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DriverMap™ Genome-Wide Targeted Expression Profiling Kit

The DriverMap™ Human Genome-Wide Targeted Expression Profiling Assay enables researchers to simultaneously measure the expression level of almost 19,000 human protein-coding genes in a single assay. By combining highly multiplexed RT-PCR amplification with the depth and precision of next-generation sequencing (NGS) quantitation, the DriverMap assay provides convenient, comprehensive, highly sensitive, and quantitative measurement of gene expression from total RNA.

Don’t miss out on critical changes in gene expression. Capture the complete gene expression picture of your with DriverMap targeted expression profiling kit.

  • Easy-to-run, one-tube, single-day expression profiling directly from total RNA from any tissue, cell, or blood samples
  • Efficient multiplex RT-PCR amplification for comprehensive profiles with greater detection of low abundant transcripts
  • Robust, reproducible data from low-input RNA samples—start with as little as 10 pg total RNA

Sensitive, Robust, and Broadly Dynamic, One-Tube Expression Profiling

The development of the DriverMap Assay involved extensive optimization and experimental validation of tens of thousands of primer sets to identify a pool of primers that could be combined in a single multiplex PCR reaction to amplify representative transcript sequences from each of 19,000 protein-coding genes in the human genome. The result is a rapid and convenient, single-tube, RT-PCR combined with NGS protocol (Fig. 1) that–without intermediate steps– provides robust measurements of each expressed gene from total RNA—even down to single-cell levels of 10 pg (Fig. 2)—with a highly quantitative and reproducible NGS readout generating up to 5-orders of magnitude digital expression level measurement.

 

DriverMap assay workflow

Figure 1: DriverMap Assay workflow combines the power of sophisticated primer design, multiplex RT-PCR and next-generation sequencing to yield a simple yet highly sensitive, reproducible targeted expression profiling solution.

 

DriverMap Correlation Plot

Figure 2: DriverMap Assay is able to measure expression from as low as 10 pg total RNA. The correlation (R-squared values) of detected genes between human universal RNA and total brain RNA remains highly consistent across a 10 pg to 50 ng of starting total RNA.

 

DriverMap assay has important benefits over other methods

  • Functionally validated, GCA-rich PCR primers minimize primer dimerization and cross-reactivity while maximizing specificity and efficacy
  • Wider dynamic range and 10- to 100-fold greater sensitivity than microarray and RNA-seq expression analysis methods to detect more low- and medium-abundant transcripts (Fig. 3)
  • Spike-in External RNA Controls Consortium (ERCC) calibration standards are included for data QC and normalization

Figure 3: RNA-Seq vs DriverMap Assay Heatmap. DriverMap Targeted Expression Profiling assay is 100-fold more sensitive than RNA-Seq.
With a broader dynamic range than RNA-Seq, at the high-abundant expression levels, differentially expressed abundant genes are less compressed so differences can be better detected. On the low-abundant levels, increased sensitivity detects more low-abundant genes.

 

Use DriverMap Assay Kit with Total RNA from Any Source

Unlike most expression analysis approaches, the DriverMap assay starts with total RNA. No mRNA enrichment is needed. Any standard RNA sample for RT-PCR is suitable for DriverMap analysis, e.g. total RNA from cells, frozen tissue, fine needle aspirate (FNA), whole blood, peripheral blood mononuclear cells (PBMCs), and mouse patient-derived xenograft (PDX) isolates. The targeted, validated primers used in the DriverMap assay specifically amplify the target transcript amplicon sequences with minimal background from other non-target RNAs. As a result, total RNA from blood can be assayed directly without removal of rRNA or globin components. In addition, with the DriverMap assay, human transcripts can be specifically amplified against the background of mouse RNAs in PDX samples.

The obvious choice for a wide range of applications

  • Biomarker Discovery from Whole Blood Samples—use whole blood RNA (e.g., PAXgene) without previous globin and ribosomal RNA depletion.
  • Circulating Tumor Cell (CTC) Detection in Whole Blood—no enrichment step needed.
  • Tumor Cellular Composition Analysis—comprehensive expression profiles to assess tumor/stromal cell content and profile infiltrating immune cell types
  • Patient-Derived Xenograft (PDX) Models— obtain human-specific expression profiles without separation of human cells from model-animal background cells
  • Expression Analysis of Cell Lines—easy 96- or 384-well single-tube protocol facilitates identification of the mechanisms of chemical and genetic perturbations
  • Expression Profiling of Rare and Limited Cell Populations—comprehensive analysis with limited numbers of cells isolated by FACS, magnetic beads or microfluidics, fine needle biopsies, and laser capture microdissection.

 

DriverMap Assay: Key Features & Benefits

Key FeaturesBenefits
Multiplex RT-PCR-NGS methodNo rRNA or globin depletion required.
Use directly with total RNA.
RNA Input10 pg total RNA (single-cell) minimum
1 ng - 50 ng is optimal
Sensitivity/ Dynamic RangeLinear data up to 10^5- fold dynamic range
10- to 100-fold more sensitive than RNA-Seq or GeneChip methods
SpecificityNo background (sequencing data)
Low cross-amplification of mouse RNAs
Single-tube protocol96 samples per day (2 hours hands-on time)
Result ValidationConventional qRT-PCR using the same DriverMap PCR primers

Cellecta can also run the DriverMap Assay on your samples for you. For more information, please see our DriverMap Service Page.

 

Catalog #Item DescriptionAmountPrice
DM-HGWDriverMap Human Genome-Wide Targeted Expression Profiling Kit1 kit - 24 reactions$2600
Contact us for more information or to receive a quote.