Figure 3 from Negative Selection Maintains Grossly Altered but Broadly Stable Karyotypes in Metastatic Colorectal Cancer

Ongoing copy number alterations in model systems. A, Schematic of the method used to obtain and sequence single cells from cultured colorectal cancer cell line SW620 and patient-derived organoid (PDO) 3994-1117. Cell line SW620 underwent single-cell dispensing using the cellenONE system, followed by direct library prep (DLP) while the 10× Genomics Chromium was used to prepare single-cell libraries from the patient-derived organoid 3994-1117. B, Heatmap showing CNAs in single cells from colorectal cancer cell line SW620 and (C) from patient-derived organoid 3994-1117. Red = gain, blue = loss. D, Phylogenetic tree constructed using CNAs in the colorectal cancer cell line SW620. E, Frequency of copy number gains and losses at the tips of the SW620 phylogenetic tree. F, Phylogenetic tree constructed using CNAs in the colorectal cancer organoid 3994-117. G, Frequency of copy number gains and losses at the tips of the 3994-117 phylogenetic tree (as in E).