Additional file 2.

Empirical analysis using large number of genes in the mouse adipose and ND data sets. Page one is an empirical analysis using all 23568 genes without restricting to 3000 genes for the mouse adipose data set. (A) Absolute value of bicor versus AMI,UniversalVersion2. One million randomly sampled gene pairs are plotted to reduce computational burden. The two measures show good monotonic relationship. The red curve predicts AMI,UniversalVersion2 from bicor. The blue circle highlights the probe pair with the highest AMI,UniversalVersion2 z-score among those with insignificant bicor z-scores (less than 1.9 ); the red circle highlights the probe pair with the highest bicor z-score among those with insignificant AMI,UniversalVersion2 z-scores (less than 1.9 ). Red and blue circles are selected based on all gene pairs rather than sampled ones. (B) Prediction from bicor based on Eq. 18 and observed AMI,UniversalVersion2 are highly correlated. As in (A), one million randomly sampled gene pairs are plotted. Line y=x is added. (C) Gene expression of probe pairs highlighted by blue circles. (D) Gene expression of probe pairs highlighted by red circles.

Page two is the same analysis for ND data set using 10000 randomly selected genes rather than 3000 genes with highest variance.

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Song et al. BMC Bioinformatics 2012 13:328   doi:10.1186/1471-2105-13-328