Fig. 2

Flowchart of dynamic network analysis of MeJA-induced plant defense. a Control and MeJA-treated time-series gene expression data were normalized. b Gene modules (e.g., M1, M2, and M3) were constructed based on Pearson correlation coefficients between genes. Genes with standard deviation (SD) increased sharply are shown in red, others are in green. c CI scores were calculated to quantify DNB module. The time point with the highest CI was detected as the tipping point of transition (critical transition state), marked in red. d DNB modules were inferred from the candidate of gene modules. The module of genes with the highest CI_max was recognized as DNB module. e Protein-protein interactions (PPIs) from STRING network. The high confidence of interactions was used as background network for DNB genes. f Core network for plant defense were constructed based on DNB genes and background network