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. 2015 Apr 7;10(4):e0122271. doi: 10.1371/journal.pone.0122271

Fig 1. Results from stepwise conditional analysis of the TYK2 locus.

Fig 1

We fine-mapped the TYK2 locus using Immunochip data available for 7,222 ACPA+ RA cases and 15,870 controls (MAF>0). (A) In the meta-analysis, the best signal of association was at the TYK2 missense variant P1104A (rs34536443).(B) Conditional on P1104A, the best signal of association was at the TYK2 missense variant A928V (rs35018800). (C) Conditional on P1104A and A928V variants, the best signal of association is at the TYK2 missense variant I684S (rs12720356). (D) Conditional on the 3 RA-protective variants in TYK2, we observed no additional signal of association at the locus (best signal is rs3176768, P = 0.01). P-values from meta-analyses of logistic regressions results from 6 Immunochip collections are shown. The three TYK2 missense variants predicted to be damaging and independently associated with RA risk are highlighted in green.