Supplementary Tables s8

Supplementary Tables

Supplementary table 1: Two transcripts (transcript 1 and 2) are chosen as examples to illustrate the correction procedure. In a first step, we defined cis-SNPs out of the 86,613 LD-pruned SNPs for each transcript. The remaining SNPs were defined as trans-SNPs. For the cis-trans epistasis we tested each cis-SNP with all trans-SNPs, which reflects the number of epistasis tests that were carried out per transcript (= # of cis-SNPs * # of trans-SNPs). For example, for transcript 1 we performed 86,612 epistasis tests (1 cis-SNP * 86,612 trans-SNPs). In contrast, for transcript 2 we carried more epistasis tests due to a higher number of included cis-SNPs (17,627,436 epistasis tests = 204 cis-SNPs * 86,409 trans-SNPs). For each transcript we then calculated the threshold of significance by taking the number of epistasis tests into account (= transcript-wise Bonferroni-adjusted P-value). Finally, all significant interactions were compared to the number of interactions, which were under the null hypothesis.

86,613 LD-pruned SNPs # of epistasis tests Bonferroni-adjusted P-value # of cis-SNPs # of trans-SNPs (= # cis-SNPs * # trans-SNPs) (= 0.05 / # of epistasis tests) Transcript 1 1 86,612 86,612 5.77E-07 Transcript 2 204 86,409 17,627,436 2.84E-09

1 Supplementary table 2: Column 1 lists all cis-trans interacting transcripts, column 2 gives the number of tested cis-SNPs for each transcript, column 3 shows the number of cis-trans tests, column 4 lists the Bonferroni-adjusted P-values necessary for a ‘significant’ finding, column 5 shows the uncorrected P-value per transcript obtained in the two-locus interaction analysis, the next columns provide information about the cis- and trans- SNPs including their eQTL effects under a one-locus model, the last column ranks the two-locus finding by the interaction evidence.

Transcript # of tested # of epistasis Bonferroni-adjusted Top observed Top cis-acting SNP Top trans-acting SNP Two-locus cis-SNPs tests P-value threshold two-locus P-value rs chr Position one-locus P-value rs chr Position one-locus P-value Gene rank

MAD2L2 31 2,684,042 1.86E-08 2.18E-09 rs4240900 1 12,551,224 8.06E-01 rs10002066 4 26,675,322 8.54E-01 - 140 USP48 36 3,116,772 1.60E-08 7.63E-09 rs213025 1 21,524,162 4.59E-01 rs10899917 10 43,623,622 6.32E-01 - 336 C1orf213 43 3,722,510 1.34E-08 5.51E-09 rs11249057 1 24,454,080 3.05E-01 rs7775194 6 103,482,115 2.90E-01 - 275 RUNX3 62 5,366,162 9.32E-09 8.52E-09 rs195700 1 24,682,656 7.30E-01 rs1356222 12 71,701,381 1.85E-01 - 351 FUCA1 51 4,414,662 1.13E-08 6.50E-09 rs2105184 1 24,827,553 1.34E-01 rs722074 16 17,241,872 7.72E-01 XYLT1 304 PIGV 14 1,212,386 4.12E-08 2.64E-08 rs2186232 1 26,375,263 5.08E-01 rs2209859 13 26,324,073 9.35E-01 - 435 PUM1 91 7,873,502 6.35E-09 1.87E-09 rs1731690 1 30,945,061 5.82E-01 rs12828016 12 868,626 4.96E-01 WNK1 119 S100PBP 36 3,116,772 1.60E-08 1.45E-10 rs7518553 1 32,087,734 4.10E-03 rs9910295 17 74,124,040 2.29E-01 - 20 PTP4A2 36 3,116,772 1.60E-08 5.74E-10 rs704887 1 32,838,071 9.40E-01 rs1303870 1 76,132,123 6.38E-01 MSH4 47 TMEM39B 36 3,116,772 1.60E-08 1.11E-09 rs1534893 1 33,245,529 2.18E-01 rs7033669 9 88,611,396 1.44E-01 - 80 CCDC28B 36 3,116,772 1.60E-08 6.68E-09 rs12060631 1 33,324,365 4.09E-01 rs985740 13 72,743,821 6.53E-01 - 309 AK2 40 3,462,920 1.44E-08 1.49E-09 rs292808 1 33,819,233 1.65E-01 rs11128111 3 69,228,322 8.61E-01 ARL6IP5 97 COL9A2 37 3,203,312 1.56E-08 2.04E-09 rs4660176 1 41,066,236 7.02E-01 rs4646047 1 15,704,370 2.16E-01 CASP9 129 MRPL37 49 4,241,636 1.18E-08 8.04E-09 rs2479418 1 55,267,465 2.74E-01 rs4262826 13 93,167,251 5.38E-01 GPC6 341 DHCR24 61 5,279,672 9.47E-09 1.17E-09 rs9326038 1 56,098,881 5.47E-01 rs700491 6 81,087,463 2.89E-01 BCKDHB 83 HS2ST1 56 4,847,192 1.03E-08 8.45E-09 rs12137116 1 87,882,416 9.95E-01 rs17643219 5 73,593,173 4.58E-02 - 349 PKN2 70 6,058,010 8.25E-09 6.14E-09 rs10493829 1 89,890,421 8.54E-01 rs948789 18 44,954,694 7.83E-01 DYM 293 DPH5 65 5,625,620 8.89E-09 6.28E-09 rs728323 1 102,146,868 5.03E-01 rs745086 20 46,866,922 4.35E-01 PREX1 296 RBM15 86 7,441,322 6.72E-09 3.17E-09 rs12731815 1 110,923,611 7.61E-01 rs10813990 9 33,496,670 3.97E-02 - 183 CTSS 24 2,078,136 2.41E-08 9.15E-09 rs4970996 1 148,773,213 2.62E-02 rs11202527 10 89,469,355 1.40E-01 PAPSS2 365

