Figure 4

Results from the Arabidopsis data. (A) Analysis of cluster 0 from the Arabidopsis salt stress experiment [42] with the Metabolic Pathways module revealed that the cluster contained genes involved in lignin biosynthesis. The red colour indicates that the annotations were found by two annotation methods (PRIAM and KEGG in this case), and the purple indicates the enzyme was annotated by PRIAM only. (B) After analysing cluster 8 of the Arabidopsis data [42] with the Transcription Regulation module, it was possible to identify putative transcription factor binding sites. The output of the oligo-analysis tool of RSAT is shown, indicating two motifs on the reverse complement that were identified as similar to the WRKY binding site ((C/T)TGAC(T/C)) (highlighted in the red box). Cluster 8 is known to contain several WRKY transcription factors and several disease-resistance genes. (C) Output from the Patch program of the TRANSFAC sub-module. Shown is the PR-1a (a pathogenesis related protein) promoter binding site that was identified. The table headers are provided for convenience.