SS18::SSX redistributes BAF chromatin remodelers selectively to activate and repress transcription [scRNA-Seq]

In order to profile the transcriptional changes that accompany SyS development along disparate epithelial, mesenchymal, or poorly differentiated trajectories, we performed single cell transcriptome profiling (scRNA-seq) on mouse SyS tumors similar to those profiled epigenomically. The tumors exhibited a variety of histomorphologies, indicated in hematoxylin and eosin tumor sections of tissue immediately adjacent to that submitted for scRNA-seq. Overall design: we performed single cell RNA-seq for tumors that arose from SS18::SSX2 expression from the Rosa26 locus by TATCre injection in the limbs of mice (hSS2 allele), which exhibited a variety of histomorphologies