The SuperArray ChIP-qPCR Assays are pre-designed and validated real-time PCR assays optimized to measure genomic DNA promoter sequence enrichment within chromatin immunoprecipitation (ChIP) samples. With our ChIP-qPCR assays, you can quickly and quantitatively generate ChIP data for any gene promoter region in the human, mouse and rat genomes. Simply search for and select the desired ChIP-qPCR assays from our 30 kb promoter tiling series for every RefSeq transcription start site (TSS):

Let the ChIP-qPCR Assays help you expand your ChIP experiments to more IP targets or more promoter regions of interest. The assays are also useful for validating your genome-wide ChIP-on-chip discovery experiments. Combine the ChIP-qPCR Assay results with mRNA measurements using SuperArray's RT² qPCR Primer Assays and RT² Profiler™ PCR Arrays to confirm that changes in transcription factor recruitment are reflected in the promoter's transcript levels.

Why ChIP-qPCR Assays?

Speed and Ease: No need for post-run gel-based analysis with quantitative and higher-throughput SYBR® Green real-time PCR. Standardized PCR conditions let you measure enrichment at multiple sites simultaneously in the same PCR run. Profile more promoter regions at one time from your same ChIP sample preparation.

Save Time and Money: Optimized and ready-to-use assays eliminate the need for repeated fruitless rounds of problematic genomic DNA assay design and quality control. Analyze enrichment of other promoter regions of interest with previously isolated ChIP material.

Guaranteed Performance: High amplification efficiency and specificity for every ChIP-qPCR Assay is pre-validated and guaranteed, when used with our RT² qPCR Master Mixes. Quantify all ChIP DNA fractions including the non-specific (mock) IP control fraction.

Comprehensive Coverage: Tiled qPCR assays are available for every human, mouse or rat gene promoter included in the NCBI RefSeq Database from -20 kb to +10 kb relative to the TSS. Exceeds the range of all promoter regions currently utilized by high-density promoter-tiling microarrays facilitating rapid validation of ChIP-on-chip results.

Complete Overview of the ChIP-qPCR Assays

How It Works

The preparative technique of chromatin immunoprecipitation (ChIP) produces a purified genomic DNA sample that is enriched for DNA fragments containing specific sequences that were bound in vivo by the targeted nuclear factor. ChIP experiments are often designed to study transcription factor-DNA interactions that regulate gene expression through promoter activation or suppression. SuperArray’s ChIP-qPCR Assays can be used in conjunction ChIP samples to measure DNA sequence enrichment due to nuclear factor binding in any human, mouse or rat gene promoter.

SuperArray's ChIP-qPCR assays are designed to detect specific genomic DNA sequences within a 30 kb promoter region around every transcription start site (TSS) in the RefSeq database. An average 1 kb assay tiling interval, when coupled with an average fragmentation size of 1 kb, provides a balance between sensitivity and resolution and provides a ChIP-target independent approach well-suited for rapidly establishing functional screening assays. Additionally, a custom qPCR array plate of ChIP-qPCR assays can be used to measure multiple target factor and promoter interactions on a single instrument run.

ChIP-qPCR Assays meet all the essential requirements for accurate and reliable delta-delta C_t calculations for absolute fractional enrichment of a target nuclear factor at a specific promoter site as well as relative fold-change differences across multiple samples. For details on these calculations and on interpreting the results, see our ChIP-qPCR Assay Data Analysis Template.

Related ChIP-qPCR Products:

ChIP-qPCR Negative Control IGX Assays
Detect genomic DNA sequences within ORF-free intergenic regions or "promoter deserts" to insure that the chosen antibody is not pulling down a high level of general genomic DNA non-specifically compared to the negative control ChIP antibody.
Find out more about our ChIP-qPCR Negative Control IGX Assays.

ChIP-qPCR Positive Control Proximal HKG Promoter Assays
Detects RNA Polymerase II binding to the constitutive promoter of a highly expressed housekeeping gene (HKG) to insure that the ChIP proceeded successfully.
Find out more about our ChIP-qPCR Positive Control Proximal HKG Promoter Assays.

Customization:
Custom ChIP-qPCR assay design accommodates validation of ChIP-on-chip results from whole genome or whole chromosome tiling microarrays as well as other non-promoter focused regions (e.g. monitoring of chromatin remodeling or differentially methylated loci) investigated by ChIP analysis. Pre-dispensed Custom ChIP-qPCR Array plates allow convenient, simultaneous testing of multiple promoter regions or convenient arrangement of all ChIP and PCR controls for complete ChIP-qPCR analyses.

Custom ChIP-qPCR Assays
Need a different tiling interval? Looking for more specific genomic location not currently covered by our promoter tiling scheme? Working in a non-mammalian species? Let our qPCR experts design assays for your genomic DNA regions of interest with the same rigorous bioinformatic and quality control process used on our cataloged products.
Find out more about our Custom ChIP-qPCR Assays.

Custom ChIP-qPCR Arrays
Combine multiple cataloged, control, and/or custom assays in a 96- or 384-well format to screen multiple promoter region or to validate ChIP-on-chip experiments.
Find out more about our Custom ChIP-qPCR Arrays.