title: A single cell expression study of primary treatment-naive colorectal cancer from MMR deficient, MMR proficient, and adjacent tumour samples.: Sample C125_T_1_1_1_c2_v2
design: 8000 cells were loaded into each channel of the 10x Chromium controller, following the manufacturer-supplied protocol for the 3' kit. Additionally, a CD45-enriched sample was run for each specimen. To this end, dissociated and ACK-lysed cells were resuspended in cold PBS with 2 mM EDTA and 0.5% FCS and CD45+ cells were enriched using CD45 MicroBeads, human (Miltenyi) following the manufacturer's instructions. Cells were resuspended in loading buffer and loaded with 8000 cells per channel as described above. 10x libraries were constructed using the 10x supplied protocol and sequenced at the Broad Institute Genomics Platform. We note, that our tissue dissociation protocol was optimized to recover both malignant epithelial and immune cells in high quality, which required a mild dissociation procedure that is not ideal to extract stromal cells.