CUT&RUN
Precise mapping of protein–DNA interactions with low background noise
What is CUT&RUN Sequencing?
Cleavage Under Targets and Release Using Nuclease (CUT&RUN) is an epigenomic method for mapping protein-DNA interactions with high resolution and low background noise. In CUT&RUN, antibodies are used to precisely target specific protein-DNA complexes, followed by a recombinant micrococcal nuclease that cleaves chromatin at targeted binding sites, enabling accurate profiling of transcription factors, histone modifications, and chromatin-associated proteins.
Compared to traditional ChIP-seq, CUT&RUN requires significantly fewer cells and lower sequencing depth, making it a more efficient and cost-effective approach, while delivering clearer signal-to-noise ratios. The resulting high-quality data provides more precise insights into transcription factor binding, chromatin organization, and epigenetic regulation. These factors are key to understanding mechanisms in development, disease, and therapeutic research.
Key Advantages of CUT&RUN Sequencing
High Resolution
Map protein-DNA interactions with precision
Low Background Noise
Detect true binding events with minimal background interference
Low Cell Requirement
Works effectively with fewer cells or challenging samples
Requires less sequencing depth, reducing overall costs
Cost-Effective
Frequently Asked Questions
Sending samples? See our DNA sample submission guidelines for best practices on sample preparation, packaging, and shipment for the highest quality results.
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For CUT&RUN projects, we typically work with cells or tissue.
Please contact us if you have specific questions about sample submission requirements. -
If your sample does not meet our quality control standards at any point in the workflow, we will contact you immediately. We will discuss the specific failure point and provide options, which may include re-submitting the sample, proceeding with a modified workflow, or canceling the project. We believe in transparency and working with you to achieve the best possible outcome.
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For CUT&RUN projects, bioinformatics include preliminary QC and trimming, genome alignment, duplicate removal, alignment QC, normalization, annotation, enrichment analysis, peak calling & QC, clustering, differential analysis, functional analysis, combined density profile analysis, and motif analysis.
Our team can created customized solutions tailored to your project. Contact us to inquire about our customized options.
Get the Most out of Your Study
Maximize your project’s potential with advanced analysis solutions. Our team of expert bioinformaticians curate pipelines tailored to your project’s experimental design.
See CUT&RUN in Action
Admera Health provides comprehensive support for all projects, and delivers publication-ready data. Discover how researchers are using Admera Health to advance their Epigenomics studies.