High-performance genomic mapping assays

CUTANA™ Assays for CUT&RUN and CUT&Tag leverage recent advancements in immunotethering technologies to deliver efficient, ultra-sensitive chromatin mapping capabilities. Both of these exciting new technologies offer clear advantages over ChIP-seq, the standard assay for epigenomic profiling, including:

  • Fewer cells required
  • Only 3-5 million sequencing reads required / sample
  • Improved signal-to-noise
  • Significant time and cost savings

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CUTANA™ CUT&RUN and CUT&Tag assays generate high-quality data with a fraction of the cell input and sequencing depth needed for ChIP-seq. A representative 300 kb region at the LAMC3 gene is shown for CUT&Tag (orange), CUT&RUN (green), and ChIP-seq (blue). Data was generated using H3K4me3 and H3K27me3 antibodies (EpiCypher 13-0041 and 13-0030, respectively). Rabbit IgG negative control antibody (EpiCypher 13-0042) and ChIP input control are shown for comparison (scaled to the track with the highest signal in each approach).

Two innovative CUTANA™ workflows, one giant leap for chromatin mapping

CUTANA CUT&RUN Workflow

CUT&RUN is compatible with ≥5000 cells

CUTANA™ CUT&RUN K-562 cell titration experiments, data quality is largely indistinguishable down to 5,000 cells. Genome tracks show representative regions from cell titration experiments for H3K4me3.

CUTANA CUT&RUN Workflow
CUTANA CUT&RUN Workflow

CUT&Tag is compatible with ≥1000 cells

CUTANA™ CUT&Tag K-562 cell titration experiments, data quality is largely indistinguishable from down to 1,000 cells. Genome tracks show representative regions from cell titration experiments for H3K4me3.

CUTANA CUT&RUN Workflow

CUT&RUN or CUT&Tag: which approach is right for you?

CUT&RUN or CUT&Tag: which approach is right for you?

CUT&RUN

We recommend CUT&RUN for the majority of users.

  • Map histone PTMs or chromatin-associated proteins (e.g. transcription factors)
  • Compatible with ≥5000 cells
  • Input: cells or nuclei
  • Library preparation separate from workflow
  • Only 3-5 million sequencing reads required
  • Robust and rigorously optimized protocols available for diverse inputs and conditions
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CUT&Tag

We recommend CUT&Tag for low-input histone PTM mapping (less than 5,000 cells).

  • Map histone PTMs only (not compatible with most chromatin-associated proteins)
  • Compatible with ≥1000 cells
  • Input: nuclei recommended
  • Library preparation integrated into workflow
  • Only 3-5 million sequencing reads required
  • Histone PTM validated protocol currently available
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Researchers around the globe are leveraging CUTANA CUT&RUN and CUT&Tag assays to make exciting discoveries in the epigenetics field. See what some of our customers have been up to!

CUT&RUN Publications

  • Li et al. ZMYND11-MBTD1 induces leukemogenesis through hijacking NuA4/TIP60 acetyltransferase complex and a PWWP-mediated chromatin association mechanism. Nat. Comm. 12, 1045 (2021). (PMID: 33594072)
  • Yusufova et al. Histone H1 loss drives lymphoma by disrupting 3D chromatin architecture. Nature 589, 299–305 (2021). (PMID: 33299181)
  • Yuan et al. Elevated NSD3 histone methylation activity drives squamous cell lung cancer. Nature 590, 504–508 (2021). (PMID: 33536620)

CUT&Tag Publications

  • Kaya-Okur et al. CUT&Tag for efficient epigenomic profiling of small samples and single cells. Nat. Comm. 10, 1930 (2019). (PMID: 31036827)
  • Kaya-Okur et al. Efficient low-cost chromatin profiling with CUT&Tag. Nat. Protoc. 15, 3264-3283 (2020). (PMID: 32913232)
  • Henikoff et al. Efficient chromatin accessibility mapping in situ by nucleosome-tethered tagmentation. eLife 16;9:e63274 (2020). (PMID: 33191916)
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