Matrix representation of NCA and extension of NCA to include genetic perturbations.

(A) The same small toy example as Figure 1A. Log-linear equation representations of (B) the unperturbed NCA regulatory network model, (C) SNP1 perturbing the concentration of TF1, (D) SNP2 perturbing the promoter affinities of TF2 for its targets, (E) SNP3 perturbing the promoter affinities of TF1 and TF2 for G3.