A broad range of applications—all on one platform

Flexibility for virtually any genome, sequencing method, and scale of project

NovaSeq Applications & Methods

Whole-genome sequencing (WGS) is the most comprehensive method for analyzing the genome. Rapidly dropping sequencing costs and the ability to produce large volumes of data make WGS a powerful tool for genomics research of any species, including human, livestock, plants, and disease-related microbes. With the NovaSeq System, you can sequence a tumor-normal pair or germline trio using a single S1 flow cell or up to 48 genomes per run using dual S4 flow cells.

Whole-exome sequencing (WES) can efficiently identify coding variants across a wide range of applications, including population genetics, genetic disease, and cancer studies.

Representing less than 2% of the genome, WES is a cost-effective alternative to WGS. With the NovaSeq System, you can sequence up to 20 exomes in a single lane using S1 or up to 200 exomes using a dual S2 flow cell run.

Total RNA sequencing (RNA-Seq) allows researchers to detect both known and novel features in a single assay. This method enables the detection of transcript isoforms, gene fusions, single nucleotide variants, allele-specific gene expression and other features without the limitation of prior knowledge.

Detect coding and multiple forms of noncoding RNA in normal or low-quality samples. With the NovaSeq System, you can sequence up to 8 transcriptomes on a single lane of an SP flow cell or up to 164 transcriptomes in a dual S2 flow cell run.

Introduction to the NovaSeq 6000 System Workflow

Join Brian Steffy, Senior Lab Manager and David Miller, Manager of Sequencing Systems to learn about the streamlined workflow of the NovaSeq System. See first hand why this system is truly our most advanced high-throughput sequencer.

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Introduction to the NovaSeq Series Workflow

Featured NovaSeq Stories

New Liquid Biopsy and High-Throughput Assays Join TruSight Oncology Portfolio
New Liquid Biopsy and High-Throughput Assays Join TruSight Oncology Portfolio

The first liquid biopsy solution for detecting cancer biomarkers on the NovaSeq 6000 Sequencing System is the newest addition to Illumina's portfolio of comprehensive cancer profiling assay.

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Exploring the Unknown: NGS Supports Species Research
Exploring the Unknown: NGS Supports Species Research

The NovaSeq 6000 System is enabling OIST researchers to sequence and study various ocean and land species.

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Australia Genomics Center Scales its Services to Collaborate with Researchers Worldwide
NGS is Fueling Species Research in Australia

High-throughput sequencing is paving the way to support agriculture, aquaculture, biodiversity, and conservation studies at the Deakin Genomics Center.

Read Customer Interview
Target Enrichment

Use sequence-specific hybridization to analyze genomic regions of interest.

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Coding Transcriptome Analysis

Detect both known and novel features of the coding transcriptome using sequence-specific capture of RNA coding regions.

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Targeted DNA Sequencing

Targeted resequencing focuses time, expenses, and analysis on sequencing only a subset of genes or genome regions of research interest.

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Methylation Sequencing

Enhance epigenetic studies with high-coverage density and flexibility enabled by sequencing-based DNA methylation analysis.

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Gene Expression Profiling with mRNA-Seq

mRNA sequencing (mRNA-Seq) detects known and novel transcripts and measures transcript abundance for accurate, comprehensive expression profiling.

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De Novo Sequencing

De novo sequencing refers to sequencing a novel genome with no reference sequence available. NGS enables fast, accurate characterization of any species.

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DNA-Protein Interaction Analysis with ChIP-Seq

Combining chromatin immunoprecipitation (ChIP) assays with sequencing, ChIP-Seq is a powerful method for genome-wide surveys of gene regulation.

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Population Studies

Robust, secure, and scalable platforms to aggregate and interpret large-scale genomic data for population sequencing applications.

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Comprehensively sample genes in organisms present in a complex sample to evaluate bacterial diversity and detect unculturable microorganisms.

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Single-Cell RNA Sequencing

Assess the individual contributions of single cells in complex tissues by profiling the transcriptome.

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RNA Drug Response Biomarker Discovery

Find out how to utilize RNA-Seq to discover and profile RNA-based drug response biomarkers. Access resources designed to help new users adopt this application.

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Illumina Methods Guide

Illumina Methods Guide

Access the information you need—from BeadChips to library preparation for genome, transcriptome, or epigenome studies to sequencer selection, analysis, and support—all in one place. Select the best tools for your lab with our comprehensive guide designed specifically for research applications.

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