QX100™ Droplet Digital™ PCR System

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Overview

Researcher Testimonials for the QX100™ Droplet Digital™ PCR System

The QX100 Droplet Digital PCR system is used in numerous laboratories worldwide, helping scientists solve research problems using a variety of applications, such as copy number variation (CNV), rare mutation detection, gene expression analysis, and sample quantification for next-generation sequencing (NGS). There are many research areas that can benefit from digital PCR technology, including HIV research, cancer studies, and psychological disorders.

Read about other researchers' work and find out how they are employing digital PCR technology using the QX100 Droplet Digital PCR system.

Dr. Gary Lee, senior scientist at Sangamo BioSciences, Inc.

Droplet Digital™ PCR Opens New Perspectives in HIV Research, BioRadiations, June 2012
Sangamo BioSciences, Inc., located in Richmond, California, is developing HIV therapeutics toward a functional cure using their proprietary zinc finger DNA-binding protein technology. Droplet Digital PCR (ddPCR™) – or third generation PCR – offers a superior solution because it can detect a target sequence within a single molecule, making it a powerful technology for low-copy event detection.

Download the PDF file of the article.

Watch this video interview of Dr. Gary Lee and his laboratory at Sangamo BioSciences, Inc.


Dr. Steve McCarroll, faculty member and principal investigator, Department of Genetics at Harvard Medical School and the Broad Institute of Harvard and MIT.

Third Generation PCR: A Novel Way to Accurately Measure Copy Number Variations in Human Genome, BioRadiations, February 2012
The McCarroll laboratory studies the biological effects of human genome polymorphism, seeking to define how genome variation influences gene expression and disease risk. About half of his laboratory works on understanding genome variation in general — its distribution, molecular properties, and influence on gene expression. The other half investigates genome variation to reveal the genetics underlying schizophrenia and bipolar disorder. McCarroll's laboratory was one of the first to acquire the QX100 system to study regions of the genome that are structurally complicated — regions that have been influenced by many different structural mutations in their history.

Download the PDF file
of the article.

3-D Animation Video of How to Use the QX100™ Workflow

Droplet Digital™ PCR is a powerful tool for quantitative DNA measurements, allowing you to achieve absolute quantification of target DNA sequences in your sample. The key is the sample partitioning step, which allows you to perform PCR individually on each partition/droplet that contains your target DNA.

This 3-D animation video describes Droplet Digital PCR principles and illustrates the complete process using the QX100 Droplet Digital PCR system.

Droplet Digital™ PCR Publications

Browse the growing list of cited peer-reviewed journal articles in Droplet Digital™ PCR research featuring Bio-Rad products.

The publications appear in journals such as PLOS ONE, Cell, Nucleic Acids Research, and Nature Methods and span the following applications:

Cancer
 
mRNA quantification and expression
Copy number variation
Mutation detection
Droplet Digital PCR methods/ analytical performance
Next-generation sequencing library quantification/validation
Environmental studies
Pathogen detection (microbe/viral)
Epigenetics
Plasma/cell-free DNA
Gene expression  

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Recognition of the QX100™ Droplet Digital™ PCR System

Bio-Rad's QX100 Droplet Digital PCR system has been recognized throughout the media for its innovative design, its contribution to the progression of PCR technology, and its significant role in research efforts to facilitate scientific advancements.

Awards

The QX100 Droplet Digital PCR system won R&D Magazine's 2012 R&D 100 Award. These awards recognize the 100 most technologically significant products introduced into the marketplace over the past year as selected by R&D Magazine's editors and an independent judging panel.

The QX100 Droplet Digital PCR system won a 2012 Laboratory Equipment Readers' Choice Award in the Biotechnology category. The 4th annual award celebrates "excellence in product design and performance for the tools and materials used by scientists and engineers in research laboratories." Laboratory Equipment readers voted for products online.

In the News

Baker M. Digital PCR hits its stride. Nature Methods, Technology Feature, May 30, 2012.
Read this article online.

Bizouarn F. Digital PCR: Improving Nucleic Acid Quantification — Precision, Accuracy, and Sensitivity are Among the Benefits Reported by Researchers. Genetic Engineering & Biotechnology News, Assay Tutorial, May 1, 2012; 32, 9.
Download the PDF file.

Dimond PF. Bio-Rad Squashes Idea That the Company Is Up for Grabs. Genetic Engineering & Biotechnology News, Insight&Intelligence, May 21, 2012.
Read this article online.

Droplet Digital PCR System Allows Researchers to Study Biological Systems with Unprecedented Precision. The Scientist, The Guide, March 2012.
Download the PDF file.

Smith C. Absolute Quantification with Digital PCR. Biocompare, February 22, 2012.
Read this article online.

Droplet Digital™ PCR Application and Performance Data

The high precision, accuracy, and sensitivity of Droplet Digital PCR can be applied to a range of applications, including copy number variation (CNV) and rare mutation detection. The following data illustrate the performance of Bio-Rad's QX100™ Droplet Digital™ PCR (ddPCR™) system.

