Figure 2
The transcriptional network directed by Nodal signalling is substantially conserved in vetebrates. (A) Venn diagram indicating the number and overlap of genes with Smad2 binding ±10 kb of TSSs in ChIP-seq datasets for each of four vertebrates. (B) Examples of genes with proximal Smad2 binding in all four species; scale in reads per million reads. Colour coded as in A. (C) Relationship between ndr1-responsive genes and proximal Smad2 binding in 1 (left), 2 (middle) or 3+ species (right). Colour coded as in A. †P ≤1 × 10-12; †††P ≤1 × 10-42; †††P ≤1 × 10-48. (D) Fold enrichment for genes expressed at sites of Nodal activity amongst genes with proximal Smad2 binding in zebrafish, or zebrafish and other species. (E) Fold enrichment for genes involved in known Nodal-mediated processes amongst genes with proximal Smad2 binding in zebrafish, or zebrafish and other species. Key defined as gene subsets as in A. *P ≤5 × 10-2; **P ≤3 × 10-4; ***P ≤5 × 10-6; ****P ≤1 × 10-20. ChIP-seq, chromatin immunoprecipitation sequencing; TSSs, transcription start sites.