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Multiple cells can have the same clonotype and each clonotype can have multiple makeups. Each clonotype contains one or more chains (TRA and TRB for T cells and IGH, IGK and IGL for B cells), the highest scoring V, D, and J gene segments, and CDR3 nucleotide sequence. T cells have a TRA and TRB chain with V, D, J and C regions.  In B cells, IGH is the heavy chain which has a V, D, and J region while IGK and IGL are the light chains with a V and J region. The Immunoglobulins have two identical heavy chains and two identical light chains. B cell isotypes are antigenic determinants that characterize the classes and subclasses of heavy chains and types and subtypes of light chains; the constant region (C gene) produced by the B cell changes but the V regions and specificity do not.  Constant regions do not participate in antigen recognition, instead C regions interact to mediate biological function; so isotypes have different function but can bind the same antigen. 

Import Data

Create a new project to upload your data. Ensure that you have transferred the filtered contig_annotations.csv file(s)² for each sample from either the cellranger vdj⁵ or cellranger multi⁶ pipeline to the server, as well as the filtered feature barcode matrices in H5 or MEX format from the cellranger multi pipeline for each sample.   

References

1. Tonegawa, S. Somatic generation of antibody diversity. Nature 302,575–581 (1983). https://doi.org/10.1038/302575a0
2. https://support.10xgenomics.com/single-cell-vdj/software/pipelines/latest/output/annotation#contig-annotation 
3. https://support.10xgenomics.com/single-cell-vdj/software/overview/welcome 
4. https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/7.0/advanced/h5_matrices
5. https://support.10xgenomics.com/single-cell-vdj/software/pipelines/latest/using/vdj 
6. https://support.10xgenomics.com/single-cell-vdj/software/pipelines/latest/using/multi

1. https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/7.0/output/matrices