Table 2.
Comparison of Three Procedures Controlling for Global Type I error in the Genome-wide Scan of Fasting Glucose Levels in the EA Population of the ARIC
| Region | Candidate Gene(s) | Total SNPsa | MAFb |
No. of SNPs Identified |
||
|---|---|---|---|---|---|---|
| Bonferroni | BH | WBH | ||||
| 2p23.3 | GCKR | 1 | 0.40 | 0 | 0 | 1 |
| 2q24.3 | G6PC2, ABCB11 | 19 | 0.29 ∼0.48 | 17 | 18 | 19 |
| 4q31.23 | NR3C2 | 1 | 0.072 | 0 | 0 | 1 |
| 6p12.3 | RUNX2 | 1 | 0.28 | 0 | 0 | 1 |
| 7p13 | GCK | 4 | 0.17 ∼0.22 | 4 | 4 | 4 |
| 11q21 | MTNR1B | 8 | 0.28 ∼0.43 | 7 | 7 | 8 |
| 13q21.32 | PCDH9 | 1 | 0.00018 | 1 | 1 | 1 |
| 20p11.21 | FOXA2 | 1 | 0.042 | 0 | 0 | 1 |
| Total | 36 | 29 | 30 | 36 | ||
The Bonferroni correction procedure controls the family-wise error rate at 0.05, whereas both the BH and WBH procedures control the FDR at 0.05. Abbreviations are as follows: MAF, minor allele frequency; BH, Benjamini and Hochberg procedure; WBH, weighted Benjamini and Hochberg procedure.
a
The number of significant SNPs in each region obtained with the use of the three procedures. The numbers are identical to those of the WBH procedure in this study.
b
The range of MAF for all of the significant SNPs (column 2) in each region calculated in the EA population of the ARIC.