Targeted RNA Sequencing

Introduction to Targeted RNA Sequencing

Targeted RNA-sequencing (RNA-Seq) is a highly accurate method for selecting and sequencing specific transcripts of interest. It offers both quantitative and qualitative information. Targeted RNA-Seq can be achieved via either enrichment or amplicon-based approaches, both of which enable gene expression analysis in a focused set of genes of interest. Enrichment assays also provide the ability to detect both known and novel gene fusion partners in many sample types, including formalin-fixed paraffin-embedded (FFPE) tissue.

Advantages of Targeted Enrichment RNA-Seq

RNA enrichment provides quantitative expression information as well as the detection of small variants and gene fusions. RNA enrichment offers the following features:

Compatible with difficult samples such as FFPE tissue
Low input (requires 10 ng of total RNA or 20 – 100 ng of FFPE RNA)
Detects both known and novel fusion gene partners
Profiles gene expression with a broad dynamic range

Advantages of Targeted Amplicon RNA-Seq

RNA expression panels can be designed to focus on RNA sequences of interest, or custom content can be added to fully optimized and experimentally validated panels.

Offers a highly accurate and specific method for measuring transcripts of interest
Provides qualitative and quantitative information for differential expression analysis, allele-specific expression measurement, and gene fusion verification
Measures dozens to thousands of targets simultaneously
Is compatible with low-quality or FFPE-derived RNA samples

New Views of Cancer Pathways in Pediatric Leukemia

Researchers are using the TruSight RNA Pan-Cancer Panel to understand the role of fusion genes in pediatric leukemia.

Read Interview

RNA Sequencing Library Prep

Our RNA-Seq library prep solutions for targeted RNA sequencing include exceptionally fast, tagmentation-based workflows for deep insights into many transcripts of interest, including the RNA exome.

Learn More About RNA Library Prep

Targeted RNA-Seq Workflow

Illumina sequencing by synthesis (SBS) chemistry is the most widely adopted NGS technology, generating approximately 90% of global sequencing data.*

We offer integrated targeted RNA-Seq workflows that simplify the entire process, from library preparation to data analysis and biological interpretation.

AmpliSeq for Illumina Sequencing Solution

A highly multiplexed polymerase chain reaction (PCR)-based workflow for use with targets ranging from a few to hundreds of genes in a single run.

AmpliSeq for Illumina Custom RNA Panel

Targeted custom RNA research panels for sequencing up to 1200 targets of interest, starting with as little as 1-100 ng RNA. FFPE-compatible.

Illumina RNA Prep with Enrichment

Achieve rapid targeted interrogation of an expansive number of genes with exceptional capture efficiency and coverage uniformity.

TruSight RNA Pan-Cancer

Targeting 1385 oncology genes for gene expression, variant and fusion detection in many RNA sample types including FFPE.

TruSight Tumor 170

Comprehensive panel detects single-nucleotide variants (SNVs), amplifications, and fusions that contribute to solid tumor progression.

TruSight RNA Fusion

A gene fusion detection panel targeting fusion associated genes in many cancer types with the ability to detect known and novel fusion gene partners.

DesignStudio Software

Easy-to-use, web-based assay design tool. Customize sequencing content to fit the needs of your study.

Library Prep Kit Selector

Determine the best kit for your needs based on project type, starting material, and method or application.

iSeq 100 System

Affordable, fast, and accessible sequencing power for targeted or small genome sequencing in any lab.

MiniSeq System

Targeted power. Access proven Illumina quality with this small, robust NGS system.

MiSeq Series

Focused power. Speed and simplicity for targeted and small genome sequencing.

NextSeq 550 System

Flexible power. Speed and simplicity for everyday genomics.

Illumina sequencing platforms

Compare sequencing platforms and identify the best system for your lab and applications.

Sequencing Reagents

Find kits that include sequencing reagents, flow cells, and buffers tailored to each Illumina sequencing system.

TruSeq Targeted RNA App

Analyzes RNA samples prepared using TruSeq Targeted RNA Expression Kits.

BaseSpace RNA Amplicon App

Enables gene expression profiling using amplicon panels sequenced on Illumina platforms.

Local Run Manager

Easy-to-use software for automated on-instrument data analysis.

Integrative Genomics Viewer

A genome browser developed by the Broad Institute of MIT and Harvard that displays NGS data for complex variant analysis.

Genomatix Pathway System (GePS)

Associates single gene or list of genes with annotation data for pathways, diseases, tissues, and small molecules.

iPathway Guide

Differential gene expression, drug interaction, and disease analysis.

BaseSpace Sequence Hub

The Illumina genomics computing environment for NGS data analysis and management.

BaseSpace Correlation Engine

A growing library of curated genomic data to support researchers in identifying disease mechanisms, drug targets, and biomarkers.

Additional Resources

RNA-Seq Methods Review

This overview discusses recent RNA-Seq research publications featuring Illumina technology.

Read Review

Push-Button Informatics

Illumina bioinformatics tools make it easier to manage, analyze, and interpret large amounts of complex genomic data.

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Targeted RNA-Seq and Circadian Rhythms

Dr. Hughes at University of Missouri-St. Louis uses targeted RNA-Seq to uncover the genetic mechanisms of circadian rhythms.

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FFPE RNA-Seq Tips

RNA-Seq analysis of FFPE and other low-quality samples offers valuable insights for disease research.

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RNA-Seq Data Analysis

User-friendly software tools simplify RNA-Seq data analysis for biologists, regardless of bioinformatics experience.

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Paired-End RNA-Seq

All Illumina sequencing systems are capable of paired-end sequencing, which facilitates detection of novel RNA transcripts, gene fusions, and more.

Learn More

*Data calculations on file. Illumina, Inc., 2015

For every lab, everywhere

NextSeq 1000 and NextSeq 2000 Reagents

NGS Workflow Finder

DRAGEN v4.3 now available on-premises and on-cloud

Illumina Proactive Instrument Performance Service

NovaSeq 6000 Reagent Kits v1.5

Bringing Greater Insights, Answers, and Breakthroughs to Light

Bringing Greater Insights, Answers, and Breakthroughs to Light

Bringing Greater Insights, Answers, and Breakthroughs to Light

Bringing Greater Insights, Answers, and Breakthroughs to Light

Bringing Greater Insights, Answers, and Breakthroughs to Light

Bringing Greater Insights, Answers, and Breakthroughs to Light

Bringing Greater Insights, Answers, and Breakthroughs to Light

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Focused sequencing of specific transcripts of interest

Gene expression and fusion detection in RNA samples

Introduction to Targeted RNA Sequencing

Advantages of Targeted Enrichment RNA-Seq

Advantages of Targeted Amplicon RNA-Seq

New Views of Cancer Pathways in Pediatric Leukemia

RNA Sequencing Library Prep

RNA Sequencing Considerations

Targeted RNA-Seq Workflow

Gene Panel and Array Finder

Related Solutions

Cancer Research: Variant Detection

Drug Development Research

Neurogenomics Research

Immunogenomics Research

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