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Statistical analysis was conducted using a permutation t-test on the normalized data.
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Because of the paired, non-Gaussian nature of the data, a permutation t-test (100,000 permutations) was used to assess statistical independence of the cell proliferation (Ki-67) and apoptosis (TUNEL) variables between cyst and surface epithelial cell populations (Table 1).
The associations between FAK scores and categorical factors were assessed using independent sample permutation t-test.
Gene expression dynamics were analyzed over the climacteric time course using a permutation-based paired-sample t-test performed with BRB-Array Tools, whidentifiedfied 652 DEGs (Differentially Expressed Genes) in the HET data set (Additional file 3) and 139 DEGs using the HOM array (Additional file 4).
The robustness of the t-test will be assessed using a permutation test.
Differential expression analysis between RCB 0/I and RCB II/III at T1, T2 and T2 − T1 was performed using a permutation test based on the t-statistic.
The correlation between PY and PD was tested using a permutation test [ 34].
When comparing two groups (comparisons between cultivars), a t test was used instead, in case of unequal variances p value was determined using a permutation test.
The newly identified genes were further filtered using a permutation test.
Empirical values for chromosome-wise significance thresholds were determined using a permutation test.
P values were computed using a permutation test (10,000 permutations).
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