Products Area of Interest Resources Support Company Careers Chromium Single Cell ATAC Reveal the epigenomic landscape, cell by cell Chromium Single Cell ATAC (Assay for Transposase Accessible Chromatin) allows you to analyze chromatin accessibility at the single cell level, providing insights into cell types and states, and deeper understanding of gene regulatory mechanisms. Request Pricing See How It Works Resources: Product Catalog Product Sheet Single Cell Buyer's Guide Detect chromatin accessibility Analyze thousands of unique open chromatin fragments per cell, genome-wide. Single cell resolution Go beyond population averages by measuring epigenomic profiles in single nuclei. Flexible and scalable Profile hundreds to tens of thousands of nuclei per chip. Streamlined data analysis Explore and visualize chromatin accessibility profiles with easy-to-use software. One-day lab workflow From sample to sequencing-ready library in one day. Diverse sample compatibility Demonstrated with cell lines, primary cells, and fresh and frozen tissue samples. Explore what you can do Define cell types and states Identify master regulators Discover cis-regulatory elements, such as promoters and enhancers Characterize gene regulatory networks Proven Results Videos Watch how customers are using Chromium Single Cell ATAC. View all Publications Resources Single-Cell Genomics in Cancer Immunotherapy Ansu Satpathy, MD, PhD, October 16, 2019 Getting Started with Single Cell ATAC Sequencing for High Resolution Epigenomic Studies Laura DeMare, Ph.D, 10x Genomics, Apr 2019 Nuclei Isolation for Single Cell ATAC Sequencing Francesca Meschi, Corey Nemec, Alaina Puleo and Jean Wang, March 2019 View all Our End-to-End Solution Chromium Instrument with Next GEM technology Chromium Controller Our compact instrument Chromium X Series Our scalable instrument Chromium Single Cell ATAC Reagents With our reagent kits, detect open chromatin regions using the included transposase, and generate ready-to-sequence NGS libraries. Analysis and Visualization Software Cell Ranger ATAC Our analysis pipelines Loupe Browser Our visualization software World-Class Technical and Customer Support Our expert support team can be contacted by phone or email. Workflow 1 Prepare your sample Start with a nuclei suspension isolated from cell culture, primary cells, or fresh or frozen tissue. RESOURCES Demonstrated Protocols Sample Prep Webinar 2 Construct Your 10x Library Construct a 10x barcoded library using our reagent kits and a compatible Chromium instrument. Each member of the Chromium instrument family encapsulates each cell with a 10x barcoded Gel Bead in a single partition. Within each nanoliter-scale partition, cells undergo reverse transcription to generate cDNA, which shares a 10x Barcode with all cDNA from its individual cell of origin. RESOURCES User Guide / Protocol 3 Sequence The resulting 10x Barcoded single cell ATAC-seq library is compatible with standard NGS short-read sequencing on Illumina sequencers, for massively parallel epigenomic profiling of thousands of individual cells. RESOURCES Sequencer Compatibility List 4 Analyze Your Data Our Cell Ranger ATAC analysis software generates open chromatin profiles for each cell, identifies clusters of cells with similar profiles and calls peaks, and can aggregate data from multiple samples. ANALYSIS PIPELINES OUTPUT Output includes QC information and files that can be easily used for further analysis in our Loupe Browser visualization software, or third-party R or Python tools. RESOURCES Cell Ranger ATAC Analysis Pipelines 5 Visualize Your Data Use our Loupe visualization software to interactively explore your results, perform differential accessibility analysis, find clusters enriched for motifs of interest, and compare across samples. DO I NEED TO BE A BIOINFORMATICIAN TO USE IT? Loupe is a point-and-click software that’s easy for anyone to download and use. RESOURCES Loupe Visualization Software Downloadable Datasets Frequently Asked Questions What does single cell ATAC-seq (scATAC-seq) enable you to do? Can scATAC-seq data be combined with scRNA-seq data for analysis? What types of samples are compatible? Is single cell ATAC-seq less sensitive than bulk ATAC-seq? How does ATAC-seq compare to other epigenetic methods such as ChIP-seq? Related Products View All Products Products Single Cell ATAC View details Single Cell Gene Expression View details Single Cell Immune Profiling View details Spatial Gene Expression View details Capabilities Epigenomic landscape by open chromatin profiling 3' whole transcriptome gene expression Targeted gene expression Sample multiplexing Paired full-length TCR / BCR sequencing 5’ whole transcriptome gene expression Targeted gene expression 3' whole transcriptome gene expression Targeted gene expression Compatible with FFPE and fresh frozen tissue sections Extensions – Sample multiplexing Cell Surface Protein CRISPR Screening Cell Surface Protein Antigen Specificity Spatial Gene Expression with Immunofluorescence Immunofluorescence protein co-detection Instruments Chromium X Series Chromium Controller Chromium X Series Chromium Controller Chromium Connect Chromium X Series Chromium Controller Chromium Connect – Get Started Request Pricing ABOUT Products Platform Company Careers Contact Employment Verification LEGAL NOTICES Privacy Policy Terms of Use Email Preferences Other Legal Notices HEADQUARTERS +1 925 401 7300 +1 800 709 1208 info@10xgenomics.com RESOURCES Publications Support Videos SOCIAL SIGN UP FOR PRODUCT AND EVENT UPDATES Subscribe © 2021 10x Genomics. All Rights Reserved. English中文日本語