Targeted DNA and RNA research panel investigating variants across 161 genes associated with a range of cancer types.
Assay time
Hands-on time
Input quantity
The AmpliSeq for Illumina Comprehensive Panel v3 offers coverage of key cancer genes, including kinase domains and genes involved in DNA repair.
The panel content spans hotspot regions, full-length genes*, copy number genes, and inter- and intragenic gene fusions. This ready-to-use panel saves you the time and effort of identifying targets, designing primers, and optimizing panels.
The Comprehensive Panel v3 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.
*For this panel, Illumina defines full-length gene content as covering the majority of the gene’s coding regions, generally having > 90% in silico coverage and with most genes having > 99% coverage. Please refer to the provided product manifest file for further detail.
| Assay time | 5-6 hr (library prep only; doesn't include library quantification, normalization, or pooling time) |
|---|---|
| Cancer type | Solid tumor |
| Content specifications | DNA and RNA targets for 161 oncogenes |
| Description | Somatic analysis research on hotspot and full-length targets of genes* associated with solid tumor cancers. |
| Hands-on time | <1.5 hr |
| Input quantity | 1–100 ng (10 ng recommended per pool) |
| Instruments | NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, NextSeq 550Dx in Research Mode |
| Mechanism of action | Multiplex PCR |
| Method | Targeted DNA sequencing, Amplicon sequencing, Targeted RNA sequencing |
| Multiplexing | 96 dual index combinations |
| Nucleic acid type | DNA, RNA |
| Number of amplicons | 4,648 total 4 pools (DNA pool 1: 1,891 amplicons. DNA pool 2: 1,890 amplicons. RNA pool 1: 447 amplicons. RNA pool 2: 420 amplicons.) |
| Specialized sample types | FFPE tissue |
| Species category | Human |
| Technology | Sequencing |
| Variant class | Single nucleotide polymorphisms (SNPs), Gene fusions, Somatic variants, Insertions-deletions (indels), Copy number variants (CNVs) |
AmpliSeq for Illumina Comprehensive Panel v3
| Instrument | Recommended number of samples | Read length |
|---|---|---|
| MiniSeq System | 3 samples per run (high output; assumes minimum coverage of 500×) |
2 × 150 bp |
| MiSeq System | 3 samples per run with v3 reagents (assumes minimum coverage of 500×) |
2 × 150 bp |
| NextSeq 550 System | Samples per run: mid output: 16, high output: 48 (assumes minimum coverage of 500×) |
2 × 150 bp |
With targeted resequencing, a subset of genes or a genomic region is isolated and sequenced, which can conserve lab resources.
Our sequencing and microarray technologies support a broad range of cancer genomics research applications, from DNA to RNA analysis, epigenetics, and more.
