The next generation of single cell starts with GEM-X. Check out the Product Sheet for specs and data

Chromium Single Cell Immune Profiling

Multiomic profiling of immune diversity, cell by cell

Chromium Single Cell Immune Profiling provides a multiomic solution to your immunology questions. Analyze full-length V(D)J sequences for paired B-cell or T-cell receptors, cell surface protein expression, antigen specificity, and/or CRISPR edits, along with gene expression, all from a single cell.

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Single Cell Immune Profiling

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  • Multiomic cytometry

    Phenotype cells in greater detail by combining gene expression data with 100s of proteins.

  • Complete immune repertoire

    Paired, full-length Ig sequence, including isotypes, and T-cell receptor α/β.

  • Immune mapping

    Map antigens to discover novel antigen-specific Ig or T-cell receptors.

  • Streamlined data analysis

    Explore and visualize clonotype information with powerful and intuitive software.

  • One-day lab workflow

    From sample to sequencing-ready library in one day, with flexible options for automated workflows.

  • Scalable solutions

    Find the kit that fits your research, with throughput capabilities for hundreds to tens of thousands of cells.

GEM-X advantage

Increased sensitivity, throughput, data quality, and sample recovery

GEM-X technology drives our next generation of Chromium assays and lays the foundation for more powerful single cell research, now and in the future. Improved microfluidics, assay reagents, and software updates all work together to maximize critical insights.

Learn more about Chromium innovation and GEM-X advancements
10x Chromium Single Cell Gene Expression hardware, software, and reagents.

Up to 2x more genes detected

Substantially increased sensitivity compared to previous versions

2-fold increase in throughput

Built to scale with higher throughput at a lower cost

2-fold reduction in multiplet rate

Enhanced data quality with fewer multiples for a given number of cells

Up to 80% cell capture efficiency

Improved sample recovery makes the most of every run

Flexible solutions to meet your needs

Product Family

Single cell resolution for comprehensive immune profiling

Chromium Single Cell Immune Profiling lets you explore the incredible diversity of the innate and adaptive immune system with multiomic readouts and flexibility of scale.

Multiomic profiling

Simultaneously measure cell surface protein expression, antigen specificity, and CRISPR edits with 5’ gene expression.

Immune Repertoire Profiling

Understand clonal expansion and diversity by capturing full-length, paired B-cell and T-cell receptors at a single cell level.

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Immune Repertoire Profiling
  • Paired receptor sequence enables re-expression and testing for antigen binding and function
  • Combined with gene expression data, perform immune cell classification and discover new cell states
Cell Surface Protein

Correlate gene expression measurements with immunophenotyping at a single cell level to better delineate immune cell subsets and functional states.

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Cell Surface Protein
  • Enable ultra-high parameter discovery, using multiomic cytometry to detect up to hundreds of proteins simultaneously with unbiased gene expression profiling
  • Stratify immune cell populations by correlating protein isoforms with regulatory network co-expression in single cells
Barcode Enabled Antigen Mapping (Next GEM)

Obtain comprehensive antigen-specific cellular profiles—including full-length paired V(D)J sequences, gene expression, and cell surface proteins from the same single cell—to identify rare, antigen-reactive T and B cells for accelerating therapeutic discovery.

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Barcode Enabled Antigen Mapping
  • Discover antigen-specific clonotypes with full-length, paired V(D)J sequences, gene expression, and surface protein expression from the same single cell
  • Go from sample to antigen-specific immune repertoire sequencing data in a week
  • Explore and interpret antigen–clonotype relationships with easy-to-use analysis and visualization software
CRISPR Screening

Assess effects of CRISPR perturbations at single cell resolution with direct capture of cellular sgRNAs and resulting perturbed phenotypes, including gene expression and/or cell surface proteins.

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  • Screen for novel gene targets or resistance drivers involved in disease
  • Empower functional genetic screens with a faster workflow and increased resolution
  • Unravel the complex genetic regulatory pathways involved in development
Learn more about Single Cell CRISPR screening

Large-scale projects

Tackle your most ambitious projects, from rare cell type discovery to translational studies, with our high-throughput (HT) kit and complementary solutions for larger-scale projects.

Single Cell Immune Profiling HT (Next GEM)

Transform single cell immune profiling with high-throughput (HT) multiomic analysis on the new Chromium X, and reveal the incredible diversity of the adaptive immune system.

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Learn More About Chromium X
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    Accelerate time to results

    Analyze hundreds of thousands of single cells in a single chip for up to 16 samples at once.

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    Enjoy economy of scale

    Take advantage of high-throughput capabilities and reduce experimental and analysis costs even further with Targeted Gene Expression.

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    Support from prep to analysis

    From technical resources to user-friendly, cloud-based data analytics, you are supported end-to-end.

Workflow automation

Maximize lab productivity and obtain consistent, reproducible results with Single Cell Immune Profiling for Chromium Connect.

