Table 3.
Shared loci between CeD and RA
| CeD |
CeD conditioned on RA | RA | RA conditioned on CeD | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CHR | Locus | SNP | Position | Meta P-value | Distance | r2 | D’ | SNP | Position | Meta P-value | ||
| 1 | MMEL1 | rs10797437 | 2539006 | 6.74E-08 | 0.0001 | 790 | 0.90 | 0.98 | rs4073285 | 2539796 | 3.70E-09 | 0.0003 |
| 2 | AFF3 | rs11681227 | 100754997 | 3.31E-06 | 0.0044 | 82305 | 0.41 | 0.89 | rs10209110 | 100672692 | 7.36E-09 | 0.0013 |
| 6 | BACH2 | rs2174281 | 90987872 | 2.45E-06 | 0.0048 | 11104 | 0.26 | 1 | rs72928038 | 90976768 | 2.37E-06 | 2.15E-06 |
| 7 | ELMO1 | rs60600003 | 37382465 | 2.37E-06 | 0.0052 | 51735 | 0.85 | 0.95 | rs28482033 | 37434200 | 3.17E-06 | 0.0042 |
| 8 | MIR1208/PVT1 | rs10089519 | 129532118 | 9.50E-05 | 0.0177 | 35063 | 0.22 | 0.85 | rs6651252 | 129567181 | 1.60E-05 | 0.0035 |
| 10 | PRKCQ | rs2387397 | 6390192 | 1.46E-07 | 0.0518 | 258 | 0.81 | 0.99 | rs947474 | 6390450 | 1.67E-05 | 0.0543 |
| 22 | UBE2L3 | rs4821116 | 21973319 | 5.04E-08 | 0.0006 | 5777 | 0.75 | 0.98 | rs11089637 | 21979096 | 3.45E-05 | 0.2083 |
| 18 | PTPN2 | rs2847260 | 12775591 | 7.84E-08 | 0.0015 | 104615 | 0.43 | 0.67 | rs7241016 | 12880206 | 4.21E-07 | 0.0012 |
| 2 | REL/PUS10 | rs13003464 | 61186829 | 4.93E-10 | 6.02E-10 | 279774 | 0.01 | 0.52 | rs78404002 | 61466603 | 8.72E-06 | 6.14E-06 |
| 2 | STAT4 | rs7574608 | 191909864 | 4.09E-09 | 1.56E-08 | 23390 | 0.02 | 0.99 | rs13426947 | 191933254 | 4.65E-07 | 3.14E-06 |
| 2 | CD28/CTLA4 | rs2162610 | 204718729 | 1.49E-12 | 3.08E-08 | 20190 | 0.16 | 0.95 | rs3087243 | 204738919 | 9.48E-09 | 7.14E-07 |
| 3 | CCR1/CCR3 | rs6441963 | 46354839 | 1.51E-13 | 4.27E-13 | 373624 | 0.00 | 0.03 | rs17078454 | 45981215 | 4.17E-05 | 3.59E-05 |
| 3 | IL12A | rs17753641 | 159647674 | 8.23E-23 | 3.74E-24 | 62327 | 0.09 | 0.96 | rs582054 | 159710001 | 6.21E-05 | 4.18E-04 |
| 4 | IL2/IL21 | rs13132308 | 123551114 | 8.16E-29 | 9.86E-27 | 512819 | 0.02 | 0.96 | rs62323881 | 123038295 | 6.11E-05 | 1.45E-04 |
| 6 | OLIG3/TNFAIP3 | rs17264332 | 138005515 | 2.35E-23 | 1.58E-23 | 238224 | 0.02 | 0.46 | rs58721818 | 138243739 | 3.68E-09 | 3.77E-07 |
| 11 | CD6 | rs11230544 | 60746892 | 2.61E-05 | 2.97E-05 | 29592 | 0.01 | 0.39 | rs2074226 | 60776484 | 3.83E-06 | 2.63E-06 |
| 20 | MMP9/CD40 | rs6017715 | 44599839 | 6.07E-07 | 1.10E-06 | 149412 | 0.02 | 1 | rs4239702 | 44749251 | 7.35E-08 | 1.28E-07 |
Upper panel shows the regions with non-indepenpent (r2>0.2) association to both diseases. Lower panel shows the regions with independent (r2<0.2) associations in each of the loci analysed. Meta P-value columns in both CeD and RA are the significance values for the meta-analysis of the populations conforming each of the datasets. Distance refers to the amount of base-pairs between the CeD and RA SNPs. D’ and r2 are the LD mesuares between the CeD and RA top SNPs in the region.