2 ARNT 27 2,337,822 2.14E-08 8.26E-12 rs7532008 1 149,226,974 8.68E-01 rs2937504 5 11,015,227 5.14E-01 CTNND2 3 INTS3 54 4,674,186 1.07E-08 4.13E-09 rs10888526 1 151,266,935 8.46E-01 rs876937 2 47,594,070 7.33E-01 KCNK12 219 ILF2 50 4,328,150 1.16E-08 1.12E-08 rs310122 1 151,330,912 6.98E-01 rs4794258 17 46,964,483 1.40E-03 - 383 TPM3 37 3,203,312 1.56E-08 3.15E-09 rs7535089 1 151,725,647 4.34E-01 rs11854854 15 77,370,020 8.16E-02 - 182 FAM189B 22 1,905,002 2.62E-08 1.26E-08 rs1218577 1 153,077,307 8.51E-01 rs7550433 1 200,896,347 3.62E-01 SYT2 397 DCAF8 43 3,722,510 1.34E-08 1.07E-08 rs4540655 1 157,745,583 4.15E-01 rs283097 5 156,095,437 2.04E-01 SGCD 381 PPOX 46 3,982,082 1.26E-08 9.53E-09 rs3766377 1 159,067,183 9.96E-01 rs2930342 8 3,725,513 4.72E-01 CSMD1 370 FCRLA 66 5,712,102 8.75E-09 9.31E-10 rs4657141 1 160,328,271 7.58E-01 rs7904080 10 7,672,592 1.59E-02 ITIH5 73 TIPRL 95 8,219,210 6.08E-09 9.34E-10 rs10800363 1 166,841,787 2.79E-01 rs9358636 6 23,494,593 5.22E-01 - 75 BAT2L2 72 6,230,952 8.02E-09 3.76E-09 rs4916384 1 169,662,537 9.25E-01 rs2736062 8 15,695,229 7.02E-01 - 207 EDEM3 57 4,933,692 1.01E-08 2.00E-09 rs10911555 1 182,549,602 7.74E-01 rs1389560 1 33,815,397 1.20E-01 CSMD2 126 ASPM 24 2,078,136 2.41E-08 9.66E-10 rs7417237 1 194,341,448 5.59E-01 rs1866610 2 4,889,477 3.36E-02 - 77 EPRS 46 3,982,082 1.26E-08 5.04E-09 rs4846676 1 219,219,225 2.45E-01 rs335405 6 155,703,512 6.96E-01 - 258 WDR26 51 4,414,662 1.13E-08 1.59E-09 rs2096345 1 221,908,305 8.93E-01 rs2560704 5 115,414,317 9.64E-01 - 105 MRPL55 48 4,155,120 1.20E-08 1.17E-08 rs1059778 1 226,438,685 9.91E-01 rs7190907 16 78,563,468 5.81E-02 - 387 TSNAX 94 8,132,786 6.15E-09 1.53E-09 rs2153049 1 229,114,015 9.68E-01 rs680730 11 116,980,443 6.80E-01 DSCAML1 103 EXOC8 93 8,046,360 6.21E-09 8.75E-10 rs6700792 1 229,236,636 3.42E-01 