Figure 7.

Gene Set Enrichment Analysis of Known Salt Stress–Related Genes and Candidate Salt Stress–Related Genes.

(A) GO modules enriched with known salt stress–related genes and candidate salt stress–related genes visualized by the EM plug-in in Cytoscape.

(B) Expression heat map of salt stress–related genes in the root and shoot tissues. Left: Expression heat map of genes in the ten GO modules numbered according to the functional annotations of the GO modules in (A). Right: Genes that were classified into three groups, namely, predicted known stress-related genes in the positive sample set, genes only predicted by mlDNA, and known stress-related genes that were not included in the mlDNA prediction results.

(C) Regulation patterns of biological pathways inferred from the GO modules. The modules were numbered according to the functional annotation in (A).