Reliable and robust chromatin mapping assays
CUTANA® ChIC / CUT&RUN assays leverage recent advancements in immunotethering technologies to deliver efficient, ultra-sensitive chromatin mapping capabilities. Compared to ChIP-seq, the leading assay for epigenomic profiling, CUT&RUN offers clear advantages:
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CUTANA® CUT&RUN offers distinct advantages vs. ChIP-seq, the standard chromatin mapping assay.
How does CUT&RUN work?
The Cleavage Under Targets and Release Using Nuclease (CUT&RUN) method builds upon Chromatin ImmunoCleavage (ChIC) technology.
In CUT&RUN, a fusion of protein A, protein G and micrococcal nuclease (pAG-Mnase) is used to selectively cleave antibody-labelled chromatin. This strategy eliminates immunoprecipitation steps, greatly simplifying the assay workflow. Clipped chromatin fragments are isolated from solution and used for NGS.
The targeted enrichment of CUT&RUN allows for better signal : noise with only 3-5 million reads, significantly reducing sequencing costs vs ChIP-seq.
CUT&RUN has superior signal : noise with
> 10-fold reduced seq depth compared to ChIP-seq
A representative 350 kb region of H3K4me1 profiles in K562 cells, generated using CUT&RUN (yellow tracks), native ChIP-seq (blue tracks), or cross-linked ChIP-seq (green tracks). All data were generated by EpiCypher and are expressed as reads per million (RPM). Color-coded gradient (to right) represents signal-to-noise ratios determined by genome-wide analysis (bamFingerprint data, not shown).
Go from cells to data in < 4 Days
Get started with CUTANA® CUT&RUN assays
CUTANA®pAG-MNase for ChIC / CUT&RUN
Start performing your own CUT&RUN experiments with CUTANA pAG-MNase, the key reagent for CUT&RUN assays. Available for 50 or 250 reactions.
The CUTANA® CUT&RUN Protocol
EpiCypher offers a collection of products for CUT&RUN assays, including pAG-MNase, spike-in controls, antibodies, and accessory reagents / tools, making it easy to create your own assay or follow a standard protocol.
We have developed a reliable and user-friendly CUT&RUN protocol, optimized for:
- Diverse targets, including histone PTMs, transcription factors, and more
- Low cell inputs (down to 5,000 cells)
- Reduced sequencing depths (3-5 million reads)
- Fresh, frozen, and cross-linked cells or nuclei
In addition, we have addressed common issues (e.g. bead clumping / loss) and enabled high-throughput sample handling via an 8-strip format. The protocol includes notes throughout, critical steps, pictures for clarity, and a FAQ section.