Figure 6: Global gene expression cluster analysis for stage specifically expressed genes.
(a) Selected trends of global gene expression clustering comprising 496 genes using k-means (k=100) for all differentially expressed genes across the differentiation time course of HES5+ cells. Gene expression levels were log2 transformed and normalized to hESC by subtracting their respective hESC level. For all stages expression levels in HES5+ and HES5− cells are shown. Selected gene members of each cluster are indicated on the right while the cluster naming conventions are indicated on the left. Arrays were obtained from single replicates first used as a discovery tool, and then extensively validated by qPCR and immunostainings from independent experiments throughout the manuscript. (b) Gene set enrichment analysis results (using IPA, P-values are calculated using right-tailed Fisher exact test) of gene sets selected from the top 10 categories for each cluster are shown. Colour code indicates −log10 P-value.