Copy Number Variation Data
The QX100 ddPCR system provides high resolution between copy number states and allelic discrimination. The ddPCR system's CNV data are shown to help validate next-generation genome sequencing data.



Calculation of copy number variation. A, for MRGPRX1, the copy number states from 1 to 6 were completely resolved. B, SMN1 and SMN2 copy number estimation is plotted in two dimensions where each point represents an individual sample. The allelic discrimination 5' nuclease assays for SMN1 and SMN2 allow researchers to count genes that differ by only one nucleotide. C, CCL3L1 gene copy number determination on 19 samples demonstrates the accuracy and precision of ddPCR. The data demonstrate that copy number measurements cluster on integers up to 13 copies. Results validate previous next-generation genome sequencing data, indicating 5.7 copies for NA18507.** Samples were obtained from the Coriell Institute. All error bars represent 95% Poisson confidence intervals (CIs).



Rare Mutation Detection Data
The QX100 ddPCR system offers high sensitivity and displays the ability to measure the varying degrees of a cell line mutagenesis.

Duplex PCR using TaqMan probes targeting the BRAF V600E mutation. The data show ddPCR detects a 0.001% mutant fraction. AU, absorbance units.



Gene Expression Analysis Data
The QX100 ddPCR system enables gene expression analysis with ±10% precision.

The data show a dilution series of two mRNAs. β-actin (); ANP32B ().


Performance Data
The QX100 ddPCR system demonstrates a linear dynamic range, extreme precision, accurate quantitative measurements, and high sensitivity.

Dynamic range. A, concentration results for twofold dilutions from 150 to 150,000 copies/reaction; B, concentration results for 1.1-fold dilutions demonstrate precision at ±10% with a 95% CI. The error bars are at the 95% CI. The reference gene () was constant at 19,000 copies/reaction.


* Replicate variation (95% Cl).
** Alkan C et al. (2009). Nat Gen 41, 1061–1067.

Droplet Digital™ PCR Technology and Workflow

A Breakthrough in Quantitative PCR
The QX100™ Droplet Digital™ PCR (ddPCR™) system is the third generation of PCR technology. The QX100 ddPCR system provides an absolute measure of target DNA molecules for quantitative PCR applications, such as copy number variation, rare sequence detection, mutation detection, and gene expression analysis. The QX100 ddPCR system provides single-copy PCR resolution to accelerate discoveries and new strategies for the research of inherited disorders, cancer, and infectious diseases.

A Simple, Elegant Workflow
The QX100 droplet generator partitions samples into thousands of nanoliter-sized droplets. After PCR on a thermal cycler, droplets from every sample are streamed in single file on the QX100 droplet reader to count positive and negative reactions. The PCR-positive and PCR-negative droplets are counted to provide absolute quantification in digital form.

Discontinued Product
The QX100 system has been replaced by the new QX200™ Droplet Digital™ PCR system. However, we will continue to provide support for customers with the QX100 system.

 

The QX100 Droplet Digital PCR (ddPCR™) system provides an absolute quantification of target DNA molecules with unrivaled performance in precision, accuracy, and sensitivity for quantitative PCR applications. The award-winning QX100 Droplet Digital PCR system is the third generation of PCR technology and provides a revolutionary approach to target DNA quantification.

The QX100 Droplet Digital PCR system's high-level performance lets you:

  • Detect rare DNA target copies with unmatched sensitivity
  • Measure small fold differences with the highest precision

Droplet Digital PCR Technology and Workflow

The QX100 system consists of two components: the QX100 droplet generator and the QX100 droplet reader. A Bio-Rad thermal cycler equipped with a 96–deep well reaction module is also needed to complete the Droplet Digital PCR workflow.

The QX100 droplet generator partitions samples containing cDNA or RNA template into 20,000 nanoliter-sized droplets. After PCR, droplets from each sample are streamed in single file through the QX100 droplet reader. The PCR-positive and PCR-negative droplets are counted to provide absolute quantification of target DNA in digital form.

Watch this video describing how the QX100 Droplet Digital PCR system works.

Applications and Uses for the QX100 Droplet Digital PCR System

There are many research areas that can benefit from digital PCR technology, including HIV research, cancer studies, and psychological disorders. The applications enabled by the ability of Droplet Digital PCR technology to achieve absolute quantification are described in numerous scientfic journal publications, conference poster presentations, our own BioRadiations articles, and Bio-Rad technical reports.

Watch our researcher testimonial video and read selected researcher profiles to discover how scientists in diverse fields apply digital PCR technology using the QX100 Droplet Digital PCR system. These researchers and others are using the QX100 system to help solve research problems in a variety of applications including, but not limited to, the following:

  • Copy number variation (CNV)
  • Rare sequence detection
  • Mutation detection
  • Gene expression analysis of rare transcripts
  • miRNA analysis
  • Next-generation sequencing sample quantification

A Simple, Elegant Workflow

QX100 Droplet Digital PCR system workflow

View the complete QX100 system workflow.

