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Table 2 False positive error rates are estimated under the null hypothesis.

From: A systematic search for SNPs/haplotypes associated with disease phenotypes using a haplotype-based stepwise procedure

Odds Sample Sizes
Ratios 250 × 2 500 × 2 1,000 × 2
Null Hypothesis
    4.6 5.2 4.9
Alternative Hypothesis with a Single Functional SNP: 0 (ref) and 1
1.10 1.0/1.0/5.8 13.6/13.6/6.4 23.2/27.9/8.3
1.20 13.7/17.2/7.3 31.0/37.9/5.5 47.2/56.3/6.7
1.30 19.0/23.8/4.9 46.7/51.6/9.0 62.5/75.0/7.3
1.40 42.5/44.7/8.0 68.5/74.0/6.5 75.7/82.0/6.8
1.50 57.6/64.4/6.5 77.8/80.0/7.0 83.0/88.0/6.1
2.00 77.0/84.0/6.7 90.0/90.8/4.9 93.8/93.8/5.6
3.00 90.5/92.9/4.8 94.8/95.5/6.1 96.4/97.0/5.2
5.00 92.1/93.5/4.3 96.3/96.3/4.9 97.5/98.0/5.0
Alternative Hypothesis with Two SNPs: 00 (ref), 01, 10 & 11
Scenario 1
1.0 1.3 1.0 17.6/41.2/7.3 42.9/67.8/6.0 39.4/71.1/9.0
1.0 1.5 1.0 30.9/57.1/9.1 44.4/76.1/8.0 45.9/72.7/10.0
1.0 2.0 1.0 57.5/90.0/5.3 62.2/95.0/4.0 79.9/99.3/1.3
1.0 3.0 1.0 61.2/96.3/4.7 63.0/98.0/2.0 89.0/99.0/1.0
1.0 5.0 1.0 64.8/97.8/3.3 66.7/99.7/1.4 100/100/2.0
Scenario 2
1.0 1.0 1.3 20.0/46.3/5.0 26.1/60.0/6.1 30.7/69.2/7.5
1.0 1.0 1.5 16.7/50.0/4.0 23.5/52.9/6.0 29.2/78.4/6.5
1.0 1.0 2.0 10.0/55.6/5.5 20.0/66.7/6.5 36.0/80.1/6.3
1.0 1.0 3.0 20.5/74.7/8.0 25.7/74.6/6.4 34.4/81.0/7.0
1.0 1.0 5.0 31.6/80.8/9.3 32.9/82.1/6.2 33.3/85.2/6.0
Scenario 3
1.0 1.3 1.3 20.8/54.1/7.3 21.6/59.5/10.1 40.4/67.4/8.1
1.0 1.3 1.5 22.9/47.6/7.3 38.3/78.5/6.0 39.5/79.8/8.0
1.0 1.3 2.0 15.6/48.5/7.6 32.0/79.0/6.3 44.5/85.3/7.3
1.0 1.3 3.0 26.7/77.4/6.3 38.7/80.1/6.2 50.7/91.3/4.6
1.0 1.3 5.0 30.3/78.7/6.6 41.3/82.6/6.0 55.5/91.0/4.4
Scenario 4
1.0 1.5 1.3 44.4/72.2/6.7 45.9/79.7/10.0 53.3/88.7/7.1
1.0 1.5 1.5 50.0/75.0/6.6 45.7/80.6/9.2 47.8/87.3/7.0
1.0 1.5 2.0 33.9/69.5/9.7 37.5/79.4/8.3 49.7/93.7/6.3
1.0 1.5 3.0 28.1/74.6/9.0 42.1/82.0/6.7 51.0/94.9/6.0
1.0 1.5 5.0 39.4/86.2/7.7 49.2/94.89/5.7 53.0/99.4/5.0
Scenario 5
2.0 1.5 1.3 50.1/82.1/5.3 51.9/85.8/7.0 56.3/90.1/7.5
2.0 1.5 1.5 51.7/89.4/7.3 52.4/90.0/7.0 57.4/93.5/6.7
2.0 1.5 2.0 52.6/89.3/9.3 51.0/92.8/6.3 60.0/99.7/5.0
2.0 1.5 3.0 52.7/89.3/9.0 54.1/90.3/6.2 65.4/100/4.8
2.0 1.5 5.0 53.8/89.6/5.3 55.3/96.7/5.3 70.1/100/4.7
  1. Also estimated, under alternative hypotheses with either a single SNP or two SNPs, are the true discovery rate (TDR), imperfect true discovery rate (iTDR) and false positive error rate (FPER).