Applied Biosystems TaqMan Copy Number Assays combine TaqMan MGB probe chemistry with Applied Biosystems real-time PCR instruments to provide a method for obtaining specific, reproducible, and easy-to-interpret copy number results. This fast and simple method can be completed in hours rather than days. Use TaqMan Copy Number Assays to screen specific targets using a workflow that can be automated to process several hundred to thousands of samples in a single day. And because TaqMan Assays are the gold standard for accurate target quantitation, they are ideal for use in microarray follow-up studies.

The TaqMan Copy Number Assay family includes the following:

Predesigned TaqMan Copy Number Assays

  • Human: over 1.6 million predesigned assays available for genome-wide coverage
  • Mouse: over 180,000 predesigned assays available for gene exons
  • Common vector marker and reporter gene assays 

Custom Plus TaqMan Copy Number Assays

  • Submit user-defined human or mouse genomic targets for custom assay design, including up-front bioinformatic sequence analysis and in silico QC

Custom TaqMan Copy Number Assays for other targets of interest

  • Submit any masked target sequences for assay design
  • Submit primer/probe pair sequences for assay synthesis
  • Does not include up-front bioinformatic sequence analysis or in silico QC

Human and mouse TaqMan Copy Number Reference Assays are also available.

A simple method for studying study copy number variation, TaqMan Copy Number Assays feature easy assay ordering and a simple workflow to enable quick results. 

TaqMan Copy Number Assays Video Brochure ›

Experimental workflow (human and animal): Find the products you need for every step

For plant samples, please visit our Agrigenomics section.

Isolate and purify genomic DNA.

Products for Step 1: Prepare Sample

DNA Isolation Kits 
Kits for isolating DNA from blood, cells, tissues, plasmids, and more.

Select or design TaqMan probes for test assays. For human samples, select an RNase P or TERT reference assay. For mouse samples, select a Tfrc or Tert reference assay. 

Predesigned TaqMan Copy Number Assays
Applied Biosystems TaqMan Copy Number Assays are designed for CNV analysis and include over 1.6 million human assays with genome-wide coverage. The mouse collection includes over 180,000 assays targeting gene exons. Assays for common vector marker and reporter genes are also available for transgenic studies. 

Custom and Custom Plus TaqMan Copy Number Assays
Custom and Custom Plus TaqMan Copy Number Assays enable the generation of specific, reproducible, and easy-to-interpret copy number results. They are ideal for validation studies and large sample screens. Custom Plus Assays help define human or mouse genomic targets for custom assay design, and feature the same quality as predesigned copy number assays. Custom Plus Assays undergo thorough bioinformatic analysis, including SNP and repetitive sequence masking, as well as genome specificity checks. Custom TaqMan Copy Number Assays are not limited by species—they can be designed to any target sequence. Custom Assays do not, however, include up-front bioinformatic sequence analysis or in silico QC.

Prepare a reaction plate and amplify DNA using sequence-specific primers and a TaqMan probe on an Applied Biosystems real-time PCR system. Note: TaqMan Copy Number Assays (test assays) are run simultaneously with your choice of a TaqMan Copy Number Reference Assay. 

Reagents & kits

TaqPath ProAmp Master Mixes*
Applied Biosystems TaqPath ProAmp Master Mixes are versatile master mixes developed for high-throughput genotyping and copy number variation protocols requiring accurate results from samples containing PCR inhibitors. TaqPath ProAmp Master Mix includes Applied Biosystems ROX passive reference dye for lower multiplexing of up to 3 targets.

TaqPath ProAmp Multiplex Master Mix*
TaqPath ProAmp Master Mixes are versatile master mixes developed for high-throughput genotyping and copy number variation protocols requiring accurate results from samples containing PCR inhibitors. TaqPath ProAmp Multiplex Master Mix includes Applied Biosystems MUSTANG PURPLE passive reference dye for higher multiplexing of up to 4 targets.

* General purpose reagents: TaqPath master mixes are general purpose reagents manufactured in an ISO 13485–certified facility and labeled "For Laboratory Use."

Instruments & accessories

ProFlex PCR System
The Applied Biosystems ProFlex PCR System combines the reliability and performance you’ve come to expect from Applied Biosystems thermal cyclers with the flexible configuration and control features that fit how you work today. Interchangeable block formats allow you to maximize your throughput or run independent experiments concurrently.

SimpliAmp Thermal Cycler
The Applied Biosystems SimpliAmp Thermal Cycler is an easy-to use, compact, and accurate thermal cycler designed to fit every lab’s essential PCR workflow. Innovations like a responsive color touch screen and Applied Biosystems VeriFlex temperature control technology enable simple, accurate optimization. 

Using data analysis software, calculate the possible copy numbers for a set of samples in a run, provide confidence values for each copy number call, and remove any outliers in your data.

Software

CopyCaller Software
CopyCaller Software enables you to perform relative quantitation analysis of genomic DNA targets using the real-time PCR data from predesigned, Custom Plus, or Custom TaqMan Copy Number Assays. The software and associated copy number assays can be used to detect and measure copy number variation of specific sequences in the human and mouse genomes. 

 Download


Resources

Product Bulletins

 Posters

Application Notes

Background References (Web) 

Citations (Web) 

* General purpose reagents: TaqPath master mixes are general purpose reagents manufactured in an ISO 13485–certified facility and labeled "For Laboratory Use."