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Table 1 Comparisons of false positive rate while the SNP data are in linkage disequilibrium.

From: Using the longest significance run to estimate region-specific p-values in genetic association mapping studies

Marker number

Relative risk

Allele frequency

False positive rate

   

Bonferroni

LSR1

LSR2

50

2.0

0.075

0.035

0.01

0.015

 

2.0

0.1

0.04

0.01

0.01

 

2.5

0.075

0.05

0.025

0.025

 

2.5

0.1

0.04

0.015

0.015

100

2.0

0.075

0.04

0.015

0.015

 

2.0

0.1

0.025

0.035

0.055

 

2.5

0.075

0.045

0.025

0.035

 

2.5

0.1

0.02

0.025

0.035

  1. Simulation was based on 200 replications with sample size 1000, under additive disease model. Screening criteria for LSR:α1 = 0.10, and level of significance for all methods:α2 = 0.05