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AmpliSeq for Illumina Custom RNA Fusion Panel

A customizable targeted panel for detecting fusion genes and measuring gene expression that can include up to 1200 targets of interest.

Overview

The AmpliSeq for Illumina Custom RNA Fusion Panel enables detection of fusion genes and gene expression profiling in 12 to 1200 gene targets in a single assay. Targeted panels can be designed from a menu of over 1000 well-annotated fusion genes and > 20,000 human RefSeq genes using DesignStudio—a web-based assay design software tool.

Key features

  • Fast gene fusion detection - Prepare libraries in 6 hours with < 1.5 hours hands-on time. Results are available in < 2 days.

  • Low-quality, low-quantity sample input - Obtain high-quality data even when starting with minimal input from formalin-fixed, paraffin-embedded (FFPE) tissues.

  • RNA-to-analysis solution - Take advantage of a comprehensive workflow that spans library preparation, sequencing, and analysis.

An AmpliSeq for Illumina Custom RNA Panel is part of an integrated workflow that includes AmpliSeq for Illumina polymerase chain reaction (PCR)-based library preparation, Illumina sequencing by synthesis (SBS) chemistry and next-generation sequencing (NGS) technology, and automated analysis.

Learn more about AmpliSeq for Illumina

Specifications

Automation capability Liquid handling robots
Cancer type Hematologic, Solid tumor
Instruments MiSeq System, iSeq 100 System, NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, MiniSeq System, NextSeq 500 System
Method Custom sequencing, Amplicon sequencing, Targeted RNA sequencing
Nucleic acid type RNA
Specialized sample types Blood, FFPE tissue
Species category Human
Strand specificity Non-stranded
Technology Sequencing
Variant class Gene fusions, Transcript variants

Required Products

The AmpliSeq for Illumina library preparation workflow requires a panel, library prep reagents (Library Plus), and indexes. Accessory products are also available for FFPE sample prep, cDNA synthesis, and library normalization.

AmpliSeq cDNA Synthesis for Illumina is required to convert total RNA to cDNA when working with AmpliSeq for Illumina RNA Panels.

AmpliSeq Library Equalizer for Illumina is an easy-to-use solution for normalizing libraries while using AmpliSeq for Illumina library prep methods.

/ Results

Applications

Example workflow

1
Prep

AmpliSeq for Illumina Custom RNA Panel

2
Sequence
3
Analyze

Related applications and methods

Amplicon Sequencing

Ultra-deep sequencing of PCR amplicons enables analysis of specific genomic regions of interest. Learn more about amplicon sequencing and find comprehensive solutions.

Cancer RNA Sequencing

Detect cancer gene expression and transcriptome changes and identify novel cancer transcripts with RNA next-generation sequencing (RNA-Seq).

Documentation

Product literature
Manuals and Support Information

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Figures

High call rate for gene fusions

  Custom Fusion Panel A (+12 Gene Expression Targets) Custom Fusion Panel B (+28 Gene Expression Targets) Call Rate
RNA Source: Seraseq Fusion RNA Mix v3      
EML4-ALK
 • • 100%
KIF5B-RET
 • • 100%
NCOA4-RET
 - • 100%
CD74-ROS1
 • • 100%
SLC34A2-ROS1 • • 100%
TPM3-NTRK1
 • • 100%
FGFR3-BAIAP2L1
 • • 100%
PAX8-PPARG1
 - • 100%
FGFR3-TACC3
 - - -
ETV6-NTRK3
 • • 100%
LMNA-NTRK1
 - - -
SLC45A3-BRAF
 • • 100%
TMPRSS2-ERG
 • • 100%
EGFR-SEPT14 • • 100%
Reference fusions detected in panel (expected/observed)
 10/10 12/12  

Panel (1)

AmpliSeq™ Custom RNA Fusion Panel for Illumina®

20032798

Targeted custom RNA fusion panel. 12 to 1,200 amplicons. Sufficient for 1,125 reactions. Library PLUS and index adapters sold separately.

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Library prep (3)

AmpliSeq™ Library PLUS (24 Reactions) for Illumina®

20019101

Includes reagents for preparing 24 libraries. Purchase AmpliSeq for Illumina panel and index adapters separately.

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AmpliSeq™ Library PLUS (96 Reactions) for Illumina®

20019102

Includes reagents for preparing 96 libraries. Purchase AmpliSeq for Illumina panel and index adapters separately.

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AmpliSeq™ Library PLUS (384 Reactions) for Illumina®

20019103

Includes reagents for preparing 384 libraries. Purchase AmpliSeq for Illumina panel and index adapters separately.

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Index adapters (6)

AmpliSeq™ UD Indexes for Illumina® (24 Indexes, 24 Samples)

20019104

Includes 24 indexes sufficient for labeling 24 samples. Purchase library prep and enrichment reagents and probe panels separately.

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AmpliSeq™ CD Indexes Set A for Illumina®

20019105

Includes 96 indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.

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AmpliSeq™ CD Indexes Set B for Illumina®

20019106

Includes 96 indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.

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AmpliSeq™ CD Indexes Set C for Illumina®

20019107

Includes 96 indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.

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AmpliSeq™ CD Indexes Set D for Illumina®

20019167

Includes 96, 8 bp indexes sufficient for labeling 96 samples. Purchase library prep reagents and probe panels separately.

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AmpliSeq™ CD Indexes Set A-D for Illumina® (384 Indexes, 384 Samples)

20031676

Includes four sets of AmpliSeq CD Indexes for Illumina, Set A, Set B, Set C and Set D. Each set contains 96, 8 bp indexes sufficient for labeling 96 samples. Purchase library prep and probe panels separately.

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Accessory products (2)

Ampliseq™ cDNA Synthesis for Illumina®

20022654

Includes reaction mix and enzyme blend to convert total RNA to cDNA when working with AmpliSeq for Illumina RNA Panels (eg, AmpliSeq for Illumina Immune Response, Immune Repertoire Plus, TCR beta Panel, Myeloid, Transcriptome Human Gene Expression, Focus, and Comprehensive Panel v3 as well as Custom or Community RNA Panels). Number of reactions vary by panel (eg, 100 reactions per kit for AmpliSeq for Illumina Immune Response, Focus, Comprehensive Panel v3, and Custom panels and 200 reactions per kit for AmpliSeq for Illumina Transcriptome Human Gene Expression, Myeloid, Immune Repertoire Plus, and TCR beta Panels).

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AmpliSeq™ Library Equalizer for Illumina®

20019171

Includes beads and reagents for library normalization when preparing AmpliSeq for Illumina libraries for sequencing.

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