Single cell multi-modal analysis with VDJPuzzle identifies clonality and gene expression profiles of T and B cells

VDJPuzzle and VDJView form a tool for simultaneous analysis and visualisation of gene expression and immune receptors from the scRNAseq data of both T and B cells, that allows accurate detection of secreted/membrane bound B cell receptors. Using VDJPuzzle on scRNAseq data from breast cancer and metastatic lymph-nodes, we identified T and B cell subsets with distinct patterns of hypermutation, isotype, and gene signature associated with immune cell differentiation and activation.