Supplementary Figure 5: Spike-in normalized RNA-seq data from POLR2A-mutant v6.5 mouse ESCs do not reveal evidence for global transcriptional amplification in this model.
From: Recurrent somatic mutations in POLR2A define a distinct subset of meningiomas
(a) The FPKM (fragments per kilobase of exon per million mapped reads) was computed for spike-in control normalized RNAseq data from knock-in POLR2A mutant mES cells (two independent Q403K clones, A7 and B10) and compared to wildtype v6.5 mouse ES cells. Transcripts with an FPKM value of 1 or greater in wildtype cells were selected, and the density of transcripts with a given FPKM was plotted. The FPKM distribution is not significantly different between the samples, consistent with a lack of evidence for global transcriptional amplification. (b) In contrast, identical analysis of previously published spike-in normalized RNAseq data with high- and low- expression of c-Myc reveals a shift in the distribution of normalized FPKM in the cells with high expression of c-Myc, consistent with global transcriptional amplification.
