Table 2 A list of selected probe measures

1. MAS4.0-equivalent

Z _jik = (y_{ji 1k}- y_{ji 0k})

Direct difference between PM and MM

2. MAS5.0-equivalent

Z _jik = (y_{ji 1k}- )

is the Idealized Mis-match (IM)

3. PM only

Z _jik = y_{ji 1k}

Ignore MM

4. RMA-equivalent

Z _jik = log(y_{ji 1k}- )

is the mean background estimated from PM for the k^th chip

5. Log ratio

Z _jik = ln(y_{ji 1k}/ y_{ji 0k})

Difference on the logarithmic scale

6. Log difference

Z _jik = ln(y_{ji 1k}- )

Difference on the logarithmic scale

7. Log PM

Z _jik = ln(y_{ji 1k})

PM only on the logarithmic scale

8. Box-Cox on PM

Z _jik = ( - 1) / ω

Box-Cox transformation on PM only

9. Box-Cox on PM-IM

Z _jik = [(y_{ji 1k}- )^ω- 1] / ω

Box-Cox transformation on PM-IM