Table 2.
Number of hits and replication rates
| PRESCREENING | CEDAR | |||
|---|---|---|---|---|
| (n = 413, p = 28,100, q = 22,827) | (n = 286, p = 1,540, q = 474) | |||
| ATLASQTL | M-EPISPOT | EPISPOT | ATLASQTL | |
| Nb eQTL associations | 977 | 514 | 444 | 337 |
| cis replication (%) | 78.2 | 77.9 | 77.9 | |
| trans replication (%) | 55.8 | 54.9 | 54.9 | |
Number of eQTL associations discovered by the ATLASQTL prescreening (chromosome 12) and by each of the three (M-EPISPOT, EPISPOT, and ATLASQTL) analyses of the CEDAR data, along with the replication rates for the associations discovered at the prescreening stage. All analyses use an FDR threshold of 5%. The numbers of samples n, SNPs p, and transcripts q are indicated for each dataset. Full lists of eQTL associations for the different methods are provided in Tables S1, S2, S3, and S4.