GSM6336544: CAR T cells, 9 patients: 5xCR, 4xPD IP-3; Homo sapiens; RNA-Seq
CD19-targeted CAR T cells were washed out from infusion bags. Cells were resuspended in PBS solution containing 0.4% BSA and counted to measure cell concentration and viability. We performed scRNA-seq for nine samples (5 CR and 4 PD) with enough number of residual cells. We first used dead cell removal kit (Miltenyi Biotec) containing MicroBeads for the magnetic labeling of dead cells and we then removed the dead cells by passing the resuspended cells through the magnetic field of a MACS separator. We performed library preparation process in three batches. For each batch, we used three different TotalSeq C anti-human Hashtag Antibodies (BioLegend, TotalSeq C anti-human hashtag 1,2 and 3 antibody) to multiplex the samples as per the manufacturer's protocols. Next, we did transcriptome capturing using 10x Chromium platform (10x Genomics). We used Chromium single cell 5' reagent v2 kit for gene expression profiling according to the manufacturer's instructions.