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ATAC-seq package for tissue

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Catalog Number
Format
Price
C01080006
24 rxns
$2,050.00
Other format
C01080005
8 rxns

ATAC-seq, Assay for Transposase-Accessible Chromatin, followed by next generation sequencing, is a key technology for genome-wide mapping of accessible chromatin. The technology is based on the use of the transposase Tn5 which cuts exposed open chromatin and simultaneously ligates adapters for subsequent amplification and sequencing.

The Diagenode’s ATAC-seq package for tissue has been specifically developted and optimized to generate the ATAC-seq libraries from tissue samples on 25 to 100 mg of tissue per reaction. The protocol has been validated on many different mammalian tissues (lung, liver, brain, kidney, muscles) and different species (pork, chicken, rat, mice, horse). The package includes the reagents for complete ATAC-seq workflow, including nuclei extraction, library preparation and multiplexing.

Content of the ATAC-seq package for tissues:

Features:

  • Complete solution for the ATAC-seq workflow
  • Highly efficient nuclei extraction from tissue
  • Validated on many mammalian tissues
  • Compatible with Illumina sequencing platforms

Looking for ATAC-seq for cells? Please go to ATAC-seq kit.

* For libraries multiplexing, the ATAC-seq package 24 rxns includes  the 24 UDI for tagmented libraries kit - set I, Cat. No. C01011034. If needed, higher multiplexing is possible using other sets of Primer indexes for tagmented libraries, available separately.

  The project GENE-SWitCH leading to this application has received funding from the European Union’s Horizon 2020 research and innovation programme under the grant agreement No 817998.

  • Method overview

    ATAC-seq, Assay for Transposase-Accessible Chromatin, followed by next generation sequencing, is a key technology to easily identify the open regions of the chromatin. The protocol consists of 3 steps: nuclei preparation, tagmentation and library amplification. First, the tissue undergoes lysis, ending with the crude nuclei. Then, the nuclei are incubated with a tagmentase (Tn5 transposase), which cuts the genomic regions associated with open chromatin and inserts the sequencing adaptors. Finally, the generated libraries are amplified and can be used for sequencing. High-throughput sequencing will then detect peaks, in open regions of the chromatin only, giving a map of the chromatin status in the whole genome of the sample.


    workflow

  • Example of results

    GENE-SWitCH aims to deliver new underpinning knowledge on the functional genomes of two main monogastric farm species (pig and chicken) and to enable immediate translation to the pig and poultry sectors. It is a multi-actor project that will produce new genome information to enable the characterization of genetic and epigenetic determinants of complex traits in these two species. Diagenode, as a principal participant to the project and leading the WP1, developed a new protocol to improve the preparation of ATAC-seq libraries from a variety of snap-frozen tissues. The ATAC-seq protocol combines efficient nuclei extraction procedure validated on 7 different kinds of tissues from 3 developmental stages of the two species and a robust Tagmentation protocol based on Diagenode Tn5 enzyme. The developed ATAC-seq protocol was successfully used to produce 168 ATAC-seq libraries for WP1 and 320 for WP5.

    Table 1. List of validated tissues with Diagenode’s ATAC-seq package for tissue (Cat. No. C01080005/6). The samples were used as part of GENE-SWitCH consortium.

    A.

    B.

    Figure 2. ATAC-seq library profiles generated using the ATAC-seq package for tissue (Cat. No. C01080005/6) from pork’s liver (A) and brain (B). The samples were used as part of GENE-SWitCH consortium.

  • Additional solutions for ATAC-seq for tissue

    Additional supplies (included in the kit and available separately):

    Other supplies:

  •  Documents
    Chromatin Brochure BROCHURE
    Whether you are experienced or new to the field of chromatin immunoprecipitation, Diagenode has e...    		 Download
    ATAC-seq Kit - Manual MANUAL
    Gene expression is carefully regulated in the cells in order to manage a wide range of biological...    		 Download
  •  Publications

    How to properly cite our product/service in your work

    We strongly recommend using this: ATAC-seq package for tissue (Hologic Diagenode Cat# C01080006). Click here to copy to clipboard.

    Using our products or services in your publication? Let us know!

    Differences in maternal diet fiber content influence patterns of gene expression and chromatin accessibility in fetuses and piglets
    Smahane Chalabi et al.
    This study investigates the impact of maternal gestation diets with varying fiber contents on gene expression and chromatin accessibility in fetuses and piglets fed a low fiber diet post weaning. High-fiber maternal diets, enriched with sugar beet pulp or pea internal fiber, were compared to a low-fiber maternal die...

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