Table 2.
Differentially expressed genes
| Parameter | p < 0.01 | p < 0.001 |
|---|---|---|
| Time (T) | 26,646 | 24,670 |
| Genotype (G) | 17,472 | 14,617 |
| GxT interaction (GT) | 5,513 | 3,453 |
| T and G | 16,050 | 12,901 |
| T, G and GT | 4,599 | 2,771 |
Differentially expressed genes were identified using gene-specific ANOVA with the following model: Yijkr = μi + Gij + Tik + (GxT)ijk + εijkr where Y, the response variable, represents the log-2 transformed normalized probeset intensity and μ, represents the grand mean level of expression for each gene. G, T and GxT represents Genotype effect, Time (duration of cold treatment) effect and interaction effect between Genotype and Time, respectively, and ε represents the stochastic error which is assumed to be normally distributed. The indexes i, j, k and r indicate the probeset (gene), genotype, time and biological replications, respectively.