AmpliSeq for Illumina Transcriptome Human Gene Expression Panel

Targeted panel that measures expression levels of >20,000 human RefSeq genes.

6 hours (library prep only; doesn't include library quantification, normalization, or pooling time)

Assay time

< 1.5 hr

Hands-on time

1-100 ng RNA (10 ng recommended)

Input quantity

See full details in the specifications table

Overview

The AmpliSeq for Illumina Transcriptome Human Gene Expression Panel is a highly multiplexed targeted resequencing assay for measuring expression levels of over 20,000 human RefSeq genes in a single assay.

Key features

  • Fast gene expression profiling - Prepare libraries in 6 hours with < 1.5 hours hands-on time; results 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.

  • DNA-to-Analysis Solution - Take advantage of a comprehensive workflow that spans library preparation, sequencing, and analysis.

The Transcriptome Human Gene Expression Panel is part of an integrated workflow that includes AmpliSeq for Illumina polymerase chain reaction (PCR)-based library preparation, Illumina sequencing by synthesis (SBS) next-generation sequencing (NGS) technology, and automated analysis.

This ready-to-use panel saves you the time and effort of identifying targets, designing primers, and optimizing panels.


Specifications


Required products

The AmpliSeq for Illumina Transcriptome Human Gene Expression Panel workflow requires the Transcriptome Panel, Library PLUS kit, and index adapter. RNA workflow also requires cDNA Synthesis.

/ Results

Applications

Example workflow

1
Prep

AmpliSeq for Illumina Transcriptome Human Gene Expression Panel

2

Related applications and methods

Compare

AmpliSeq for Illumina Transcriptome Human Gene Expression Panel Illumina Stranded Total RNA Prep with Ribo-Zero Plus or Ribo-Zero Plus Microbiome TruSeq Stranded Total RNA TruSeq Stranded Total RNA with Ribo-Zero Globin
Assay time 6 hours (library prep only; doesn't include library quantification, normalization, or pooling time) ~7 hr 11.5 hr 11.5 hr
Content specifications > 95% of human RefSeq genes; 20,802 genes; captures human transcriptome Captures coding RNA plus multiple forms of non-coding RNA Captures coding RNA plus multiple forms of non-coding RNA Captures coding RNA plus multiple forms of non-coding RNA
Description Study the expression levels of >20,000 human RefSeq genes using sequence-specific amplicons.

For the preparation of whole-transcriptome sequencing-ready libraries from low RNA inputs and low-quality samples that supports a wide range of RNA-Seq applications. Includes Ribo-Zero Plus for single-tube depletion of rRNA and globin RNA from multiple species to facilitate rich transcriptome analyses. 

For whole-transcriptome sequencing studies. The Total RNA version depletes cytoplasmic rRNA while the Total RNA Gold version depletes cytoplasmic and mitochondrial rRNA. For whole-transcriptome sequencing studies of blood-derived RNA. Depletes cytoplasmic and mitochondrial rRNA plus globin mRNA.
Hands-on time < 1.5 hr < 3 hr 5.5 hr 5.5 hr
Input quantity 1-100 ng RNA (10 ng recommended)

1–1000 ng total RNA for standard-quality RNA samples. 10 ng total RNA minimum recommended for optimal performance and FFPE samples 

0.1 – 1 ug high-quality total RNA. Lower-quality samples may require further optimization. 0.1 – 1 ug high-quality purified total RNA from blood
Instruments NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, NovaSeq X System, NextSeq 500 System, NovaSeq 6000 System, NovaSeq X Plus System NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, NovaSeq X System, NextSeq 500 System, NovaSeq 6000 System, NovaSeq X Plus System NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, NovaSeq X System, NextSeq 500 System, NovaSeq 6000 System, NovaSeq X Plus System
Mechanism of action Multiplex PCR Enzymatic rRNA depletion, ligation-based addition of adapters and indexes Bead-based rRNA depletion, cDNA synthesis, and PCR Bead-based rRNA depletion, cDNA synthesis, and PCR
Method Exome sequencing, mRNA sequencing, Targeted RNA sequencing Whole-transcriptome sequencing, Metatranscriptome sequencing Whole-transcriptome sequencing Whole-transcriptome sequencing
Nucleic acid type RNA RNA RNA RNA
Number of amplicons 1 pool
Specialized sample types Blood, FFPE Tissue Microbiome Samples, Low-Input Samples, FFPE Tissue FFPE Tissue Blood
Species category Human Mouse, Human, Rat, Bacteria Mouse, Human, Rat Mouse, Human, Rat
Technology Sequencing Sequencing Sequencing Sequencing
Variant class Transcript variants Single nucleotide polymorphisms (SNPs), Gene fusions, Novel transcripts, Transcript variants Single nucleotide polymorphisms (SNPs), Gene fusions, Novel transcripts, Transcript variants Single nucleotide polymorphisms (SNPs), Gene fusions, Novel transcripts, Transcript variants

Panel (1)

AmpliSeq™ Transcriptome Human Gene Expression Panel for Illumina®

20019170

Sufficient for 24 reactions when paired with AmpliSeq Library PLUS for Illumina. Purchase library prep, index adapters, and accessory products 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 (4)

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™ for Illumina® Sample ID Panel

20019162

Includes eight single nucleotide polymorphism (SNP)-targeting primer pairs and one gender discriminating primer pair sufficient for 96 reactions when paired with AmpliSeq Library PLUS for Illumina. Enables quick and accurate sample identification. Purchase library prep, probe panels, and index adapters separately.

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AmpliSeq™ for Illumina® Direct FFPE DNA

20023378

Includes 24 reactions to prepare DNA from unstained, slide-mounted FFPE tissues for library construction using AmpliSeq for Illumina protocol, without the need for deparaffinization or DNA purification.

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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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Selection summary

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