comprehensive

ATAC-Seqsolutions®

ATAC-SEQ KITSpecifications:

Complete kit for generating sequencing-ready
ATAC-Seq libraries from cell or tissue samples✓ Generate 16 sequencing-ready Illumina®compatible ATAC-Seq libraries per kit

ATAC-Seq is a rapid assay that allows analysis of epigenetic✓ Process 50,000-100,000 cells or 20-30 mg

profiles across the genome by identification of regions thatof tissue per sample

have open or accessible chromatin states. Because of theassay’s speed, simplicity, and applicability to a wide range✓ Optimized protocol with all reagents andenzymes includedof sample types, ATAC-Seq has become a commonly-used✓ Entire workflow can be completed

epigenetic assay, and it can serve as a gateway to further,in 4 hours

more detailed epigenetic analyses.

Key Highlights:

The ATAC-Seq Kit from Active Motif provides the reagents

Easy to Use:

necessary to produce 16 unique sequencing-readyn Optimized and streamlined protocol makes
ATAC-Seq assays accessible to all researchers

Illumina®-compatible ATAC-Seq libraries from 20 – 30 mg

n Different protocols optimized for cell or tissuesamples

protocol guides you through the steps for sample

n No specialized or expensive equipment
needednext-generation sequencing-ready libraries that can be

Fast Results:

tissue or 50,000 – 100,000 cells per reaction. The optimized
preparation, tagmentation, and library preparation, yielding
multiplexed in a single flow cell sequencing run.

n Go from samples to sequencing-readylibraries in just 4 hours

Complete Kit:n All reagents and enzymes are included

i7 index

Chromatin

i5 index

Tn5

n Kit includes assembled transposomes,
containing the Tn5 transposase loadedwith NGS adapters

Learn more about
Active Motif’s comprehensive
ATAC-Seq solutions atwww.activemotif.com/atac-seq
Amplify and Sequence
Figure 1. ATAC-Seq is based on transposase-mediated insertion ofNGS adapters into open chromatin regions. This assay provides
genome-wide profiles of open and accessible regions of chromatinthat are indicative of transcriptionally active regions and regions of
the genome containing active regulatory elements.

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Generate Robust and Reproducible Data with the Active Motif ATAC-Seq Kit
The chromatin at promoters of genes that are transcriptionally active are generally open or accessible.
ATAC-Seq assays result in peaks at these locations, revealing those open chromatin regions in the samples
being investigated.
Mouse Brain
ATAC-seq Rep. 1
Mouse Brain
ATAC-seq Rep. 2
Mouse Kidney
ATAC-seq Rep. 1

Mouse Kidney
ATAC-seq Rep. 2

Mouse Spleen
ATAC-seq Rep. 1

Mouse Spleen
ATAC-seq Rep. 2mm10 RefGene (+)
Coordinates
mm10 RefGene (-)

Figure 2. ATAC-Seq Kit was used to assess the genome-wide open chromatin states of several mouse tissue samples. The peaks hereindicate open chromatin signal at the Rbfox3 gene, which exhibits highest expression in brain tissue.

Active Motif ATAC-Seq Kit Data Correlates Well with Illumina® Nextera™ Kit Data
The Active Motif ATAC-Seq Kit generates high-quality data. ATAC-Seq data from experiments performed
with the ATAC-Seq Kit correlate very well with data generated using the Tn5 transposase from theIllumina Nextera kit.

Figure 3. High correlation (Pearson correlation
coefficient is 0.97) between the signal in the peaks
called from ATAC-Seq datasets generated using either
the Active Motif ATAC-Seq kit or the Nextera Tn5 enzyme
demonstrates that the Active Motif transposase identifies
the same accessible regions as the Nextera enzyme doeson a genome-wide scale.

www.activemotif.com/atac-seq			

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ATAC-SEQ SERVICE
End-to-end service for identification of open
chromatin regions

Specifications:✓ Submit 50,000-100,000 cells or 20-50 mgof tissue per sample

Active Motif, the leading provider of ChIP-Seq and otherepigenetic services, offers an end-to-end ATAC-Seq service✓ Sequencing depth: 30 M paired-end
reads per sample

to investigate chromatin states on a genome-wide scale.
The ATAC-Seq service is designed to study open chromatin,✓ Turnaround time: 5-7 weeks

which is known to contain active gene regulatory elements✓ Data deliverables include raw data
along with mapping, filtering, peakcalling, Excel files that provide detailed
information about peaks for sample-tosample comparisons, and other figures.

including promoters, enhancers, and insulators. The assay
provides data to enable identification of accessible
chromatin regions across the genome, characterizationof epigenomes of disease states, and to uncover key
transcriptional mechanisms controlling cell fate.

