CUTANA Multiomic CUT&RUN Assays
CUTANA™ Multiomic CUT&RUN Assays
Next-Gen Multiomic Profiling of DNA Methylation and Chromatin Proteins
Understanding gene regulation requires a complete picture of chromatin structure, including both DNA methylation and chromatin protein binding. Traditional approaches like ChIP-seq and bisulfite sequencing are expensive, time-consuming, and require complex data integration. Moreover, these analyses cannot directly reveal how epigenetic features interact at the same loci.
CUTANA™ Multiomic CUT&RUN solves these problems by mapping chromatin proteins and DNA methylation together in a single reaction, capturing novel insights to drive biological discovery.
Why Choose Multiomic CUT&RUN?
- Reveal the full regulatory landscape. Map DNA methylation at protein binding sites with base-pair resolution.
- Streamline discovery with a single workflow. Profile chromatin proteins and DNA methylation from one sample.
- Low cost, maximal sensitivity. Low cell inputs and sequencing requirements provide flexibility for various projects.
Rich Insights with a Streamlined, Cost-Effective Approach
Traditional multiomic DNA methylation approaches integrate chromatin immunoprecipitation sequencing (ChIP-seq) with whole-genome bisulfite sequencing (WGBS) datasets. However, these assays are cost-prohibitive for many labs, require large numbers of cells, and take weeks (or longer!) to complete. Moreover, simply overlaying ChIP-seq and WGBS datasets cannot directly capture how chromatin proteins and DNA methylation functionally interact at the same loci, limiting the biological insights that can be derived.
Multiomic CUT&RUN allows you to see the full picture of chromatin regulation with a single workflow!
A Breakthrough Approach for DNA Methylation Research
CUTANA™ Multiomic CUT&RUN is the first workflow to enable simultaneous detection of DNA methylation and chromatin proteins in a single reaction.
Figure 1: The CUTANA™ Multiomic CUT&RUN workflow can be divided into 3 easy steps. In Step 1, CUT&RUN is used to enrich target-bound chromatin. Only 5,000-500,000 cells per reaction is needed. In Step 2, unmethylated cytosines are converted to uracils for base-pair resolution DNA methylation analysis. Note that enzymatic or bisulfite conversion may be used. Step 3 is next-generation sequencing and data analysis. Only 30-50 M total reads are needed for robust multiomic analysis of target protein and underlying DNA methylation.
Explore DNA Methylation + Histone PTM
and Chromatin Protein Crosstalk
Powered by CUT&RUN technology, this approach provides base-pair resolution of CpG methylation at transcription factor binding sites, histone PTMs, and chromatin-modifying enzymes (Figure 2).
Key observations:
- No 5mC at active promoters marked by H3K4me3
- High association of 5mC with H3K36me3, a PTM that denotes active gene bodies and intergenic regions
- Transcription factors generally have low tolerance for DNA methylation (e.g. CTCF)
Figure 2: Representative CUTANA™ Multiomic CUT&RUN data showing base-pair resolution CpG methylation at chromatin targets. Each reaction used 500,000 K562 cells. Target chromatin was enriched with the CUTANA Multiomic CUT&RUN Workflow, followed by Enzymatic Methyl-seq (EM-seq) conversion and library prep.
Do more with less—sample, time, and budget. Extract maximum data from minimal input, reducing both sequencing needs and experimental complexity.
Multiomic CUT&RUN is compatible with various cell lines and sample types (Figure 3), and requires just 30-50 M total sequencing reads, making it ideal for studying:
- Cancer epigenetics: Transposon reactivation and biomarker discovery
- Developmental regulation: Transcriptional silencing and heterochromatin dynamics
- Genomic stability: Chromatin structure response to drugs, environment, toxins
Figure 3: Multiomic CUT&RUN with EM-seq conversion (CUT&RUN-EM) reveals levels of CpG methylation associated with distinct chromatin proteins, across various cells lines. Black dots represent replicates.
Get Started with CUTANA Multiomic CUT&RUN Today!
We have everything you need to get started with Multiomic CUT&RUN:
- Multiomic CUT&RUN Controls Set: The key postitive and negative controls for Multiomic CUT&RUN, plus our expert guidance via a new workflow manual!
- CUT&RUN Kit A user-friendly kit to enrich target chromatin; key for Multiomic CUT&RUN assays.
- CUT&RUN-Validated Antibodies High quality antibodies with exquisite sensitivity, expertly validated for CUT&RUN.