Scalable antigen screening
Antigen screening of up to tens of thousands of T and B cells in a single reaction.
In days, get functional immune receptor sequences alongside antigen specificity.
Flexible sample input
Compatible with magnetic bead–based and flow sorting sample enrichment methods.
Leverage the expertise of our compatible partners for off-the-shelf or custom products.
Single integrated workflow
From cells to antigen-specific receptor sequences for discovery of novel TCRs or antibodies.
Streamlined data analysis
Explore and visualize clonotypes, repertoire diversity, clonal expansion, and more.
Explore what you can do
B-cell receptor mapping at scale
Gain an understanding of your T-cell repertoire specificity
Comprehensive characterization of the immune response to antigens
Scale your investigation of antigen specificities with ease
Our End-to-End Solution
Chromium Instrument with Next GEM technology
Our compact instrument
Chromium Single Cell Immune Profiling Reagents
With our reagent kits, explore adaptive immunity through multidimensional approaches, including 5’ mRNA, full-length paired BCR and TCR sequences, antigen-receptor specificity, cell surface proteins, and more.
Analysis and Visualization Software
Our analysis pipelines
Our visualization software
World-Class Technical and Customer Support
Our expert support team can be contacted by phone or email.
Single Cell Immune Receptor Mapping is enabled with the following 10x Genomics products:
- Chromium Next GEM Single Cell 5' Kit v2
1000265, 4 rxns | 1000263, 16 rxns)
- Chromium Next GEM Chip K Single Cell Kit
(1000287, 16 rxns | 1000286, 48 rxns)
- Library Construction Kit
(1000190 | 16 rxns)
- Dual Index Kit TT Set A
(1000215 | 96 rxns) - Gene Expression and/or Immune Repertoire Profiling Libraries
- 5' Feature Barcode Kit
(1000256 | 16 rxns)
- Dual Index Kit TN Set A
(1000250 | 96 rxns) - Feature Barcode Libraries
- Chromium Single Cell Human TCR Amplification Kit
(1000252 | 16 rxns)
- Chromium Single Cell Human BCR Amplification Kit
(1000253 | 16 rxns)
- Chromium Single Cell Mouse TCR Amplification Kit
(1000254 | 16 rxns)
- Chromium Single Cell Mouse BCR Amplification Kit
(1000255 | 16 rxns)
- Targeted Gene Expression
Prepare your sample
Label your cells with desired antigens or pMHC multimers conjugated with a unique oligonucleotide barcode. Depending on the expected percentage of antigen-specific cells, cell populations can be enriched through flow-based or magnetic sorting. Post enrichment, samples can directly proceed to 10x Genomics Chromium GEM capture. Compatible cell suspensions include samples from dissociated tumor cells, fine needle aspirates, TILs, PBMCs, and more.Resources
Construct your 10x library
Construct 10x barcoded libraries using our reagent kits and Chromium Controller. The Chromium Controller 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
Analyze your data
Convert raw sequencing data to biologically meaningful insights with Cell Ranger. Cell Ranger processes data from gene expression, paired immune receptor repertoire sequences, cell surface proteins, and antigen specificities.
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
Visualize your data
Use our Loupe Browser and Loupe V(D)J Browser software to define and compare cell types based on different marker types.
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
Frequently Asked Questions
10x Genomics offers a fully supported workflow for determining antigen-specificity in T cells through use of Immudex’s dCODE Dextramer® reagents. This workflow can identify paired receptors that bind your epitope of interest at the single cell level. A technique recently reported by Vanderbilt, can be used to determine B-cell antigen specificity (Ian Setliff et al., High-Throughput Mapping of B Cell Receptor Sequences to Antigen Specificity. Cell, doi: 10.1016/j.cell.2019.11.003).
Antigen specificity data can be used for a wide range of assay types, including high-throughput antibody discovery, vaccine design, neo-antigen identification, high-resolution immune profiling studies, and more.
Most multimer assays are fluorescence-based, meaning that the multimer molecules are tagged with a fluorescent marker that can then be used for sorting antigen-specific cells. These kinds of studies can provide information about the number of antigen-specific cells in a cell population. With Single Cell Immune Profiling, you can get this information, as well the paired, full-length sequences of the antigen-specific receptors and gene expression data at the single cell level. Together, this data provides a complete profile of the immune response.
Because antigen-specific populations are rare, we recommend sorting for antigen-positive cells prior to 10x Genomics library preparation, but, ultimately, it depends on the goals of the experiment.