Table 4 

Association results 

SNP 
Gene 
n_{0} 
n_{1} 
Fisher's pvalue 
EM pvalue 



rs3184504 
SH2B3 
0.52 
499 
0.41 
394 
1.9e6 
8.4e7 
rs7076103 
IL2RA 
0.19 
178 
0.10 
93 
4.5e8 
2.7e7 
rs2476601 
PTPN22 
0.09 
86 
0.16 
151 
8.1e6 
9.2e6 


Testing for association between common SNPs and T1D with Fisher's preliminary pvalue at most e5. In the table, and are the estimated minor allele frequencies using the EM algorithm in the controls and cases, respectively, and , i = 0, 1. The Fisher's pvalue is the preliminary pvalue using the Fisher's exact test as in [8] and the EM pvalue is the pvalue calculated based on the likelihood ratio statistic in equation 8. 

Chen and Sun BMC Genomics 2013 14(Suppl 1):S1 doi:10.1186/1471216414S1S1 