Fig. 3. Candidate Wnt direct target genes have both a negative log2 fold change in dkk-injected embryos and a ChIP peak within 50 kb of the coding DNA sequence. (A) Differentially expressed (DE) genes were designated as candidate direct target genes if they had a ChIPseq peak within 50 kb from the coding DNA sequence (CDS). (B) Number of DE genes that have either no peaks or at least one peak within 50 kb from CDS. (C) Log2 fold change (y-axis) of DE gene plotted as a function of number of peaks within 50 kb (x-axis). Genes that have at least one peak have a significantly greater negative log2 fold change than genes with zero peaks. p<0.05. (D) A TCF motif is enriched in the set of peaks within 50 kb of DE genes as determined by MEMEChIP. E-value=2.5e−029. (E) Percentage of peaks with TCF motif. Blue is peaks within 50 kb of DE gene; white represents all consensus peaks.
Image published in: Kjolby RAS and Harland RM (2017)
Copyright © 2017. Image reproduced with permission of the Publisher, Elsevier B. V.
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