Fig. 6
Independent-SNP and collective association levels of variants contributing to pathways. Those highly ranked for mouse behavioral traits are shown. a Manhattan plot for fear conditioning, showing single-SNP p-values for linear regression. The mouse SNPs for genes in two pathways, Effects of PIP2 hydrolysis and γ-carboxylation of protein precursors are shown in color. Horizontal lines show the collective inference p-values for these two pathways. b–c Detailed views of two loci contributing to pathways in a. d–f Prepulse inhibition and three pathways, Platelet homeostasis, Serotonin clearance from synaptic cleft, and Metallothioneins bind metals. The collective p-values of the latter two pathways (bottom horizontal lines) are indistinguishable. Filled rectangles represent the coding regions of genes indicated