Table 1.
Novel non-HLA loci associated with SSc clinical and serological subtypes.
Figure 1.
New loci associated with subphenotypes of SSc.
The lower part shows the Manhattan Plot with corrected P values of the GWAS cohorts. The upper part shows the ORs and the 95% CI interval of the novel associated regions in the GWAS cohorts (HLA region, left panel) and all cohorts (non-HLA loci, right panel) for the overall analysis and each subphenotype considered in the study. (Note: the ORs and CIs on the forest plot do not exactly correspond to the numbers in Table 1 and Table 2. Table 1 and Table 2 shows marginal effects of these SNPs while this figure presents ORs and CIs after the adjustment for the other SNPs claimed as independent for that phenotype).
Table 2.
Independent associations identified in the HLA region with the ACA and ATA positive subgroups.
Figure 2.
Manhattan plot showing the -log10 of the Mantel-Haenszel P value of all 1,112 SNPs in HLA region for the GWAS cohorts comprising 2,296 cases and 5,171 controls.
Associations for the whole SSc set are in black, while associations in ACA (760 cases) and ATA (447 cases) positive subgroups are in orange and red, respectively. Loci which were independently associated according to conditional logistic regression analysis are highlighted in grey.
Table 3.
Allelic combination analysis of the SNPs which are in the same association locus within the HLA region for the ACA and ATA positive subgroups of SSc patients.