Table 2: Table comparing the median MAD values on the X chromosome for each of the normalization methods. From this metric, we see that the “SmoothArray” normalization procedure provides the optimal noise reduction for probes on the X chromosome.

Raw “SmoothArray” Grid loess Quantile normalization Global median Background subtraction

0.1465 0.1139 0.1215 0.1468 0.1465 0.1675