High Resolution Profiling of Adaptive Immune Context and Repertoire

Chromium Single Cell Immune Profiling Solution

Human or Mouse Immune Cell and Repertoire Profiling at Single Cell Resolution

The Chromium Single Cell Immune Profiling Solution is a comprehensive approach to simultaneously examine the cellular context of the adaptive immune response and immune repertoires of hundreds to tens of thousands of T and B cells in human or mouse on a cell-by-cell basis. With the addition of Feature Barcoding technology, you can also detect and analyze additional cellular readouts, such as cell surface markers and antigen specificity, to enhance immune cell phenotyping and study dynamic interactions between lymphocytes and target cells.

With our streamlined workflows, you can go from sample to library prep, immune sequencing, and software analysis, revealing insights into T and B cell diversity, V(D)J recombination, and immune cell profiling. From immunology and immuno-oncology research, to infectious disease research and beyond – these solutions will accelerate the understanding of the adaptive immune system.

  • Reveal clonality, diversity, antigen specificity, and cellular context
  • Assemble and annotate full-length V(D)J gene sequences
  • Pair α and β chain TCR sequences from individual T cells
  • Pair heavy and light chain immunoglobulin (Ig) sequences from individual B cells with full isotype resolution
  • Simultaneously measure TCR, B cell Ig, cell surface protein expression, and 5’ gene expression in the same cells
  • Link full-length, paired TCR α and β chain sequences with TCR-pMHC specificity
  • Simultaneously measure cell surface protein expression with gene expression
Download our new App Note using Feature Barcoding technology to detect antigen specificity

Accelerate Immunology

Our publicly available dataset using almost 200,000 CD8+ T cells and analyzing 44 specific antigens, demonstrates the immense and scalable power of the Single Cell Immune Profiling Solution with Feature Barcoding technology. Now you have the freedom and flexibility to link gene expression, cell surface proteins, and paired receptor sequences to your antigen of interest.

This dataset will allow you to:

  • Get the full picture of the adaptive immune response in disease models
  • Understand the changes in the adaptive immune response with different treatments
  • Simultaneously survey all TILs for binding a broad range of neo-epitopes
  • Build a database of antigen recognition by TCRs to create a comprehensive immune map
Immune Repertoire & Gene Expression Profiling

Immune Repertoire & Gene Expression Profiling

By simultaneously characterizing highly diverse repertoires of T-cell and B-cell antigen receptors alongside cellular gene expression, the true complexity of the immune response can be revealed. Use this approach in human or mouse samples to accelerate new insights into the adaptive immune response and beyond.

Immune, Gene & Cell Surface Protein

Feature Barcoding Technology: Cell Surface Protein

Feature Barcoding technology allows you to seamlessly combine cell surface protein expression measurements with immune repertoire and gene expression measurements from the same single cell. Use this to measure both gene and cell surface protein expression in the same cell to identify protein isoforms, detect protein for low abundance transcripts, and further increase phenotypic specificity.

Antigen Specificity

Feature Barcoding Technology: Antigen Specificity

Use Feature Barcoding technology to determine antigen specificity of single T cells with Feature Barcode peptide-MHC multimers to study the dynamic interactions between lymphocytes and antigens. Unveil a new understanding of the adaptive immune response in hundreds to tens of thousands of lymphocytes.

Unlock Single Cell Immune Repertoire Profiling with These System Features

  • Partition 100 – 80,000+ cells efficiently
  • Superior sensitivity
  • Simple workflow
  • Cell size flexibility, no lower limits
  • Highest cell capture rates of up to 65%
  • Low doublet rates of under 0.9% in 1,000 cells
  • Available with Next GEM technology
View the Workflow
Single Cell Immune Profiling

Getting Started Guide:
Single Cell Gene Expression

Whether you have questions about how to design your experiments, optimize parameters, or identify the computational/analytical tools necessary to best analyze your single cell gene expression data, this guide has you covered. Take full advantage of the rich information enabled by single cell transcriptomic technology by downloading the getting started guide today!