Automated Single Cell Immune Profiling (Next GEM)

Perform multiomic immune profiling workflows on the Chromium Connect to explore T- and B-cell repertoire diversity, identify rare cell populations, and reveal clonal expansion in response to disease and therapy, all while maximizing lab productivity.

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Learn More About Chromium Connect
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    Optimize productivity

    Shorten your hands-on time, and go from single cells/nuclei or cDNA to sequencing-ready immune profiling libraries with walk-away convenience.

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    Standardize your workflows

    Generate consistent and reproducible single cell immune profiling results across experiments, users, and even across multiple sites.

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    Streamline operations

    Utilize pre-aliquoted, automation-specific reagents that are color-coded and 2D-barcoded for error-proof reagent tracking and loading.

Proven results

Explore our videos on Chromium Single Cell Immune Profiling.

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Find the latest app notes and other documentation for Chromium Single Cell Immune Profiling.

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Proven results

Videos

Explore our videos on Chromium Single Cell Immune Profiling.

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Publications

Combined PD-1, BRAF and MEK inhibition in BRAFV600E colorectal cancer: a phase 2 trial

Combined PD-1, BRAF and MEK inhibition in BRAFV600E colorectal cancer: a phase 2 trial

Jun Tian, et al. Nature Medicine (2023).

Jun Tian, et al. Nature Medicine (2023).

Genomic and immune signatures predict clinical outcome in newly diagnosed multiple myeloma treated with immunotherapy regimens

Genomic and immune signatures predict clinical outcome in newly diagnosed multiple myeloma treated with immunotherapy regimens

Francesco Maura, et al. Nature Cancer (2023).

Francesco Maura, et al. Nature Cancer (2023).

Transcriptional signatures associated with persisting CD19 CAR-T cells in children with leukemia

Transcriptional signatures associated with persisting CD19 CAR-T cells in children with leukemia

Nathaniel Anderson, et al. Nature Medicine (2023).

Nathaniel Anderson, et al. Nature Medicine (2023).

Resources

Find the latest app notes and other documentation for Chromium Single Cell Immune Profiling.

A New Way of Exploring Immunity—Linking Highly Multiplexed Antigen Recognition to Immune Repertoire and Phenotype

A New Way of Exploring Immunity—Linking Highly Multiplexed Antigen Recognition to Immune Repertoire and Phenotype

Application Note, 10x Genomics

Application Note, 10x Genomics

Improving Single Cell Characterization with Simultaneous Gene Expression and Cell Surface Protein Measurements at Scale

Improving Single Cell Characterization with Simultaneous Gene Expression and Cell Surface Protein Measurements at Scale

Application Note, 10x Genomics

Application Note, 10x Genomics

The neXt generation of single cell starts with GEM-X

The neXt generation of single cell starts with GEM-X

GEM-X Single Cell Flyer, 10x Genomics

GEM-X Single Cell Flyer, 10x Genomics

Our end-to-end solution

Chromium instruments with GEM-X technology

The Chromium X handles all single cell assays, low to high throughput.

Chromium Single Cell Immune Profiling reagents

Explore adaptive immunity through multidimensional approaches, including 5’ mRNA, full-length paired BCR and TCR sequences, antigen-receptor specificity, cell surface proteins, CRISPR edits, and more.

Intuitive analysis and visualization software

Discover single cell analysis, including cloud data processing, Cell Ranger analysis pipelines, and Loupe, our visualization app.

World-class technical and customer support

Contact our expert support team at [email protected]

Frequently asked questions

The solution is capable of the modular integration of multiple data types, including mRNA-based whole transcriptome or targeted gene expression, immunophenotyping, adaptive immune repertoire clonality and diversity, antigen specificity, and CRISPR edits, simultaneously from the same single cells. This multiomic approach to cell characterization helps decipher the rules of the immune system one cell at a time.

Yes. You can amplify only the immunoglobulin or TCR libraries for sequencing and save the amplified whole transcriptome cDNA material for later sequencing.

Chromium Single Cell Immune Profiling is compatible with fresh or cryopreserved single cell suspensions. Typical samples include PBMCs, tumor-infiltrating lymphocytes, spleen, bone marrow cells, and other tissue types. Species can range from human, mouse, rat, and other model organisms. However, only human and mouse are currently supported by 10x Genomics reagents and protocols for immunoglobulin or TCR sequencing.

The Chromium Single Cell Immune Profiling Solution makes use of gene-specific amplification primers that target the constant regions of Ig and TCR genes in order to enrich and sequence across the entire Variable, Diversity, and Joining gene segments.

Yes, immunoglobulin heavy chain sequences are classified by IgA, IgD, IgE, IgM, and IgG.

Next GEM and GEM-X chips both efficiently generate Gel Beads-in-emulsion (GEMs) as part of the Chromium workflow. However, GEM-X chips use new technology that provides higher performance, with architecture, settings, and partition size all optimized based on a wealth of experience from Next GEM and Legacy assays. GEM-X chips run exclusively on our Chromium X and iX instruments, which support the full breadth of our Chromium assays.

Single Cell Gene Expression

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