AmpliSeq for Illumina product line

A comprehensive targeted resequencing solution offering ready-to-use and customizable panels for use with low-input DNA and RNA samples

Robust performance with tailored content for disease research

AmpliSeq for Illumina products deliver a fast, highly multiplexed PCR-based workflow for amplicon sequencing using low-input DNA and RNA samples. Compatible with Illumina next-generation sequencing (NGS) systems, AmpliSeq for Illumina chemistry offers high-quality data for disease research applications, enabling researchers to increase efficiency by targeting a few to hundreds of genes in a single run.

AmpliSeq for Illumina content design options

Ready-to-Use Panels

Predesigned sequencing panels using AmpliSeq chemistry that target important genes associated with a disease or phenotype.

Custom Panels

Create custom sequencing panels optimized for content of interest with our free, user-friendly, online tool.

On-Demand Panels

Create amplicon panels with the genes you want. Select from a catalog of pretested genes with known content relevant for inherited disease research.

Community Panels

These predesigned sequencing panels contain content selected and designed with input from leading disease researchers.

Featured AmpliSeq for Illumina products

AmpliSeq for Illumina Focus Panel

Targeted DNA and RNA research panel investigating 52 genes with known relevance to solid tumors.

AmpliSeq for Illumina TCR beta-SR Panel

FFPE-compatible panel for measuring T-cell diversity and clonal expansion in tumor samples by sequencing T-cell receptor beta chain rearrangements.

AmpliSeq for Illumina Custom DNA Panel

Targeted custom research panels optimized for sequencing specific targets or genomic content of interest.

Key features and benefits

Flexible panel customization

Select from a large set of predesigned panels or customize content for your desired application.

Sample input flexibility

Use high- or low-quality samples, including blood, cell culture, fresh-frozen tissue, or FFPE tissue, with DNA and RNA input requirements as low as 1 ng.

Workflow scalability

Analyze up to hundreds of genes simultaneously by interrogating as few as 12 to as many as 24,000 amplicons in a single run with ultra-high multiplexed PCR.

Simplified assay design

Build your custom panel quickly and easily using the DesignStudio Assay Design Tool, which features a simple user interface, robust algorithms, and dynamic feedback.

Accurate data

Obtain high-quality data with high coverage uniformity even with minimal input from challenging sample types like formalin-fixed, paraffin-embedded (FFPE) tissue.

Fast library prep

Prepare an on-target, high-uniformity amplified library in as little as 5 hours with just 1.5 hours of hands-on time.

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How AmpliSeq for Illumina technology works

Library prep begins with multiplexed PCR amplification of your genomic regions of interest with as little as 1 ng of DNA or cDNA input. After PCR, remaining primers are digested and the remaining amplicons used to prepare libraries for targeted sequencing on an Illumina NGS system.
Sequencing leverages widely adopted sequencing by synthesis (SBS) chemistry. Data are analyzed on the cloud with the DRAGEN Amplicon pipeline or on-instrument with Local Run Manager to get accurate results without extensive bioinformatics resources.

AmpliSeq for Illumina workflow

Prepare high-quality libraries quickly and simply using a multiplexed PCR-based workflow. Library prep takes ~5-7 hr total, with 1.5 hr hands-on time. Sequencing takes 17-32 hr, and data analysis time varies.

Select content

User-friendly assay design:

DesignStudio Assay Design Tool

AmpliSeq for Illumina panel options:

Prep

AmpliSeq for Illumina Library Prep, Indexes, and Accessories

Sequence

Benchtop sequencers

Analyze

Data analysis demos

DNA/RNA-to-results analysis workflow

Learn how to use BaseSpace Sequence Hub to cost-effectively manage, analyze, and share AmpliSeq for Illumina data in the cloud.

Data analysis with Local Run Manager

Watch an overview of how to perform on-premises amplicon analysis using Local Run Manager (LRM).

AmpliSeq for Illumina FAQ

You can analyze AmpliSeq for Illumina data with user-friendly secondary analysis workflows in the cloud via the DRAGEN Amplicon pipeline or on-instrument via Local Run Manager. DRAGEN DNA Amplicon aligns reads against reference genomes and calls small variants. DRAGEN RNA Amplicon performs differential expression analysis and gene fusion calling. Tertiary analysis is available on Correlation Engine.

AmpliSeq for Illumina products are compatible with all Illumina sequencing systems. Users most often use benchtop sequencing systems.

If your genes of interest are not available as an AmpliSeq for Illumina Ready-to-Use Panel, you can use DesignStudio Assay Design Tool to design an AmpliSeq for Illumina Custom Panel. The DesignStudio tool is a free web-based assay design software that enables researchers to submit target regions of interest and receive personalized panel content customized for their study.

To transfer your existing workflows or start using Illumina technology for the first time, review this resource:
Transitioning to AmpliSeq for Illumina on the iSeq 100 System
You can also contact Illumina Technical Support.

Contact Illumina Technical Support if you need assistance with DesignStudio Assay Design Tool. For help with ordering, contact a sales representative.

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Speak to a specialist

Contact an Illumina specialist to learn more about AmpliSeq for Illumina products.