Dissecting Dynamic Genetic Variation That Controls Temporal Gene Response in Yeast
Figure 4
A catalogue of dynamic, non-linear genetic effects in gene response following rapamycin treatment in yeast.
(A) Genetic effect profiles (left) and gene expression profiles (right) at six time points following rapamycin treatment (columns) for all genes identified by DyVER. Genetic effect values are the average increase (red) or decrease (purple) in effect size relative to non-stimulated cells (log-scaled). Gene expression values are the average increase (blue) or decrease (green) in gene expression relative to non-stimulated cells (log-scaled). Cis-associated genes are marked in gray (left color bar). Genes are partitioned into seven groups (C1–C7) based on their temporal two-state model (two state cartoons, shown as Fig. 2c, right; four singleton genes are omitted). (B) Four temporal two-state model groups C1, C2, C5, C7 (top to bottom). Left and middle panels: representative genes in each group. Left: gene expression of a representative gene (y-axis, log-scaled) across time points (x-axis). Each curve represents a different segregant, color coded by the best genetic variant found using DyVER (BY/black, RM/brown). Middle: genetic effect profiles of the representative gene, averaged across strains (log-scaled, y-axis) at each time point (x-axis). Right: shown are mean genetic effects (relative to non-stimulated cells, log-scaled; y-axis) and standard deviation (error bars) across time points (x-axis) for a certain group of genes.