A Systems-Genetics Approach and Data Mining Tool to Assist in the Discovery of Genes Underlying Complex Traits in Oryza sativa
Figure 4
Circular Genome Plots of Network Module OsK25v1.0_G0002_LCM0431.
The chromosomes of rice are shown as the outer circle. Gray arcs are edges of the module. Endpoints of each edge are fixed on the physical location in the genome where the node (gene) is found. Red arcs are edges that overlap a genetic feature. The colored tiles along the chromosomes represent genetic features (e.g. QTLs or regions around significant SNPs in GWAS). A) Network view of the module. Red nodes overlap with genetic traits for amylose content, green nodes do not. B) Circular plot of the module with all genetic features for plant height. C) Plot with QTLs from a single genetic map (Cornell 9024/LH422 RI QTL 1996) and edges highlighted red where an edge overlaps at least two QTL. D) Plot of the all genetic features for amylose content where edges overlap with at least 1 genetic feature. E) Plot of all genetic features for amylose content with overlap of at least 3 genetic features. F) Plot of module edges with QTLs from a single genetic map (CNHAU Zhen97/H94 QTL 2005) with overlap of at least 3 genetic features. The inset graph shows the connectivity of the overlapping nodes.