Additional file 8: Figure S5. of Maize network analysis revealed gene modules involved in development, nutrients utilization, metabolism, and stress response

2017-08-01T05:00:00Z (GMT) by Shisong Ma Zehong Ding Pinghua Li
A module for wax biosynthesis. Figure S6. A module for heat-shock stress response. Figure S7. A module for ER-stress response. Figure S8. A module for stress response to fungus. Figure S9. Comparison between the non-transformed FPKM network and the log-transformation-based network. Both networks were evaluated via the EGAD package [99] in R regarding their capacities to connect genes with shared GO terms. For each GO term, the maize genes with that GO were considered as a gene set, and an AUROC value was calculated for each network using the EGAD package. A higher AUROC value indicates genes within that gene set are more likely to have each other as neighbors, and thus a better performance of the network. The histogram shows the overall distribution of the AUROC values for 1728 GO terms calculated for the non-transformed FPKM network (green bar) and for the log-transformation-based network (transparent bar with black border). The log-transformation-based network has more GO terms with higher AUROC values, thus it performs better than the other network. (PDF 795 kb)