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Figure 3 | BMC Developmental Biology

Figure 3

From: Genomic analysis of Xenopusorganizer function

Figure 3

Clustering genes regulated by organizer signaling. (A) Key to the hierarchical cluster format used throughout the paper. The clustergram shows the standardized expression intensity for the ten experimental conditions, after replicates have been averaged. To the right of the clustergram, the RP method results at 10% FDR are summarized in four columns representing the comparisons of Nog, Nog+Dkk, Dkk, or Dor to Ven. The colors found in the row for each gene represent the tests passed by that gene. Two colors in one column indicate that a gene passed the column's test at both stages. (B) Hierarchical cluster of all the selected genes. The far right shows the hierarchical cluster tree, followed by the clustergram, then RP results. Black ticks between the cluster tree and the clustergram mark every tenth gene, allowing referencing to Additional file 2 for the gene identities. The list break into four main clusters, labeled with red, yellow, orange, and magenta bars. Expanded views of clusters 3 and 4 can be found in Figures 4 and 5, respectively.

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