Table 2.

Dependence analysis by pairwise conditioning of four TYK2 SNPs in the overall combined cohort (7103 patients with SSc and 12 220 controls)

SNP	MAF cases/controls	Unconditioned p value	OR	*p Value: add to rs2304256	OR† add to rs2304256	*p Value: add to rs34536443	OR† add to rs34536443	*p Value: add to rs35018800	OR† add to rs35018800	*p Value: add to rs12720356	OR† add to rs12720356
rs34536443	0.023/0.026	2.28E-03	0.80	0.02	0.84	NA	NA	1.51E-03	0.79	1.04E-03	0.78
rs35018800	0.004/0.008	1.27E-03	0.59	9.56E-03	0.65	1.11E-03	0.57	NA	NA	1.20E-03	0.59
rs12720356	0.067/0.078	2.63E-05	0.83	0.176	0.94	5.09E-06	0.82	2.22E-05	0.83	NA	NA
rs2304256	0.246/0.279	3.08E-13	0.83	NA	NA	1.37E-05	0.89	4.75E-12	0.84	1.63E-07	0.86

^*Single locus test p value when SNP conditioned on rs2304256/rs34536443/rs35018800/rs12720356.

^†Single locus test OR when SNP conditioned on rs2304256/rs34536443/rs35018800/rs12720356.

MAF, minor allele frequency; NA, not applicable; SNP, single-nucleotide polymorphism; SSc, systemic sclerosis.