| AmpliSeq for Illumina Comprehensive Panel v3 | TruSight Tumor 170 | TruSight Tumor 15 | AmpliSeq for Illumina Focus Panel | AmpliSeq for Illumina Cancer Hotspot Panel v2 | |
|---|---|---|---|---|---|
| Assay time | 5-6 hr (library prep only; doesn't include library quantification, normalization, or pooling time) | ~2 days | 7 hr | 5-6 hr (library prep only; doesn't include library quantification, normalization, or pooling time) | 5 hours (library prep only; doesn't include library quantification, normalization, or pooling time) |
| Cancer type | Solid tumor | Solid tumor | Pan-cancer, Solid tumor | Solid tumor | Pan-cancer, Solid tumor |
| Content specifications | DNA and RNA targets for 161 oncogenes | Probes enrich for full coding sequences of 170 genes. Calls single nucleotide variants, small insertions, and deletions in 151 genes, amplifications in 59 genes, and fusions plus splice variants in 55 genes. | Amplifies 250 amplicons from 15 genes associated with solid tumors | DNA and RNA targets for 52 oncogenes | Hotspot regions of 50 genes with known associations to cancer |
| Description | Somatic analysis research on hotspot and full-length targets of genes* associated with solid tumor cancers. | Perform comprehensive somatic variant detection research in solid tumors using variant calling information from both DNA and RNA. | NGS assay for 15 commonly mutated genes in solid tumors using 20 ng DNA. | Somatic analysis research on 52 genes associated with solid tumor cancers. | Somatic analysis research into hotspot regions of 50 cancer-related genes. |
| Hands-on time | <1.5 hr | ~10.5 hr | 3.5 hr | < 1.5 hr | < 1.5 hr |
| Input quantity | 1–100 ng (10 ng recommended per pool) | 40 ng DNA and/or RNA | 20 ng FFPE DNA | 1–100 ng (10 ng recommended per pool) | 1–100 ng (10 ng recommended per pool) |
| Instruments | NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, NextSeq 550Dx in Research Mode | NextSeq 550 System, NextSeq 500 System, HiSeq 2500 System | MiSeq System, MiSeqDx in Research Mode, MiniSeq System | MiSeq System, iSeq 100 System, MiSeqDx in Research Mode, MiniSeq System | MiSeq System, iSeq 100 System, MiSeqDx in Research Mode, MiniSeq System |
| Mechanism of action | Multiplex PCR | Multiplex PCR | Multiplex PCR | ||
| Method | Targeted DNA sequencing, Amplicon sequencing, Targeted RNA sequencing | Targeted DNA sequencing, Targeted RNA sequencing, Target enrichment | Targeted DNA sequencing, Amplicon sequencing | Targeted DNA sequencing, Amplicon sequencing, Targeted RNA sequencing | Targeted DNA sequencing, Amplicon sequencing |
| Multiplexing | 96 dual index combinations | Up to 32-plex for DNA using both index sets, up to 16-plex for RNA | 1-24-plex | 96 dual index combinations | 96 dual index combinations |
| Nucleic acid type | DNA, RNA | DNA, RNA | DNA | DNA, RNA | DNA |
| Number of amplicons | 4,648 total 4 pools (DNA pool 1: 1,891 amplicons. DNA pool 2: 1,890 amplicons. RNA pool 1: 447 amplicons. RNA pool 2: 420 amplicons.) | 553 total. 2 pools. (DNA Pool: 269 amplicons. RNA Pool: 284 amplicons.) | 207 total. 1 pool. | ||
| Specialized sample types | FFPE tissue | Low-input samples, FFPE tissue | FFPE tissue | FFPE tissue | FFPE tissue |
| Species category | Human | Human | Human | Human | Human |
| Technology | Sequencing | Sequencing | Sequencing | Sequencing | Sequencing |
| Variant class | Single nucleotide polymorphisms (SNPs), Gene fusions, Somatic variants, Insertions-deletions (indels), Copy number variants (CNVs) | Gene fusions, Somatic variants, Structural variants, Single nucleotide variants (SNVs), Insertions-deletions (indels), Copy number variants (CNVs) | Somatic variants, Insertions-deletions (indels) | Single nucleotide polymorphisms (SNPs), Gene fusions, Somatic variants, Insertions-deletions (indels), Copy number variants (CNVs) | Single nucleotide polymorphisms (SNPs), Somatic variants, Insertions-deletions (indels) |
AmpliSeq™ Comprehensive Panel v3 for Illumina®
20019109
DNA and RNA targeted panel that targets SNVs, Indels, CNVs and gene fusions. Kit contains 24 reactions. Library PLUS and index adapters sold separately.
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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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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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Ampliseq™ CD Indexes Large Volume for Illumina® (96 Indexes, 96 Samples)
20019108
AmpliSeq for Illumina CD Indexes Large Volume offers higher fill volumes for added convenience when performing AmpliSeq for Illumina Exome or automated AmpliSeq for Illumina library prep workflows involving panels with 4 or more pools.
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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® 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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