Fig. 2: Similar transcription in WT and Y430C mESCs.
From: Cornelia de Lange syndrome-associated mutations cause a DNA damage signalling and repair defect
a RT-qPCR measuring mRNA of c-myc, Klf4, Oct4 and Nanog in mESCs after treatment with 300 nM JQ1 + , relative to that in untreated cells (JQ1-). Data are represented as mean ± SEM from 3 technical replicates. b RT-qPCR measuring mRNA for Klf4, Oct4 and Nanog in WT and Y430C mESCs. mRNA concentration is shown relative to WT set at 1. Data are represented as mean ± SEM from 3 biological replicates. c Heatmaps show enrichment of 4sU-seq data in WT and Y430C cells over transcribed regions (−1kb, TSS and +3 kb) (mm9_refseq). d Scatter plot of the 4sU-seq data in WT and Y430C cells, highlighting pluripotency genes in blue (Nanog, Sox2, Klf4, Esrrb, Pou5f1). Red dashed line shows best fitted line. Pearson correlation coefficient = 0.98. e, f UCSC browser screenshot showing 4SU-seq reads per 10 million over e the Nanog locus and f the Klf4 super-enhancer in WT and Y430C cells and ChIP-seq tracks for various histone modifications and DNaseI hypersensitivity in WT cells. Genome co-ordinates (Mb) are from the mm9 assembly of the mouse genome. Data from a biological replicate Y430C clone are in Supplementary Fig. 2.
