Table 7.
Concordance Rates per data set for Affymetrix HG_U133A GeneChip array.a
| A. Intersection using Probe ID | ||||
|---|---|---|---|---|
| 10% FDR | 5% FDR | |||
| UP | DN | UP | DN | |
| Blalockb | 104 (8.4%) | 493 (13.7%) | 55 (9.4%) | 392 (16.7%) |
| Dunckley | 252 (20.4%) | 733 (20.4%) | 117 (19.9%) | 488 (20.8%) |
| Blalock/Dunckley | 451 (10.1%) | 239 (8.4%) | 254 (7.1%) | 141 (10.0%) |
| all 3 data sets | 33 (2.6%) | 141 (3.9%) | 6 (1.0%) | 54 (2.3%) |
| B. Intersection using Gene Symbol | ||
|---|---|---|
| 10% FDR | ||
| UP | DN | |
| Blalockb | 258 (35.5%) | 610 (27.5%) |
| Dunckley | 195 (26.8%) | 812 (36.6%) |
| Blalock/Dunckley | 762 (21.7%) | 554 (14.0%) |
| all 3 data sets | 59 (8.1%) | 274 (12.3%) |
a
Concordance was determined for each pair of data sets by measuring the intersection of transcripts significantly differentially regulated at 10% and 5% FDR. The number and percentage of transcripts concordant in each comparison is given.
b
The concordance of each data set with our results, between Blalock, et al and Dunckley, et al, and the concordance among all three data sets is presented.