Figure 2

Dynamic clustering of layered biological profiles. The network of ESC core genes is shown connected on each one of the four layers depicting phenotypic outcomes in terms of histone acetylation levels (HIS), RNA polymerase binding affinity (POL), mRNA production (RNA) and protein translation levels (PRO) upon knockdown of nano g. Nodes correspond to genes and are colored according to the values associated at every time point for each informational level, on a yellow-to-blue gradient as indicated. Clustering at three distinct time points is shown for each level: (a) day 1; (b) day 3; (c) day 5. There seems to be a transition in terms of dynamics based on the evolution of gene-associated values and clustering outcomes from the epigenetic levels (most dynamic) to the translational level (most stable). Genes with highest change in associated impact value between consecutive time points are connected between layers for better emphasis (b): close-up picture shows genes prmt1, smarcad1 and rnf2 as the ones displaying the highest change.