GSM6418438: Breast cancer cells - TAMR; Homo sapiens; RNA-Seq
After treatment, cells were detached using phenol-red free TrypLE (Gibco) and collected in 1X DPBS (Gibco). Single cell suspensions from matrigel embedded PdXOs were obtained following dispase and TrypLE dissociation as described in their source publication. After one wash in 1X DPBS, cells were resuspended in 2% BSA-DPBS at a concentration of 10000 cells/ml. Following incubation with TruStain Fcx blocking solution (BioLegend), Totalseq A Hashtag antibodies were added per treatment group. Cells were washed 3 times with 1 ml 2%BSA-DPBS and resuspended to a volume of ~10000 cells/ml. Equal volumes of each treatment group were pooled and cell pool was assessed for cell concentration and viability. Single-cell cDNA and HTO libraries were generated using Chromium Single Cell 3′ version 3 and 3.1 reagents (10x genomics and Biolegend) per manufacturer's protocols. Chromium Single Cell Multiome ATAC + Gene Expression kit protocols were used per manufacturer's guidelines to generate the cDNA and ATAC libraries for the multiomic data. Single-end sequencing of libraries was performed per manufacturer's protocol on a Novaseq 6000 (Illumina) sequencer with HTO libraries constituting 5% of the sample.