Table 1.

Ranks of the normalization methods in Welch's t-tests (without permutation) in the time course dataset. For each time point, the normalization strategies were ranked based on the numbers of differentially expressed genes estimated from the normalized data using Welch's t-tests without permutation. The more differentially expressed genes detected, the higher the rank of the normalization method. The mean, median and standard deviation of the ranks across all the time points were calculated for each method and are shown in the "Mean Rank", "Median Rank" and "Standard Deviation" columns, respectively. For each column in the table, the highest mean, median and standard deviation of the ranks are shown in bold.

Normalization Method	Rank					Mean Rank	Median Rank	Standard Deviation
	1d	3d	7d	14d	30d
Nonorm	2	1	1	1	1	1.2	1	0.4
Median	1	2	3	2	5	2.6	2	1.5
CyclicLoess	5	3	5	6	6	5.0	5	1.2
Quantile	3	5	6	3	3	4.0	3	1.4
Iset	6	6	2	5	2	4.2	5	2.0
Qspline	4	4	4	4	4	4.0	4	0