Figure 1

A flowchart of the analyses carried out in the study. (a) Differentially expressed (DE) genes are identified by the standard t-test. (b) Correlations between the expression profiles of the DE genes are calculated to quantify the level of coexpression. (c) Coexpression network analysis is performed to identify coexpressed gene modules. A matrix of correlations between gene expression profiles is first transformed through a power function into an adjacency matrix that is further transformed into a topological overlap matrix (TOM). Modules (represented by color bars) comprised of highly coexpressed genes are the identified using a dynamic cut-tree algorithm. (d) Association between gene modules and phenotypic traits is then accessed. (e) Pathway analysis is then performed on the gene modules of interest to derive regulatory networks for mechanism discovery.