More Information

The QX100 Droplet Digital PCR system requires the use of either the C1000 Touch™ or S1000™ thermal cycler with 96–deep well reaction module.

Bio-Rad offers exclusive accessories and PCR reagent kits for use with the ddPCR system. PCR reagent kits include 2x supermix kits with probe-based target detection and one-step RT-ddPCR kits (with probes). The PX1™ PCR plate sealer effectively seals PCR plates prior to thermal cycling. The pierceable foil heat seal provides a secure sealing option for digital PCR applications.

Explore the features of the QX100 system in more depth in the QX100™ Droplet Digital™ PCR System Brochure (bulletin 6237) or contact your Bio-Rad sales representative for more information.

 

Starting sample size, µl 20
QX100 droplet generator capacity, samples/cartridge 8
Droplets generated per sample 20,000
Target copies per droplet Up to 5
QX100 droplet reader capacity 96-well PCR plate
QX100 droplet reader throughput, wells/hr 32
Sample illumination Light-emitting diodes
Sample detection Photomultiplier tubes
Detection channels FAM, HEX (VIC)
Linear dynamic range 5 orders of magnitude
Precision ±10%
Droplets per 96-well plate, million 1.4
Number Description Options
6554 Droplet Digital™ PCR: Detection of DNA Methylation Application Note, Rev A Click to download [ Add to Cart (Free) ]
10040717 QX200 Droplet Generation Oil for EvaGreen Product Insert, Rev B Click to download
10040718 Droplet Generation Oil for Probes Product Insert, Rev B Click to download
6407 Droplet Digital PCR Applications Guide, Rev A Click to download
6541 Droplet Digital™ PCR: TRAPing Telomerase Activity Using Droplet Digital PCR Application Note, Rev A Click to download
6311 QX200 Droplet Digital PCR System Brochure, Rev B Click to download
6338 Droplet Digital™ PCR (ddPCR™) Supermixes Flier, Rev A Click to download
6495 Bio-Rad’s ddPCR™ Library Quantification Kit for Ion Torrent Enables Accurate Library Quantification and Excellent Balancing of Pooled Libraries, Rev A Click to download
6490 ddPCR Library Quantification Kit for Ion Torrent Flier, Rev A Click to download
6277 Probing Copy Number Variations Using Bio-Rad's QX100 Droplet Digital PCR System, Rev A Click to download [ Add to Cart (Free) ]
6318 Droplet Digital PCR Opens New Perspectives in HIV Research [Sangamo BioSciences, Inc. laboratory interview]. BioRadiations, Solutions, June 15, 2012 Click to download
6319 Third Generation PCR: A Novel Way to Accurately Measure Copy Number Variations in Human Genome [Harvard laboratory interview]. BioRadiations, Featured Stories, February 9, 2012 Click to download
6237 QX100™ Droplet Digital™ PCR System Brochure, Rev C Click to download
6250 One-Step RT-ddPCR Kit for Probes Flier, Rev A Click to download
10026321 Instruction Manual, QX100™ Droplet Reader and QuantaSoft™ Software, Rev A Click to download
10026322 Instruction Manual, QX100™ Droplet Generator, Rev A Click to download
6257 PX1 PCR Plate Sealer and Heat Sealing Consumables Brochure, Rev A Click to download
6290 PrimePCR Assays and Panels Brochure, Rev D Click to download
10023997 Instruction Manual, PX1 PCR Plate Sealer, Rev A Click to download
10026868 ddPCR Supermix for Probes (no dUTP) Product Insert, Rev C Click to download
10031986 ddPCR Library Quantification Kit for Illumina TruSeq Product Insert, Rev C Click to download
10028782 One-Step RT-ddPCR Kit for Probes Product Insert, Rev B Click to download
10026235 ddPCR Supermix for Probes Product Insert, Rev B Click to download
10033630 ddPCR Library Quantification Kit for Ion Torrent Product Insert, Rev B Click to download
6343 QX100 Droplet Digital PCR System for Accurate Quantification of Illumina TruSeq Libraries, Rev B Click to download
6402 ddPCR Library Quantification Kit for Illumina TruSeq Flier, Rev B Click to download
6424 Droplet Digital™ PCR: Ultra-Sensitive Rare Event Detection Using Bio-Rad’s QX100™ Droplet Digital PCR System Application Note, Rev B Click to download
6475 Droplet Digital PCR: High-Resolution Copy Number Variation Analysis Application Note, Rev A Click to download
6497 Droplet Digital PCR: Linking Microbial Physiology and Phylogeny Using Bio-Rad’s QX100 Droplet Digital PCR System Application Note, Rev A Click to download
6450 Droplet Digital PCR Publications List, Rev F Click to download
6451 Droplet Digital PCR: Guidelines for Multiplexing Using Bio-Rad’s QX100 Droplet Digital PCR System Application Note, Rev A Click to download
6512 PrimePCR Assays for Droplet Digital PCR Brochure. Rev A Click to download