CUTANA™ ATAC-seq Kit
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The CUTANA™ ATAC-seq Kit provides validated reagents and a streamlined workflow for generating sequencing-ready ATAC-seq libraries from cells or isolated nuclei. ATAC-seq was first described by Buenrostro et al. as a rapid method for mapping accessible chromatin by direct in vitro transposition of sequencing adapters into native chromatin [1]. The assay enables genome-wide analysis of open chromatin and regulatory element activity from low nuclei inputs.
The CUTANA™ ATAC-seq Kit includes pre-charged CUTANA™ Tn5 Transposome for ATAC-seq and optimized buffers for robust, reproducible chromatin accessibility profiling. Built on the foundation of the Omni-ATAC protocol described by Corces et al. and detailed by Grandi et al. [2,3], which established the performance standards researchers have come to expect from ATAC-seq, the CUTANA™ ATAC-seq Kit reimagines the workflow with optimized reagents and streamlined assay conditions designed to deliver a fully validated, user-friendly experience. These improvements support higher library yields, improved signal-to-noise, and consistent generation of high-quality sequencing-ready libraries from cells or isolated nuclei.
Key Advantages
- Streamlined workflow from cells to sequencing-ready ATAC-seq libraries
- Includes pre-charged CUTANA™ Tn5 Transposome for ATAC-seq
- Built on proven Omni-ATAC workflow principles
Optimized buffers and workflow conditions for robust, reproducible performance
For a cells-to-libraries experience, add both the CUTANA™ ATAC-seq Kit and CUTANA™ Nextera-Compatible Primers to your order.
For customers who prefer an end-to-end experience, see CUTANA™ ATAC-seq Services.
To place bulk orders, contact us. Keep learning by checking out our Tech Support Center.
Figure 1: CUTANA™ ATAC-seq generates reproducible data that outperforms ENCODE
ATAC-seq performed on K562 nuclei using the CUTANA™ ATAC-seq Kit and analyzed with the CUTANA Cloud ATAC-seq pipeline. The assay yields reproducible data that meets or exceeds ENCODE reference data across users and days. Three experiments are shown (two users, three days) against ENCODE K562 ATAC-seq (GSE170214). (A) Genome browser tracks at high- (GAPDH, 15 kb), medium- (VAMP2, 11 kb), and low-expression (SLC12A5, 35 kb) loci, expression tiers set by RNA-seq (SRR4235541, SRR4235542), show sharp, concordant peaks at active loci and uniformly low signal at the inactive locus. (B) TSS enrichment (±2 kb, 23,235 genes) is sharp for every sample, with peak signal at or above ENCODE. (C) Called peaks, FRiP, and TSS enrichment (mean ± range, duplicate reactions) meet or exceed ENCODE across users and days.
Figure 2: CUTANA™ ATAC-seq generates robust results with as few as 1,000 nuclei
ATAC-seq performed on K562 nuclei using the CUTANA™ ATAC-seq Kit generates high-quality data across an input titration from 50,000 down to 1,000 nuclei. Data was analyzed with the CUTANA Cloud ATAC-seq pipeline. The (A) Genome browser tracks at high- (GAPDH, 15 kb), medium- (VAMP2, 11 kb), and low-expression (SLC12A5, 35 kb) loci, expression tiers set by RNA-seq (SRR4235541, SRR4235542), are highly concordant across 50k, 20k, 10k, 5k, and 1k nuclei, with minimal signal loss down to 1k. (B) TSS enrichment (±2 kb, 23,235 genes) remains strong at 50k, 10k, and 1k nuclei. (C) Signal at peaks called from the 50k condition (77,905 peaks, ±2 kb) is comparably robust at 1k nuclei, showing overall ATAC-seq signal is preserved at low input.
Figure 3: CUTANA™ ATAC-seq Kit outperforms a leading competitor kit at low input
ATAC-seq performed on K562 nuclei using the CUTANA™ ATAC-seq Kit or Competitor A’s kit across an input titration from 50,000 to 1,000 nuclei was analyzed with the CUTANA Cloud ATAC-seq pipeline. The assay shows the CUTANA™ Kit maintains high-quality data at every input, while Competitor A declines sharply at low input. (A) Genome browser tracks at high- (GAPDH, 15 kb), medium- (VAMP2, 11 kb), and low-expression (SLC12A5, 35 kb) loci, expression tiers set by RNA-seq (SRR4235541, SRR4235542), show maintained peak signal with the CUTANA™ Kit across 50k, 10k, and 1k nuclei, whereas Competitor A weakens progressively and is minimal at 1k. (B) TSS enrichment (±2 kb, 23,235 genes) stays strong across all inputs with the CUTANA™ Kit, while Competitor A drops sharply and is minimal by 1k nuclei.
Figure 4: ATAC-seq methods
ATAC-seq was performed on 50k native K562 nuclei using the CUTANA™ ATAC-seq Kit (EpiCypher 14-1121) and the CUTANA™ Nextera-Compatible CDI Primer Set 1 (EpiCypher 14-1190). Libraries were sequenced on an Illumina NextSeq2000 with paired-end sequencing (2×50 bp). Sequencing files were trimmed for adapter sequences with fastp and aligned to the hg38 reference genome using Bowtie2. Data were filtered to remove duplicates, multi-aligned reads, and ENCODE DAC Exclusion List regions.
Storage
OPEN KIT IMMEDIATELY and store components at room temp, 4°C, -20°C, and -80°C as indicated (see User Manual corresponding to Kit Version 1). Stable for six months upon date of receipt. CUTANA™ Tn5 Transposome will maintain activity for up to 10 freeze/thaw cycles; aliquot if more are needed.
Instructions for Use
See User Manual corresponding to Kit Version 1. Pair the CUTANA™ ATAC-seq Kit with CUTANA™ CDI Primers (14-1190, above) for a full cells-to-libraries workflow.
| Item | Cat. No. |
|---|---|
| CUTANA™ Tn5 Transposome | 15-1036-12 |
| CUTANA™ ATAC-seq Kit 8-strip tubes | 10-0009-12 |
| CUTANA™ ATAC-seq Kit 10X PBS | 21-1035-12 |
| CUTANA™ ATAC-seq Kit Stop Solution | 21-1036-12 |
| CUTANA™ ATAC-seq Kit DNA Purification Beads | 21-1407-12 |
| CUTANA™ ATAC-seq Kit 0.1X TE Buffer | 21-1025-12 |
| CUTANA™ ATAC-seq Kit 10X Wash Buffer | 21-1037-12 |
| CUTANA™ ATAC-seq Kit 10% Tween-20 | 21-1038-12 |
| CUTANA™ ATAC-seq Kit Lysis Buffer | 21-1039-12 |
| CUTANA™ ATAC-seq Kit 2X Tagmentation Buffer | 21-1040-12 |
| CUTANA™ ATAC-seq Kit Enzyme Diluent | 21-1041-12 |
| CUTANA™ ATAC-seq Kit Non-Hot Start 2X PCR Master Mix | 15-1018-12 |
| CUTANA™ ATAC-seq Kit 5% Digitonin | 21-1004-12 |