Download Getting Started Guide

Profile the Adaptive Immune System

Watch How it Works

Single cell immune sequencing unlocks multiple dimensions of immune cell function. Learn more about how to identify cell type-specific immune repertoires on a cell-by-cell basis.


Feature Barcoding Technology

Watch How it Works

See how combining our solution with Feature Barcoding technology allows you to map the adaptive immune response in high definition. Watch examples of how you can get a more complete cellular read-out, cell by cell—the possibilities are virtually limitless.

Single Cell Controller

Chromium Controller

Compact, Sleek, Efficient.

The compact, sleek Chromium Controller rapidly and efficiently combines large partition numbers with a massively diverse barcode library to generate >100,000 barcode-containing partitions in a matter of minutes. The Chromium Controller fits on a standard laboratory bench and allows a user to run any Chromium Solution, from genome to single cell analysis.

View Our Controller Gallery

Product List

To view a list of products by application type, first select species and indicate if performing gene expression in addition to immune profiling. If you would like to combine this solution with Feature Barcoding technology, select Feature Barcode type(s).

Immune Profiling Version

Species

Gene Expression

Feature Barcode Selection

Reagents & Consumables

Reactions
Product Code
Chromium i7 Multiplex Kit
96 rxns
120262
Chromium i7 Multiplex Kit
96 rxns
120262
Chromium i7 Multiplex Kit N, Set A
96 rxns
1000084
Chromium Next GEM Chip G Single Cell Kit
1000127
1000120
Chromium Next GEM Single Cell 5′ Library and Gel Bead Kit v1.1
1000167
1000165
Chromium Single Cell 5′ Feature Barcode Library Kit
16 rxns
1000080
Chromium Single Cell 5′ Library & Gel Bead Kit
1000014
1000006
Chromium Single Cell 5′ Library Construction Kit
16 rxns
1000020
Chromium Single Cell 5’ Feature Barcode Library Kit
16 rxns
1000080
Chromium Single Cell 5’ Library Construction Kit
16 rxns
1000020
Chromium Single Cell A Chip Kit
1000009
120236
Chromium Single Cell V(D)J Enrichment Kit, Human B Cell
96 rxns
1000016
Chromium Single Cell V(D)J Enrichment Kit, Human T Cell
96 rxns
1000005
Chromium Single Cell V(D)J Enrichment Kit, Mouse B Cell
96 rxns
1000072
Chromium Single Cell V(D)J Enrichment Kit, Mouse T Cell
96 rxns
1000071

Compatible Partner Products

Biolegend TotalSeq™-C
Immudex dCode™ Dextramer Reagents

Instruments

Warranty
Product Code
Chromium Controller & Next GEM Accessory Kit
1000202
1000204
Chromium Controller & Next GEM Accessory Kit
120223
120246

Software

Cell Ranger Analysis Pipelines
Loupe Cell Browser
Loupe V(D)J Browser

Documentation

Cell Labeling with Dextramers for Single Cell RNA Sequencing Protocols
Chromium Single Cell V(D)J Reagent Kits (v1.1 Chemistry)
Chromium Single Cell V(D)J Reagent Kits User Guide (v1.1 Chemistry) with Feature Barcoding technology for Cell Surface Protein
Demonstrated Protocol: Cell Surface Protein Labeling for Single Cell RNA Sequencing Protocols
User Guide: Chromium Single Cell V(D)J Reagent Kit
User Guide: Chromium Single Cell V(D)J Reagent Kits with Feature Barcoding Technology for Cell Surface Protein
Single Cell Immune Profiling Datasets
Scientific Seminars

Sample Preparation for Single Cell Analysis: Tips and Tricks

 
  • Jill Herschleb, PhD
Director, Sample Preparation, 10x Genomics
August 14, 2019

Integration of Multiple Types of Single-Cell Data With Seurat V3

 
  • Rahul Satija, PhD
Core Faculty Member, New York Genome Center & Assistant Professor, NYU Center for Genomics and Systems Biology
July 17, 2019

A Guide to Successfully Run Your Single Cell Immune Profiling Experiment with 10x Genomics

 
  • Giovanna Prout
Senior Director, Product Marketing 10x Genomics
June 27, 2019

Order your 10x System, today.