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. Author manuscript; available in PMC: 2018 Sep 20.
Published in final edited form as: Cell Rep. 2018 Jun 26;23(13):3933–3945. doi: 10.1016/j.celrep.2018.05.097

Figure 3 – ARID1A depletion causes attenuation of nascent transcription.

Figure 3 –

(A) Box plots compare nascent transcription (GRO-seq) before and after ARID1A depletion. Normalized read depth were calculated for the entire set of active protein coding genes and enhancers (intergenic H3K27ac peaks). Additionally, transcription at all ribosomal genes (rRNA transcript type in v17 of GENCODE) and RNAPIII dependent genes is shown. (B) GRO-seq correlation plot for all transcribed coding genes reveals global transcriptional downregulation upon ARID1A-KD. (C) GRO-seq profiles at MYC and PEX13 loci. (D and E) GRO-seq and chromatin-enriched RNA-seq (CHROM-RNAseq) data were used to calculate Pausing Indexes of all expressed genes. Most genes show a decrease in their pausing index (proximal promoter reads/gene body reads) upon depletion of ARID1A (ARID1A-KD), suggesting a defect in pausing of RNAPII.