Overview

The process of designing a custom panel begins with target definition, including the gene(s) to be analyzed, regions of interest, and breadth of coverage. NuProbe’s assay design experts will work with you to define a panel that meets your project’s needs. During panel development, components are assembled followed by rigorous testing of sensitivity and reproducibility using reference materials. Panel verification is done to confirm assays are performing on applicable sample types and/or cell lines. Research sample testing is done in NuProbe’s Houston, TX facility.

The development of fully custom NGS panels can be done in as little as 10 weeks. Research sample testing is completed approximately 3 weeks after panel development is completed.

Development Process

Heme MRD Panels from NuProbe

  • Uses BDA technology to selectively enrich targets of interest
  • Custom panels from pre-designed and functionally tested components
  • Flexible coverage options ranging from full coding sequence (CDS) to hotspots
  • Optimized for measurable residual disease (MRD) research applications

Specifications

Parameter Specifications
Technology BDA
Gene Targets 1 – 5 custom-built from our heme gene list
Coverage Full gene (80-100% coverage) and/or hotspots
See gene list for coverage options
Alterations SNVs, Indels (FLT3-ITD up to 50 bp)
Limit of Detection 0.1 – 0.01% VAF
Sample Type Genomic DNA from PBMCs
DNA Requirements 2.5 – 6 μg** (recommended)
Sequencing Platform Illumina NextSeq or higher
Custom Assay Development Time Approximately 10 weeks
Research Sample Testing Turnaround Up to 3 weeks from sample receipt*

*sample testing is done after assay development is complete

**DNA input amount is based on assay size and configuration

Custom Solid Tumor ctDNA Panels from NuProbe

  • Utilizes QASeq technology for ultrasensitive detection of CNVs
  • Compatible with cfDNA or tumor tissue
  • CNV detection, or comprehensive CNV and SNV detection

Specifications

CNV Custom Panels CNV+ Custom Panels
Gene Targets 1 – 5 genes 1 – 5 genes
Coverage Gene-level CNVs* Full coding sequence for SNVs; gene-level for CNVs
Alterations CNVs CNVs, SNVs, Indels
Limit of Detection Down to 1.95/2.05 ploidy Down to 1.95/2.05 ploidy (CNVs), 0.2% VAF (SNVs and indels)
Sample Type FFPE, fresh frozen tissue, plasma, cell lines, extracted DNA FFPE, fresh frozen tissue, plasma, cell lines, extracted DNA
DNA Requirements 10 μg (recommended)
5 μg (minimum)
20 μg (recommended)10 μg (minimum)
Sequencing Platform Illumina NextSeq or higher Illumina NextSeq or higher
Custom Assay Development Time 8 weeks 12 weeks
Research Sample Testing Turnaround Up to 3 weeks Up to 3 weeks

*smaller and larger CNVs may be detected in some cases, please contact us to discuss

Get Started

Our dedicated team of scientists will work with you to design and develop a custom assay to meet your specifications. The process includes the following steps:

Contact us to start discussing how NuProbe’s technologies can accelerate your research projects.

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