First scRNA-sequencing run (Th1-like) - Raw (MTX) & Processed (RDS) files

Th1-like cells were generated from a single donor as described in the previous sections. After 5 days of differentiation, the cells were washed and then 1x106 cells plated in base media with and without CD3/CD28 beads (ratio 1 bead to 8 cells). After 24 hours, the cells were harvested and 2x105 cells from each condition were stained with cell hashing antibodies targeting β2-microglobulin and CD298, and then washed. The cells from both conditions were then pooled and stained with a panel of oligo-conjugated antibodies against surface proteins, followed by washing. Next the cells were counted and loaded into one well of a Chromium Next GEM Chip K (10X Genomics, P/N 2000182), and run on a 10X Chromium Controller. Gene expression, V(D)J, and cell surface protein libraries were constructed as per the manufacturer’s protocol using Chromium Next GEM single Cell 5’ Reagent Kits v2 (Dual Index). The run was sequenced on a NovaSeq SP flow cell.