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. Author manuscript; available in PMC: 2013 Mar 1.
Published in final edited form as: Genes Immun. 2012 May 10;13(6):461–468. doi: 10.1038/gene.2012.17

Table 3.

Comparison of Residual Association Beta Estimates and Odds Ratios after Conditioning Studies

All Markersa Associationb Controlled
DRB1c 		Controlled
DQB1		 Controlled
DQA1		 Controlled
DPB1		 Controlled
DRB1 &
DPB1		 Controlled
DQB1 &
DPB1		 Controlled
DRB1*8, 11,
14, &
DPB1*03:01
mean B estimate 0.242 0.188 0.205 0.211 0.237 0.180 0.197 0.190
mean change in beta estimate Reference −0.055 −0.037 −0.026 −0.005 −0.062 −0.045 −0.052
mean OR 1.274 1.207 1.228 1.234 1.268 1.197 1.218 1.209
SNPs < 5E-8d Association Controlled
DRB1 		Controlled
DQB1 		Controlled
DQA1 		Controlled
DPB1 		Controlled
DRB1 &
DPB1 		Controlled
DQB1 &
DPB1 		Controlled
DRB1*8, 11,
14, &
DPB1*03:01
mean B estimate 0.710 0.165 0.297 0.340 0.585 0.159 0.295 0.179
mean change in beta estimate Reference −0.424 −0.236 −0.229 −0.005 −0.430 −0.240 −0.410
mean OR 2.03 1.18 1.35 1.41 1.79 1.17 1.34 1.20
a

All markers including SNPs (MHC region), classical HLA determinants and HLA Amino Acids.

b

The beta estimate, change in beta estimate and odds ratios from SNPTESTV2 score test (see methods).

c

Results after conditioning on the indicated HLA genes or alleles.

d

Results using only markers with p values < 5 × 10−8 in the initial association tests.

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