Table 2

Sources of variance and calculation of variables for the split-plot ANOVA statistical design [18]

Source of variance

df

Sum of squares

Fs

Among populations

P - 1

2

SS_P

I × T × Σ(popmeans - GM)²

MS_P/MS_I(P)*

Among tissues

T - 1

2

SS_T

I × P × Σ(tissuemeans - GM)²

MS_T/MS_TI(P)^†

Interaction

(P - 1) × (T - 1)

4

SS_PT

I × Σ(tissue(population)means - popmeans - tissuemeans + GM)²

MS_PT/MS_TI(P)^‡

Among inviduals in population

P(I - 1)

6

SS_I(P)

T × Σ(ind(population)means - popmeans)²

Tissue-by-individual in population

P × (T - 1) × (I-1)

12

SS_TI(P)

Σ(samplemean - tissue(population)mean - ind(population)mean + popmean)²

MS_TI(P)/MS_dye^§

Dye within individuals

P × T × I × (D - 1)

27

SS D(I)

Replicate hybridization in dye

P × T × I × D × (H - 1)

54

Spot in replicate hybridization

P × T × I × D × H × (S - 1)

540

Total

P × T × I × D × H × S - 1

647

Whitehead and Crawford Genome Biology 2005 6:R13   doi:10.1186/gb-2005-6-2-r13