This protocol describes how to assess the expression of a large array of genes at the clonal level. Single-cell RT-qPCR produces highly reliable results with a strong sensitivity for hundreds of samples and genes.
Perchet, T., Chea, S., Hasan, M., Cumano, A., Golub, R. Single-cell Gene Expression Using Multiplex RT-qPCR to Characterize Heterogeneity of Rare Lymphoid Populations. J. Vis. Exp. (119), e54858, doi:10.3791/54858 (2017).