Key Highlights:
Data You Can Trust:

The ATAC-Seq service includes sample preparation, tagging

n We were the first ATAC-Seq service provider inthe world and have successfully performed>2,000 ATAC-Seq assaysof open chromatin regions, library generation, library QC,
next-generation sequencing, and bioinformatic analysis.

n Our clients publish ATAC-Seq data wegenerate in high profile journals

Easily Interpret the Results:

Use Our ATAC-Seq Service To:

n Bioinformatics and support includedl   Generate genome-wide maps of open chromatin in cellor tissue samples

Fastest Path to Publish ATAC-Seq Data:n Our end-to-end services will save you time so
you can publish fastern Dedicated protocols for different sample
types
n Receive ready-to-publish figuresl   Determine if epigenetic mechanisms are at work indiseasel   Gain mechanistic insight into gene regulation in responseto treatmentl   Uncover cell fate- or disease-related differences

between samples
Learn more about
Active Motif’s comprehensive
ATAC-Seq solutions atwww.activemotif.com/atac-seq

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ATAC-Seq Services Enable Identification of Differentially Accessible Chromatin Regions
Our ATAC-Seq Service can be used to identify epigenetic changes between different samples or treatmentgroups by measuring chromatin accessibility on a genome-wide scale. One major advantage of this approachis that no requirement for prior knowledge of the specific epigenetic modifications that might be involved isneeded, and therefore ATAC-Seq assays represent an unbiased approach.
Figure 4. Active Motif’s ATAC-Seq assay
was performed on control and treatedcells, each in triplicate. Hundreds ofdifferential peaks were detected. The
prominent differential peak depicted
here is in an intergenic region.

Active Motif’s ATAC-Seq Service is Highly Reproducible
For some experiments it is beneficial to perform replicates to be able to identify differences between
samples that are statistically significant. The ATAC-Seq service offered by Active Motif is highly
reproducible, meaning that any differences seen between replicates or experimental groups are likely toCon rep1

Con rep2

Con rep3

T1 rep1

T1 rep2

T1 rep3

T2 rep1

T2 rep2

T2 rep3

T1 + T2 rep1

T1 + T2 rep2

T1 + T2 rep3

be real biological differences rather than technical artifacts.

