pAG-MNase & positive control antibody are now available!

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CUTANA™ assays vastly outperform ChIP-Seq

When compared with ChIP-seq, CUTANA™ assays have lower sequencing requirements, improved signal-to-noise, and reduced assay time.

How do CUTANA™ assays work?
CUTANA™ assays use a proprietary immunotethering approach similar to Chromatin ImmunoCleavage (ChIC) and Cleavage Under Targets and Release Using Nuclease (CUT&RUN) methods. This approach can be used to map histone post-translational modifications (PTMs) and chromatin interactors (e.g. transcription factors) with high sensitivity and resolution.

Cells (or nuclei) are immobilized on lectin-coated magnetic beads, permeabilized, and incubated with an antibody to a chromatin target (e.g. histone PTM or chromatin / DNA binding protein). Next, a fusion of protein A, protein G, and micrococcal nuclease (pAG-MNase) is added, which binds to the antibody, and is then activated via Ca2+ to cleave the DNA. The clipped chromatin fragments can then be easily purified and analyzed by next-generation sequencing.

CUTANA™ assays have clear advantages over ChIP-seq, the current gold-standard genomic mapping assay.

CUTANA™ assay workflow

From cells to data in less than 4 days.

DAY 1-2

DNA Purification

DAY 2-3

Library Preparation for NGS




Data Analysis

EpiCypher's team of scientists have extensively optimized our CUT&RUN protocol to ensure consistent yields, high reproducibility, and high signal-to-noise across a variety of chromatin binding targets:
  • Histone PTMs
  • Transcription Factors
  • Chromatin Regulators and Remodelers
In addition, we have addressed common issues (e.g. bead clumping/loss), and enabled multi-channel high-throughput sample handling via an 8-strip tube format. The protocol includes notes throughout, critical steps, pictures for clarity, and a FAQ section.

Generate high quality data using as few as 3 million reads

Low background. Highly reproducible. Cut through the noise.

A representative 350 kb region of an H3K4me1 profile in K-562 cells, generated using CUTANA (yellow panels), native ChIP-seq (blue panels), or cross-linked ChIP-seq (green panels). All data were generated by EpiCypher and are expressed as reads per million (RPM). Color- coded gradient (to right) represents signal/noise (S/N) ratios determined by genome-wide analysis (bamFingerprint data, not shown).

CUTANA™ Supporting Reagents and Tools
Available To Order Now

H3K4me3 CUT&RUN Compatible Positive Control Antibody

The first ever antibody with demonstrated, reliable performance in CUT&RUN assays. Delivers genome-wide enrichment highly correlated with H3K4me3 ChIP-seq data.

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CUTANA™ pAG-MNase for ChIC / CUT&RUN Assays

Fusion of proteins A and G to Micrococcal Nuclease containing a C-terminal 6xHis epitope tag. For more information, see the technical data sheet. Available in 50 or 250 reaction pack sizes.

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CUTANA™ Rabbit IgG CUT&RUN Negative Control Antibody

Examine non-specific background signal in CUT&RUN experiments using this rabbit IgG antibody. Also compatible with other applications (e.g. ChIP-seq).

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Magnetic Separation

Magnetic Rack designed to hold 16 0.2ml PCR tubes. Two possible tube positions for large and small volumes. Accommodates multichannel pipette for easy sample handling and increased throughput.

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Concanavalin A (ConA) Coated Magnetic Beads

Concanavalin A is a lectin that binds to extracellular glycoproteins. ConA magnetic beads can be used to immobilize cells or nuclei for CUT&RUN applications.

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CUTANA™ CUT&RUN 8-strip 0.2mL tubes

PCR 8-well strip tubes with individual attached flat caps enable increased throughput and improved sample handling for CUT&RUN experiments. DNase and RNase free. 

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About EpiCypher

A pioneer in the field of epigenetics and chromatin biology, EpiCypher is a biotechnology company developing transformative technologies to advance chromatin science and improve human health.

EpiCypher manufactures and sells a series of products and assay platforms that use recombinant “designer” nucleosomes (dNucs), including SNAP-ChIP® for quantitative ChIP applications, EpiDyne® for nucleosome remodeling assays, dCypher® to interrogate epigenetic regulators, recombinant histone binding proteins and enzymes, peptides and antibodies; and a broad range of custom substrate / assay development services.

General inquiries:

Questions? Give us a call.
(855) 374-2461