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Table 2 Characteristics of 39 genetic variants in PD and AD GWAS datasets

From: Parkinson’s disease and Alzheimer’s disease: a Mendelian randomization study

SNP Chr Pos Nearby Genes EA NEA EAFa PD AD GWAS
Betab SE P value Betab SE P value
rs10797576 1 232,664,611 SIPA1L2 T C 0.127 0.113 0.014 8.41E-13 0.006 0.022 0.795
rs10906923 10 15,569,598 FAM171A1 A C 0.461 0.073 0.014 1.35E-8 −0.033 0.017 0.051
rs11060180 12 123,303,586 OGFOD2 A G 0.748 0.105 0.011 2.05E-20 0.032 0.019 0.081
rs11158026 14 55,348,869 GCH1 C T 0.490 0.094 0.011 4.30E-16 −0.002 0.017 0.894
rs115185635 3 87,520,857 CHMP2B C G 0.012 0.191 0.048 1.22E-4 −0.022 0.058 0.702
rs11724635 4 15,737,101 FAM200B, CD38 A C 0.408 0.105 0.011 1.22E-19 −0.032 0.016 0.040
rs117896735 10 121,536,327 BAG3 A G 0.004 0.501 0.057 2.23E-19 0.133 0.086 0.119
rs12456492 18 40,673,380 SYT4 G A 0.330 0.095 0.012 5.56E-16 0.009 0.017 0.589
rs12497850 3 48,748,989 NCKIPSD, CDC71 T G 0.731 0.073 0.014 9.16E-9 0.028 0.017 0.088
rs12637471 3 182,762,437 MCCC1 G A 0.663 0.163 0.015 2.11E-30 0.002 0.019 0.909
rs13294100 9 17,579,690 SH3GL2 G T 0.457 0.083 0.014 4.84E-13 0.013 0.017 0.453
rs14235 16 31,121,793 ZNF646, KAT8 A G 0.359 0.077 0.009 5.44E-12 0.041 0.016 0.011
rs1474055 2 169,110,394 STK39 T C 0.201 0.186 0.018 5.68E-26 0.004 0.024 0.881
rs1555399 14 67,984,370 TMEM229B T A 0.607 0.086 0.012 9.61E-11 −0.021 0.016 0.194
rs199347 7 23,293,746 KLHL7, NUPL2, GPNMB A G 0.483 0.094 0.011 3.51E-18 −0.033 0.016 0.039
rs2280104 8 22,525,980 SORBS3, PDLIM2, C8orf58, BIN3 T C 0.265 0.068 0.012 2.53E-8 −0.002 0.016 0.923
rs2414739 15 61,994,134 VPS13C A G 0.679 0.094 0.011 3.94E-14 −8.00E-04 0.017 0.964
rs2694528 5 60,273,923 ELOVL7 C A 0.135 0.140 0.020 4.84E-15 −0.028 0.027 0.305
rs2740594 8 11,707,174 CTSB A G 0.893 0.086 0.012 5.91E-12 0.002 0.018 0.926
rs329648 11 133,765,367 MIR4697 T C 0.465 0.086 0.012 1.11E-13 −0.007 0.018 0.701
rs34043159 2 102,413,116 IL1R2 C T 0.332 0.077 0.009 5.48E-11 0.006 0.016 0.695
rs34311866 4 951,947 TMEM175,DGKQ C T 0.140 0.207 0.014 1.47E-50 0.009 0.021 0.685
rs353116 2 166,133,632 SCN3A C T 0.557 0.062 0.011 2.98E-8 0.038 0.016 0.021
rs356182 4 90,626,111 SNCA G A 0.404 0.285 0.012 5.21E-123 −0.056 0.017 0.001
rs35749011 1 155,135,036 GBA A G 0.005 0.545 0.044 2.59E-35 0.188 0.071 0.008
rs3793947 11 83,544,472 DLG2 G A 0.570 0.073 0.011 3.72E-9 −0.010 0.016 0.525
rs4073221 3 18,277,488 SATB1 G T 0.062 0.095 0.016 1.57E-8 0.007 0.023 0.754
rs4653767 1 226,916,078 ITPKB T C 0.726 0.083 0.011 1.63E-11 −0.005 0.017 0.756
rs4784227 16 52,599,188 TOX3 T C 0.200 0.086 0.014 9.75E-11 −0.010 0.018 0.580
rs591323 8 16,697,091 MICU3 G A 0.635 0.094 0.014 2.38E-11 −0.002 0.018 0.930
rs62120679 19 2,363,319 LSM7 T C 0.426 0.077 0.014 6.64E-7 −0.004 0.022 0.843
rs6430538 2 135,539,967 TMEM163,CCNT2 C T 0.189 0.117 0.011 8.24E-24 −0.047 0.017 0.006
rs6812193 4 77,198,986 FAM47E C T 0.687 0.083 0.011 1.43E-14 −0.017 0.016 0.310
rs76904798 12 40,614,434 LRRK2 T C 0.132 0.140 0.015 1.21E-19 −0.016 0.022 0.483
rs78738012 4 114,360,372 ANK2, CAMK2D C T 0.039 0.122 0.018 4.78E-11 −0.012 0.029 0.680
rs8005172 14 88,472,612 GALC T C 0.434 0.077 0.012 8.77E-11 −0.021 0.016 0.171
rs8118008 20 3,168,166 DDRGK1 A G 0.540 0.068 0.012 1.99E-6 0.014 0.018 0.432
rs823118 1 205,723,572 NUCKS1, SLC41A1 T C 0.411 0.117 0.011 1.12E-23 −0.003 0.016 0.846
rs9468199 6 27,681,215 ZNF184 A G 0.300 0.104 0.014 1.46E-12 0.044 0.022 0.046
  1. SNP single-nucleotide polymorphism, Chr Chromosome, Pos Position, EA Effect Allele, NEA Non-Effect Allele, EAF Effect Allele Frequency, PD Parkinson’s disease, AD Alzheimer’s disease, GWAS genome-wide association studies, SE standard error
  2. aFrequency of the effect allele in 1000 Genomes Project (CEU)
  3. bBeta is the regression coefficient based on the effect allele. Beta > 0 and Beta < 0 means that this effect allele regulates increased and reduced PD or AD risk, respectively