Single cell RNAseq data from A2058 cell line (Melanoma)

The goal of this study was to unlock the cellular diversity of A2058, a melanoma cell line known to be resistant to BRAF inhibition, by performing single cell RNAseq profiling using a 10X genomics platform. This approach allowed us to study the transcriptional programming of every single melanoma cell, particularly of those cells expressing ABCB5, a cell surface protein involved in invasiveness and resistance to BRAF inhibition. Findings from this study revelaed that ABCB5-expressing cells also expressed melanocytic genes (MITF) but with a distinct transcriptional program to those expressing AXL. We also used this data to identify the expresion of commonly studied drug efflux pumps in melanoma cells. Viable A2058 cells were encapsulated and uniquely barcoded using Chromium Single Cell 3’ Reagent Kit v2 on a Chromium platform (10X Genomics). Single cell libraries were prepared as recommended by 10X Genomics and sequenced at 30,000 raw reads per cell in a NextSeq500 High Output flow cell (2x150 bp reads). Bioinformatic analyses including alignment, transcript count and cell clustering were performed using the Cell Ranger™ 2.0 software (10X Genomics). Visualization of cell clustering and gene expression analyses were performed on Loupe Cell Browser (10X Genomics).