Chromium Single Cell

Biology at single cell resolution: RNA, protein, and chromatin

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Introducing Chromium Single Cell Gene Expression v4 and Single Cell Immune Profiling v3, powered by new GEM-X technology

  • Partition and barcode your cells 3x faster
  • Achieve cell recovery efficiency rates of up to 80%
  • Reduce multiplet rates two-fold
  • Lower sequencing costs by up to 50%
Meet GEM-X
The Chromium Platform

A platform as diverse as your cells

The Chromium Single Cell platform was designed to help make single cell studies accessible, approachable, and easy for everyone. Versatile assays are part of end-to-end workflows that combine with user-friendly instruments for efficient cell partitioning and barcoding, plus intuitive software for data analysis.

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    Characterize cellular diversity in fresh, frozen, and fixed samples

    Capture cellular heterogeneity, discover rare cell types and states, and reveal disease-associated cell types with assays that are compatible with a wide range of species and sample types.

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    Analyze 1 to 128 samples or up to a million cells per run

    Our instruments let you scale your profiling workflow to fit your throughput needs, whether you’re running pilot studies or million-cell experiments.

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    Go beyond RNA: capture chromatin accessibility, protein and more

    Get a more complete picture of your samples with RNA, chromatin, cell surface protein, CRISPR edits, and multiomic assays that profile multiple analytes of interest.

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    Easy, intuitive data analysis

    No matter your single cell study, our powerful, included software makes your analysis simple, even for ambitious projects—no bioinformatics expertise necessary!

Assay selection tool

One platform, multiple approaches

The Chromium platform was designed to offer easy, high-throughput analyses of multiple analytes and sample types. The result is a selection of powerful assays that enable comprehensive characterization of cellular diversity.

    Which single cell assay is right for you?

    Use this interactive tool to get started. Answer questions about your experimental setup, including species, sample types, and cellular features to determine which Chromium assay best fits your research needs.

    Find your assay
Single cell analysis

Intuitive analysis software

How can you best approach the wealth of information that awaits in your single cell data? We’ve built a suite of software tools to make processing and analysis easier, even without bioinformatics experience. Access to our software applications for data analysis and visualization is included with your Chromium assays.

Align reads and process data with Cell Ranger

Cell Ranger is a set of free end-to-end analysis pipelines for processing Chromium Single Cell data. Start here to align reads, generate feature-barcode matrices, perform clustering, and enable secondary analysis.

Learn more about Cell Ranger
Process data with Cell Ranger

Inspect clusters and examine expression patterns

After running Cell Ranger, explore your results using the interactive Loupe Browser desktop software. Loupe Browser allows you to examine gene expression patterns and multiomic data, and is free to install and use.

Clusters and expression patterns

Accelerate time to results using our fast cloud infrastructure

Cloud Analysis is a web platform for processing and analyzing 10x Genomics datasets, enabling quick and easy access to Cell Ranger pipelines from your web browser.

Currently available only in the United States and Canada.

Cloud Analysis software platform

Compare assays side by side

Assay

Single Cell Gene Expression Flex

Single Cell Gene Expression Flex
Learn moreView pricing

Single Cell Gene Expression

Single Cell Gene Expression

Single Cell Immune Profiling

Single Cell Immune Profiling

Single Cell Multiome

Single Cell Multiome

Single Cell ATAC

Single Cell ATAC

Description

Our most sensitive whole transcriptome gene expression, compatible with fresh or fixed samples (including FFPE), with flexibility to fix, batch, and run samples on your schedule

A versatile solution providing 3’ gene expression with options for multiomic analysis

Comprehensive analysis of immune diversity, combining 5’ gene expression with multiomic profiling

Single cell profiling of open chromatin and 3' gene expression from the same nucleus

Single cell profiling of open chromatin alone

Additional cellular features

Cell Surface Protein

  • Cell Surface Protein
  • CRISPR Screening
  • Cell Surface Protein
  • Antigen Specificity
  • BCR/TCR Sequencing
  • CRISPR Screening

N/A

N/A

Species compatibility

Human and mouse

Demonstrated on multiple species, including human, mouse, and rat

  • Demonstrated on multiple species, including human and mouse
  • Amplification of human or mouse TCR/BCR sequences

Demonstrated on multiple species, including human and mouse

Demonstrated on multiple species, including human and mouse

Sample compatibility

  • Cells or nuclei
  • Tested on diverse sample types, including cell lines, primary cells, and dissociated fresh, frozen, or fixed tissue (including FFPE)
  • Cells or nuclei
  • Tested on diverse sample types, including cell lines, primary cells, and dissociated fresh tissue
  • Cells
  • Tested on diverse sample types, including cell lines, primary cells, and dissociated fresh tissue
  • Nuclei
  • Tested with cell lines, primary cells, cryopreserved samples, and fresh- and flash-frozen tissue
  • Nuclei
  • Tested with cell lines, primary cells, cryopreserved samples, and fresh- and flash-frozen tissue

Workflow options

Built-in sample multiplexing

Sample multiplexing

Walkaway automation on Chromium Connect (for select workflows)

Walkaway automation on Chromium Connect (for select workflows)

N/A

N/A

Throughput

  • Singleplex: up to 80,000 cells per run
  • Multiplex: up to 1,024,000 cells per run
  • Standard: up to 80,000 cells per run; 140,000 cells per run with multiplexing
  • High: up to 320,000 cells per run; up to 730,000 cells per run with multiplexing
  • Standard: up to 80,000 cells per run
  • High: up to 320,000 cells per run

Standard: up to 80,000 nuclei per run

Standard: up to 80,000 nuclei per run

Build on your single cell foundations with complementary technologies

Expand your Chromium insights by mapping single cell profiles within the tissue context using Visium, or deepen your understanding of specific targets using Xenium subcellular precision. Seamlessly move back and forth between multiomic single cell, spatial, and/or subcellular resolution.

See your biology at the single cell level