What Matthew wrote: Clustering of the time-course gene expression was performed for each sample Col-0, Ler, prr579, phyAB, HsfQk at 22 oC using the CLUST algorithm (CITE). Recommended settings for RNA-seq TPM data were used as per manual [ref] i.e. log2, Z- and quantile normalisation of TPM values. Then, a symmetrical consensus cluster nxn (n being number of all genes clustered) was obtained by recording the number of times pairs of genes appear in the same cluster across the various samples. Data was visualised using clustered (hierarchical) heatmap.