TruSeq Custom Amplicon Low Input Kit

The TruSeq Custom Amplicon Low Input Library Prep Kit is a scalable amplicon sequencing solution that delivers sensitive and specific results from both low-input and formalin-fixed, paraffin-embedded (FFPE) DNA samples. It offers:

  • Accurate variant detection from as low as 10 ng of input genomic DNA (gDNA) and challenging FFPE samples
  • Fully supported, optimized workflow solution includes simple data analysis
  • Automation-friendly workflow can be completed in 6 hours, with only 3 hours of hands-on time

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Low DNA Input and FFPE Compatibility

The TruSeq Custom Amplicon Low Input Library Prep Kit is a fully customizable, amplicon-based assay for targeted resequencing starting from as low as 10 ng of genomic DNA (gDNA). This scalable assay allows researchers to capture multiple targets of interest simultaneously and sequence up to 1536 amplicons in a single pool, using a single reaction. This library prep kit offers the flexibility to accommodate FFPE samples, such as preserved tumor tissue.  


Integrated Workflow

The integrated Illumina workflow for amplicon sequencing enables biologists to access a fully supported solution, from design through analysis. The TruSeq Custom Amplicon Low Input Library Prep Kit is designed for and optimized on Illumina sequencing systems, without requiring additional laboratory equipment. A single source of technical and field specialists for library preparation, sequencing, and data analysis, as well as the combined expertise of the Illumina support team, ensure rapid resolution and minimize potential laboratory downtime.

Assess FFPE Sample Quality before Sequencing

For FFPE samples, Illumina offers the TruSeq FFPE DNA Library Prep QC Kit. It uses a simple qPCR reaction to determine DNA quality and provide guidance on sequencing parameters. This step ensures that only samples that will achieve the necessary sequencing metrics are prepared, conserving resources that might be used on potentially low-quality, unrecoverable samples. The results of the QC step determine the recommended amount of input DNA. The TruSeq FFPE DNA Library Prep QC Kit can be bundled with the TruSeq Custom Amplicon Low Input Library Prep Kit to maximize lab budgets.

Comparison of TruSeq Custom Amplicon Library Preparation Kits

Technology TruSeq Custom Amplicon Low Input TruSeq Custom Amplicon v1.5
Amplicon plexity (single pool) Up to 1536 Up to 10,000 (via Concierge)
Input requirement as low as 10 ng 50 ng
FFPE Compatibility Yes – 10 ng (FFPE DNA input dependent on quality) Yes – 250 ng
Amplicon size 150, 175, 250 bp 150, 175, 250, 425 bp
Instrument MiniSeq, MiSeq, NextSeq MiniSeq, MiSeq, NextSeq
Read Length Up to 2 x 150 bp Up to 2 x 300 bp
Time 6.5 hours 10 hours
Kit size (samples) 16, 96+ 96+


Product Literature

Description Document Type File Info
TruSeq Custom Amplicon Low Input Data Sheet PDF< 1 MB

Catalog IDs: FC-134-2001, FC-134-2002, FC-121-9999