Histone Deacetylase Inhibition Enhances Self Renewal and Cardioprotection by Human Cord Blood-Derived CD34+ Cells
Figure 5
Unsupervised hierarchical cluster analysis and statistical analysis of mRNA and miRNA profiling in CTR vs. 7 days VPA treated CD34+ cells (A and B, respectively).
The analyses were performed initially using the whole datasets of genes (panel A, left heat map) or miRNAs (panel B, left heat map) that passed the quality assurance and filtering criteria (see Supplementary Methods), to assess whether expression profiles discriminates treatment groups. A second round of unsupervised hierarchical clustering was done on differentially expressed genes (panel B, right heat map) or miRNAs (panel C, right heat map), as selected by significance analysis (see Supplementary Methods), to identify biologically relevant co-expressed gene clusters. The mean centered level of expression of each gene/miRNA in each sample is represented with green, black, and red colour scales (green indicates below mean; black, equal to mean; and red, above mean). The dendrograms on top of each heat map display the unsupervised clustering of control and VPA-treated CD34+ cells using the whole or the differentially expressed gene/miRNA lists. The dendrograms on the left side of each heat map show the unsupervised clustering of the genes. Correlation coefficients are reported for both. See Supplementary Methods for data transformation and adjustments, distance metrics and linkage methods.