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. Author manuscript; available in PMC: 2013 Jun 12.
Published in final edited form as: Dev Cell. 2012 May 17;22(6):1208–1220. doi: 10.1016/j.devcel.2012.03.014

Figure 4. Pax3 and Pax7 Binding Sites are Associated with Their Target Genes.

Figure 4

(A) Gene expression values from Pax3 over expressing cells were ranked based on SAM fold change and binned into 20 groups. See Figure S4 for significant target genes. Peaks located −30 ~ + 5kb from the TSS were assigned to those genes. The significance of peak to gene association for each bin was analyzed by one-sided binomial test against the global peak to gene fraction (red shows binomial test p-values, blue shows peak associated gene fractions for each bin). The lines are LOESS fits of the data to help visualize the trend. Lower graph shows ranked gene expression values. (B) Similar analysis as above for the association of peaks to genes for Pax7 dataset. Input gene expression is from Pax7 over expressing primary myoblasts and genome wide Pax7 binding sites. The association analysis was restricted to binding sites within −30 ~ + 5kb of the TSS, excluding binding sites that were further away from TSS. See Figure S4 for the distribution of Pax3 and Pax7 binding sites with respect to TSS.