Heatmaps show effects of ectopic miRNA regulation for sub-groups of 3' UTR length, 3' UTR conservation, and mRNA expression level. Three heat maps show -log (base 2) transformed P-values for (C) 3' UTR length, (D) 3' UTR conservation, and (E) mRNA expression. We added two cumulative density plots for Lim (A) and Selbach (B) to illustrate the multiple non-parametric tests for the sub-groups of 3' UTR lengths; 'All' is the cumulative density for all the genes measured in the experiment and represents the reference distribution. 'All' genes include both predicted miRNA target and non-target genes. Although the mRNA expression data (E) was cell type specific and for HeLa cells, we included the Linsley dataset (from HCT116 and DLD-1 colon tumor cells) in the heat map for comparison purpose (indicated with '*'). The color labels under the dendrogram represent green for microarray of transfection assay, gray for proteomics of transfection assay, and orange for both microarray and proteomics with inhibition assay. miRNA, microRNA; mRNA, messenger RNA; UTR, untranslated region.
Saito and Sætrom Silence 2012 3:3 doi:10.1186/1758-907X-3-3