Fig. S5: β-catenin ChIP-seq of embryos stage NF20. (A) Experimental design showing β-catenin ChIP-seq of 100 FG or 100 HG explants dissected from DMSO vehicle control or BIO treated NF20 embryos. Reads were merged and MACS2 peak calling was performed followed by irreproducibility discovery rate (IDR) filtering with standard thresholds (Li et al., 2011) identified 16303 statistically significant peaks associated with 11007 genes (+/- 20 Kb from transcription start site) in the FG and HG samples. (B) Genomic distribution of β-catenin ChIP-seq peaks classified as upstream (-20kb), downstream (+20kb), intragenic and promoter (-1kb to +1kb) regions. (C) DNA-binding protein motif enrichment analysis of all β-catenin ChIP-seq peaks in the genome. (D) β- catenin ChIP-PCR of known CRMs in Wnt-target genes ventx2.1, cdx2 and sp5 from Tg(hsp70:dkk1) embryos with and without heat shock (HS). (E) Read density of different classes of β-catenin and p300 peaks in DMSO or BIO treated FG and HG explants from Fig. 5B. +/-2kb centered on the β-catenin peak summit. (F) Box plots of average tag density of β-catenin and p300 peaks on HG Wnt-activated genes (a’), and FG Wnt-repressed genes (b’ and b”) upon BIO treatment. *p<0.05, Wilcoxon test.
Image published in: Stevens ML et al. (2017)
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