10.97

0.97

0.93

0.93

0.92

0.87

0.87

0.87

0.89

0.89

0.89

Con rep1

0.97

10.97

0.92

0.93

0.92

0.87

0.86

0.87

0.89

0.89

0.89

Con rep2

0.97

0.971

0.93

0.93

0.93

0.87

0.87

0.87

0.88

0.88

0.88

Con rep3

0.93

0.92

0.93

10.96

0.96

0.87

0.88

0.87

0.85

0.86

0.86

T1 rep1

0.93

0.93

0.93

0.96

1

0.96

0.88

0.88

0.88

0.86

0.86

0.86

T1 rep2

0.92

0.92

0.93

0.96

0.96

1

0.87

0.88

0.87

0.85

0.86

0.85

T1 rep3

0.87

0.87

0.87

0.87

0.88

0.87

1

0.96

0.96

0.94

0.95

0.95

T2 rep1

0.87

0.86

0.87

0.88

0.88

0.88

0.96

1

0.96

0.93

0.94

0.94

T2 rep2

0.87

0.87

0.87

0.87

0.88

0.87

0.96

0.96

10.94

0.95

0.95

T2 rep3

0.89

0.89

0.88

0.85

0.86

0.85

0.94

0.93

0.94

10.97

0.97

T1 + T2 rep1

0.89

0.89

0.88

0.86

0.86

0.86

0.95

0.94

0.95

0.97

10.97

T1 + T2 rep2

0.89

0.89

0.88

0.86

0.86

0.85

0.95

0.94

0.95

0.97

0.97

1

T1 + T2 rep3

www.activemotif.com/atac-seq			

Figure 5.Active Motif’s ATAC-Seq assay was performed under four
different cellular conditions, each condition in triplicate. The Pearson
correlation coefficients were generated and graphed for each pairwise comparison. The data demonstrate the assay is highly reproducible with correlation coefficients near >0.95 for replicates. Four
separate groups are clearly visible in the heat map, showing that
triplicates are more similar to each other than to other samples andindicating that there are differences between sample types.

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SINGLE-CELL ATAC-SEQ SERVICE
End-to-end service to identify open chromatin
regions at single-cell resolution

Specifications:✓ Submit 100,000-2M cells or 20-50 mg oftissue per sample

Single-cell ATAC-Seq (scATAC) is based on transposasemediated insertion of sequencing adapters into open

✓ Sequencing depth: 250 M paired-end
reads per sample

chromatin regions followed by microfluidic single-cell sorting✓ Turnaround time: 6-8 weeks

and labeling. This assay, like traditional (“bulk”) ATAC-✓ Data deliverables include raw data

Seq, provides profiles of open and accessible regions ofalong with mapping, filtering, peakcalling, Excel files that provide detailed
information about peaks for sampleto-sample comparisons, files forvisualization on the 10x Genomics Loupe
Cell Browser, and other figures.

chromatin that are indicative of active regulatory regions,but at single cell resolution.
Our scATAC-Seq service enables examination of genomewide chromatin accessibility of thousands of cells in parallel,

Key Highlights:

allowing examination of subpopulations of cells within aSingle-Cell ATAC-Seq Data You Can Trust:heterogenous population that would otherwise be lost inn Our end-to-end service saves you time so you
can publish fastern Dedicated team of expert scientists handles
every step

Sample-Specific Protocols:n We have already optimized conditions formany sample types so you don’t have to

Easily Interpret the Results:
n Identify subpopulations of cells within complex populations
n Bioinformatics and support included

standard ATAC-Seq assays.

Use Our Single-Cell ATAC-Seq Service To:l   Identify cancer stem cells or infiltrating macrophages

within tumor samplesl   Identify novel cell subpopulations that are responsible forresponse to drug treatments (i.e. responders vs. resistantcells)l   Identify subpopulations of cells with variations inchromatin accessibility that can provide insight intodevelopmental trajectories (i.e. brain development,T-helper cell development, B-cell differentiation)
Learn more about
Active Motif’s comprehensive
ATAC-Seq solutions at
www.activemotif.com/atac-seq

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Identify Variations in Chromatin Accessibility Across Different Cell Populations
Within a Single Sample
scATAC-Seq can be used to identify cell subpopulations with different chromatin accessibility profiles withincomplex samples, eliminating the need for isolation strategies like FACS or magnetic sorting that could alter thebiology due to sample manipulation.
Figure 6. Single-Cell ATAC-Seq data generated from mouse
kidney tissue. Each color-coded cluster on the tSNE plot
represents populations of cells that had the same open
chromatin profile. Using this approach, 12 cell populations
were identified from a single sample.

scATAC-Seq Reveals Cell Subpopulation-Specific Data that Would Not be Captured
by “Bulk” ATAC-Seq
scATAC-Seq enables mapping the open chromatin profiles of cell subpopulations within complex or
heterogeneous samples. This approach allows researchers to uncover mechanisms driving diseasephenotypes or other biological processes by individual cell populations.

Figure 7. Above panel: Representative region fromgenome-wide “bulk” ATAC-Seq using mouse kidney tissue.
Right panel: Same representative region as “bulk” ATACSeq from genome-wide scATAC-Seq data. Each cell cluster
is displayed as a unique peak track and represented ina different color. scATAC-Seq provides the resolution toidentify unique open chromatin peak profiles for each cell
population, allowing for the identification of cells that are
driving a specific phenotype.

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