RMA | Mean Slope | p-value | Std |
|---|
NetAffx (original)
| 0.74 | Â | 0.02 |
ensEMBL gene | 0.83 | 0.00040 | 0.01 |
ensEMBL transcript | 0.83 | 0.00053 | 0.01 |
Entrez | 0.78 | 0.00430 | 0.01 |
RefSeq | 0.78 | 0.00381 | 0.01 |
UniGene | 0.75 | 0.07085 | 0.01 |
- The accuracy between measured log2 ratios using RT-PCR and microarrays were compared for microarray measurements using the original (NetAffx) and updated probe set definitions across 16 genes. The accuracy was obtained by calculating the slope from a linear regression comparing the obtained log2 ratios estimates between the sample groups from the microarray to those estimates obtained using RT-PCR, where the microarray estimates were obtained using the different probe set definitions. A slope of 1 would indicate perfect accuracy.
- The table shows the mean of the obtained accuracy across the five labs. We performed a t-test to assess the difference in means of accuracy between the updated probe set definitions and the original probe set definition (NetAffx); p-values were calculated using a paired t-test (two-tailed distribution). The standard deviation for the mean is also shown. The data represents an assessment of RMA normalized data.
