Fig. 1: Overall DL-MRA approach. | npj Systems Biology and Applications

Fig. 1: Overall DL-MRA approach.

From: Network inference from perturbation time course data

Fig. 1

a Two-node network with Jacobian elements labeled. Green arrows are stimuli and basal production terms. Time course experimental design with perturbations: vehicle (b), Node 1 (d), Node 2 (f). The vehicle may be the solvent like DMSO for inhibition with a drug, or a nontargeting si/shRNA for inhibition with si/shRNA. Simulated time course data for Vehicle perturbation (c), Node 1 perturbation (e), Node 2 perturbation (g) from the network in a. Left Column: no added noise; Right Column 10:1 signal-to-noise added. Actual versus inferred model parameters (S1,b, S1,ex, F11, F12, S2,b, S2,ex, F21, F22) for direct solution of Eqs. 3–4 in the absence (h) or presence (i) of noise, or with noise and the least-squares approach (j). In h and i, error bars are standard deviation across time points.

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