The disease phase diagram maps the clock-to-target temporal persistence ratio across four biological states. Healthy organoids: ratio 1.74× (clock dominates). Bmal1-KO (circadian clock ablated): ratio 0.99× (hierarchy collapses). APC-KO (colorectal adenoma model): ratio 0.43× (inversion — proliferative E2F programme now dominates over the clock). DblKO (APC-KO + Bmal1-KO): ratio 1.22× (partial rescue — removing the clock restores some hierarchy, likely by eliminating the APC-KO-amplified E-box competition). This diagram places disease states in a 2D space of clock persistence vs target persistence, revealing a transition from circadian-dominated to proliferation-dominated gene expression dynamics in colorectal cancer.