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.

Laudencia-Chingcuanco et al. BMC Genomics 2011 12:299   doi:10.1186/1471-2164-12-299

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