A, B) Analysis of cluster domains for 22 GO processes that contain at least 10 genes. Each point represents a GO ontological process organized by a spring-electrical distribution of ontologies. Ontologies that are highly interconnected with respect to the number of shared genes self-organize into functional domains representing: (1) Transcriptional Regulation, (2) Signal Transduction, (3) Multicellular Development, (4) Viral Response, and (5) Cellular Proliferation. Ontologies are pseudo-colored based on their intra-network heterogeneity calculated as the standard deviation of relative expression for genes, , belonging to that process, , between indicated conditions: Het( P ) = Standard Deviation P , where k indicates the reference condition and i the comparison condition. For full calculation, see Equation (6). ( A) Intra-network heterogeneity of gene expression for the ontologies described above using CV SE as the reference condition in comparison to CV EGF (Δ L = 2%, the left graph) and in comparison to d A-KD SE (Δ L = 32%, the right graph). Chromatin heterogeneity d L was measured in fixed cells. A higher Δ d L between conditions is associated with increased divergence of gene expression within any given process. ( d B) Analysis of ontological divergence as described above in relation to changes in chromatin heterogeneity in live cells measured in real-time. Transformation of intra-network expression is analyzed relative to the CV SD (initial state) as the reference condition to compare the transformation for two final states: + EGF (Δ∑ = 0.67%, the right graph) and +PMA (Δ∑ = 8.5%, the left graph). Chromatin heterogeneity Δ∑ was measured in the same live cells before and after treatment. Early transformation in chromatin topology, Δ∑, precedes observed intra-network transcriptional heterogeneity measured through microarray analysis. Critically, measurements of ∑ were taken within 30 minutes, timescales which precede the classical expectation of intra-network feedback mechanisms due to translational feedback.