Figure 1.

Methodological overview of the integrative network analyses. The analyses consisted of five steps (from left to right). First, multiple genomic data were collected to assembly an integrated gene network with approximately 11,000 nodes and approximately 64,000 edges. Second, an NGF algorithm was used to combine gene expression data with the gene network to rank the importance of the network components (genes and interactions) in PTI and ETI. Third, a shared subnetwork between PTI and ETI was identified and validated using independent data. The global network organizations of PTI and ETI were compared using modular network models. An interactive network Web browser was developed for the convenience of the scientific community. AGI, Arabidopsis Genome Initiative number.