DUX4 induces a homogeneous sequence of molecular changes, culminating in cellular apoptosis

Single cell RNA sequencing was performed on a CML derived cell line, which contains a TET-ON inducible system for DUX4 inducible expression (DIE). In attempt of finding key players early in the DUX4 induced process, we performed single-cell RNA sequencing (SCS) on induced DIE cells, as early as 2 hours after induction. In a sequential manner, DIE cells induced for 3, 4, and 6 hours were also collected and used for SCS. By analysing these cells at a single cell level, we aimed to find (subtle) changes in the DIE cell transcriptome, that start early after DUX4 induction. The transcriptome of induced DIE cells was compared to uninduced or DIE cells, to identify differentially expressed genes or pathways that change upon DUX4 induction. Samples were sequenced using Illumina Nextseq 500, 2x75 kit, high output. Two biological replicates per samples were send for sequencing.