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The expression of 84 genes are taken from 42, 44, 52, 54 vs 2 comparisons.  One gene was Affy control which was removed.  No filtering of “A” and “NC” is applied because there are many missing values.  However, in general the average ratio of (52,54) vs. (42, 44) agreed with average ratio calculated by (52 vs 42, 54 vs. 44 etc.).