library_construction_protocol: Following 2 weeks of rest from stimulation with  CD3 and CD28 antibodies and feeders in R10-100 with ARVs, cells were stained with DNA oligo-barcoded antibodies and loaded onto the 10x Chromium single-cell workflow (10X Genomics) as previously described61 with a few modifications. Approximately 0.05-0.3 x 106 cells per sample were resuspended in R10 media and incubated with the TotalSeq™-C Human Universal Cocktail (Biolegend) for 30 minutes at 4°C. In some cases, TotalSeq™-C hashing antibodies #1, #3 and #4 (Biolegend) were spiked into individual samples, which allowed for multiplexing of ARCs and uninfected clone combinations into the same 10X lane. After staining, cells were washed 3 times in R10 media, followed by centrifugation (400 × g for 5 minutes at 4°C) and supernatant aspiration. After the final wash, cells were resuspended in PBS and filtered through 70-µm cell strainers All experiments were performed using the 10x genomics V(D)J solution which incorporates scRNA-seq with additional profiling of protein surface markers . Antibody oligo counts are listed in the ADT and HTO tables. Stained cells from each sample were pooled and loaded into the 10X Chromium Single Cell Immune Profiling workflow according to the manufacturer's instructions (CG000330, revision G)