In order to better dissect the molecular mechanisms associated with the differences in the immune architecture in SSc patients, cell subsets that were differently represented in patients (i.e., CD4, CD8 T, MAIT, and B cells, Figures 1, 2) were sorted and subjected to transcriptome analysis by deep mRNA-sequencing (raw counts reported in Supplementary Table 3). The gene discussed is CD4; the disease is systemic sclerosis.