To ensure that our conclusions regarding over-correction risk are not confined to a specific cell type and perturbation (i.e., a specific GO term that we have chosen), we extended our perturbed simulation to include another cell type (i.e., CD14+ monocytes) and perturbation (e.g., “Reactome influenza life cycle”) (Supplementary Figs. S5 and S6). Here, CD14 is linked to influenza.