Targeted custom research panels optimized for sequencing specific targets or genomic content of interest.
Assay time
Hands-on time
Input quantity
The AmpliSeq for Illumina Custom DNA Panel is the recommended replacement for the TruSeq Custom Amplicon and TruSeq Custom Amplicon Low-Input kits, which have been discontinued.
Achieve unmatched data quality with AmpliSeq chemistry and Illumina next-generation sequencing (NGS) technology, even from low-quality starting materials such as formalin-fixed, paraffin-embedded (FFPE) tissues.
Easily design custom content with DesignStudio, a free, user-friendly, online tool that creates panels optimized for the targets or specific genomic content of interest.
Flexible and tunable designs from 12 to over 12,000 amplicons, and multiple amplicon size options.
Increased efficiency with a 5.5-hour library preparation workflow with only 1.5 hours of hands-on time.
Multiple options for sequencing platforms, data analysis, and support meet virtually any throughput requirements.
| Assay time | As low as 5 hr (library prep only; doesn't include library quantification, normalization, or pooling time) |
|---|---|
| Content specifications | Custom content of interest - up to 5 Mb |
| Description | A custom research assay that can be used to focus studies on specific genes, regions, or variants of interest with high accuracy. |
| Hands-on time | 1.5 hours |
| Input quantity | 1–100 ng (10 ng recommended per pool) |
| Instruments | MiSeq System, iSeq 100 System, NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, MiSeqDx in Research Mode, MiniSeq System, NextSeq 550Dx in Research Mode |
| Mechanism of action | Multiplex PCR |
| Method | Genotyping by Sequencing, Amplicon Sequencing, Custom Sequencing, Targeted DNA Sequencing |
| Multiplexing | Up to 96-plex |
| Nucleic acid type | DNA |
| Number of amplicons | 12 to 12,288 amplicons |
| Number of reactions | 750 or 3000 reactions |
| Specialized sample types | Blood, FFPE Tissue |
| Species category | Any species, Tomato, Bovine, Mouse, Canine, Rice, Ovine, Hamster, Chicken, Porcine, Human, Maize, Soybean |
| Species details | Compatible with any species; predefined genomes available |
| Technology | Sequencing |
The AmpliSeq for Illumina Custom workflow requires the Custom Panel, Library PLUS kit, and index adapter.
AmpliSeq for Illumina Custom DNA Panel
With targeted resequencing, a subset of genes or a genomic region is isolated and sequenced, which can conserve lab resources.
AmpliSeq for Illumina Community Panels
These predesigned sequencing panels contain content selected and designed with input from leading disease researchers.
Illumina NGS and microarray technologies for cancer research are helping drive the revolution in cancer genomics.
| AmpliSeq for Illumina Custom DNA Panel | AmpliSeq for Illumina On-Demand | Illumina DNA Prep with Enrichment | |
|---|---|---|---|
| Assay time | As low as 5 hr (library prep only; doesn't include library quantification, normalization, or pooling time) | As low as 5 hr (library prep only; doesn't include library quantification, normalization, or pooling time) | ~6.5 hr |
| Content specifications | Custom content of interest - up to 5 Mb | Custom content from 1 (24 amplicons) to 500 (15,000 amplicons) genes |
Exome: 45 Mb exonic content (≥98% of RefSeq, CCDS, and Ensembl coding content). Custom: 0.5 - 15 Mb genomic content of interest. Fixed panels: Content varies by panel. |
| Description | A custom research assay that can be used to focus studies on specific genes, regions, or variants of interest with high accuracy. | A custom research assay from >5000 pretested genes that can be used to focus studies on specific genes, regions, or variants of interest with high accuracy. |
Prepare sequencing libraries for a variety of experiments, including whole-exome, custom, and fixed panel targeted sequencing, from low DNA inputs and a variety of sample types in ~6.5 hours. |
| Hands-on time | 1.5 hours | 1.5 hr | ~2 hr |
| Input quantity | 1–100 ng (10 ng recommended per pool) | 1-100 ng DNA | 10-1000 ng high-quality genomic DNA or 50-1000 ng FFPE DNA. (For blood and saliva, see the reference guide). |
| Instruments | MiSeq System, iSeq 100 System, NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, MiSeqDx in Research Mode, MiniSeq System, NextSeq 550Dx in Research Mode | MiSeq System, iSeq 100 System, NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, MiSeqDx in Research Mode, MiniSeq System, NextSeq 550Dx in Research Mode, NextSeq 500 System | |
| Mechanism of action | Multiplex PCR | Multiplex PCR | Bead-bound transposomes and hybrid-capture chemistry |
| Method | Genotyping by Sequencing, Amplicon Sequencing, Custom Sequencing, Targeted DNA Sequencing | Amplicon Sequencing, Targeted DNA Sequencing | Target Enrichment, Exome Sequencing, Custom Sequencing, Targeted DNA Sequencing |
| Multiplexing | Up to 96-plex | Up to 96-plex | Up to 384 available unique dual indexes. Pre-enrichment pooling of up to 12-plex is tested. |
| Nucleic acid type | DNA | DNA | |
| Number of amplicons | 12 to 12,288 amplicons | ||
| Number of reactions | 750 or 3000 reactions | 24 or 96 reactions | Custom workflow: 16 or 96 samples |
| Specialized sample types | Blood, FFPE Tissue | Blood, FFPE Tissue | |
| Species category | Any species, Tomato, Bovine, Mouse, Canine, Rice, Ovine, Hamster, Chicken, Porcine, Human, Maize, Soybean | Human | Other, Human |
| Species details | Compatible with any species; predefined genomes available | ||
| Technology | Sequencing | Sequencing |
DNA Amplicon LRM Module
AmpliSeq™ Custom DNA Panel for Illumina®
20020495
Custom assay supporting 750 or 3000 samples with < 4999 amplicons. Purchase Library PLUS and index adapters separately.
AmpliSeq™ Custom DNA Large Panel for Illumina®
20020497
Sufficient for 3000 samples with > 4999 amplicons. Purchase Library PLUS and index adapters separately.
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™ 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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AmpliSeq for Illumina DNA Library Prep Training
20023392
AmpliSeq™ for Illumina®, Sequencing Service
20025874
AmpliSeq for Illumina custom sequencing project in Illumina Lab for 96–384 samples to support research projects (priced per sample). Includes pre-project consult, Illumina scientist support, experimental design, sample shipment coordination, library preparation and sample QC, sequencing, data analysis on BSSH and/or sequencing run files, technology transfer, fixed or custom panel, and consumables. Turnaround time is 6–8 weeks.
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Advanced chemistry, optics, and informatics combine to deliver exceptional speed and data quality, outstanding throughput and scalability.
Optimized reagent kit that provides increased cluster density and read length, improving sequencing quality scores compared to earlier versions.
Enable CGP with a large pan-cancer panel covering all major variant classes plus gene signatures (TMB, MSI, and HRD) from FFPE tissue.
A fast, integrated workflow for preparing libraries for use in a wide range of sequencing applications.
Targeted RNA expression panel investigating 395 genes involved in tumor-immune system interactions.
Targeted sequencing panel that assesses germline mutations across 113 genes and 125 SNPs associated with genetic cancer risk predisposition.
Reagents for the iSeq 100 System feature a ready-to-use cartridge with one-channel SBS chemistry and CMOS technology for simple, low-cost sequencing.
Tailor panel designs for human disease research efficiently and conveniently by selecting from a catalog of over 5,000 pretested genes.
Targeted panel for investigating 203 genes associated with cancer in children and young adults.
Targeted DNA and RNA research panel investigating 52 genes with known relevance to solid tumors.
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