNA_and_RNA_for_Oxford_Nanopore_sequencingEvent video

How do I extract high-quality DNA and RNA for my Oxford Nanopore sequencing experiment?

Great sequencing results start with high-quality DNA and RNA extraction. In this masterclass, find out how to achieve just that — from choosing the right method for you to performing size selection, fragmentation, and sample handling. In this masterclass, discover: • How to optimise extraction for y
Get_started_with_Oxford_Nanopore_sequencingEvent video

How do I get started with Oxford Nanopore sequencing?

Your Oxford Nanopore sequencing journey starts here. In this masterclass, find out how nanopore sequencing works, what to expect at each step of your workflow, and how to plan your first experiment. In this masterclass, discover: • How Oxford Nanopore sequencing technology works and its benefits for

Protocols

Ligation sequencing DNA V14 (SQK-LSK114)

This protocol describes how to carry out sequencing of a DNA sample using the Ligation Sequencing Kit V14 (SQK-LSK114). It is recommended that a Lambda control experiment is completed first to become familiar with the technology.

Ligation sequencing gDNA - Native Barcoding Kit 24 V14 (SQK-NBD114.24)

This protocol describes how to carry out native barcoding of genomic DNA (gDNA) using the Native Barcoding Kit 24 V14 (SQK-NBD114.24).

Ligation sequencing gDNA - Native Barcoding Kit 96 V14 (SQK-NBD114.96)

This document describes the barcoding of native genomic DNA libraries. For Research Use Only

Analysis workflows

wf-transcriptomes

Transcriptome analysis of cDNA and direct RNA sequencing data.

wf-pore-c

Workflow for analysing Pore-c data for chromatin conformation capture.

wf-cas9

The ONT Cas9 sequencing kit allows the enrichment of genomic regions of interest by amplifying target regions from adapters ligated to Cas9 cleavage sites. The purpose of this workflow is to assess the effectiveness of such Cas9 enrichment, but it can be applied to other enrichment approaches.

wf-alignment

This workflow provides an easy way to align Oxford Nanopore reads and gather mapping stats either locally for small amounts of data or at scale in a distributed environment such as a cluster or the cloud.

Latest research

Aaron Pomerantz Publication Real-time DNA barcoding in a rainforest using nanopore sequencing opportunities for rapid biodiversity assessments and local capacity buildingPublication

​Decoding the Peruvian Amazon with in situ DNA barcoding of vertebrate and plant taxa

​Publication: Decoding the Peruvian Amazon with in situ DNA barcoding of vertebrate and plant taxa
Publication

A portable, nanopore-based genotyping platform for near real-time detection of Puccinia graminis f. sp. tritici lineages and fungicide sensitivity

Publication: A portable, nanopore-based genotyping platform for near real-time detection of Puccinia graminis f. sp. tritici lineages and fungicide sensitivity
Poster

Application of Oxford Nanopore MinION platform in Cannabis genomics and metagenomics: first impressions

The recent emergence of Cannabis cultivation as a legal mainstream activity has opened up opportunities for genomic studies to establish basic information on par with other high value industrial plant crops. In particular, next generation sequencing (NGS) technologies show promise in identification
LC2025 Assembly PO_1249Poster

Automated single-platform telomere-to-telomere de novo genome assembly for human, plant, and animal genomes

Advances in nanopore read accuracy, as well as read correction and assembly algorithms, enable routine T2T assembly for platinum-standard references and population-scale pangenome analysis.
Coffee beans falling onto a pile of coffee beansPublication

A chromosome-scale assembly reveals chromosomal aberrations and exchanges generating genetic diversity in Coffea arabica germplasm

Getting started

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