rs4698448 4 15,691,406 6.76E-01 PROM1 67 ARID4B 54 4,674,186 1.07E-08 4.58E-09 rs2753434 1 234,314,209 3.15E-01 rs3923169 5 163,744,136 7.35E-01 - 234 MTR 129 11,156,436 4.48E-09 3.26E-09 rs1253618 1 234,684,823 9.56E-01 rs2075755 19 6,373,888 7.32E-01 KHSRP 185 EXO1 88 7,614,200 6.57E-09 5.73E-09 rs2810034 1 240,673,011 7.90E-02 rs2154420 21 32,776,077 7.51E-01 C21orf63 280 HNRNPU 78 6,749,730 7.41E-09 4.97E-09 rs491725 1 243,618,648 4.52E-01 rs11872504 18 65,392,319 1.87E-01 DOK6 257 LPIN1 97 8,392,052 5.96E-09 1.38E-09 rs2716619 2 11,922,514 9.00E-01 rs713210 5 53,264,462 6.28E-01 ARL15 91 ROCK2 112 9,688,112 5.16E-09 4.30E-09 rs2716659 2 12,017,594 7.52E-01 rs522089 11 30,353,586 2.32E-01 - 226 CENPA 20 1,731,860 2.89E-08 2.52E-08 rs745395 2 26,690,187 7.75E-01 rs11852723 15 84,564,164 4.69E-01 - 433 MRPL33 68 5,885,060 8.50E-09 1.52E-09 rs10200337 2 28,115,178 7.99E-01 rs10929598 2 9,774,943 4.59E-01 - 101 PREB 29 2,510,936 1.99E-08 2.64E-09 rs10200337 2 28,115,178 2.17E-01 rs6691965 1 88,435,707 9.31E-01 - 162 ZNF512 65 5,625,620 8.89E-09 7.62E-09 rs12622211 2 28,528,076 9.66E-01 rs7820120 8 109,900,486 8.08E-01 - 335 CEBPZ 87 7,527,762 6.64E-09 9.16E-11 rs12052952 2 36,842,683 4.59E-02 rs807018 10 102,763,001 5.41E-01 LZTS2 16 C2orf56 87 7,527,762 6.64E-09 8.06E-10 rs6730884 2 36,905,063 8.44E-01 rs11173855 12 59,923,708 3.18E-01 - 61 GEMIN6 42 3,635,982 1.38E-08 7.05E-09 rs1367148 2 37,867,695 1.73E-01 rs6089232 20 60,516,335 9.19E-01 - 318

3 PPM1B 67 5,798,582 8.62E-09 3.53E-09 rs4146528 2 44,237,689 2.48E-02 rs11535192 7 39,290,874 2.62E-01 POU6F2 195 VRK2 66 5,712,102 8.75E-09 2.16E-09 rs10178765 2 58,363,538 4.76E-02 rs4950076 1 95,349,885 4.15E-01 TMEM56 139 ACTR2 86 7,441,322 6.72E-09 4.17E-09 rs11677815 2 65,654,486 4.51E-01 rs907320 4 140,906,095 5.73E-01 MAML3 221 INO80B 74 6,403,886 7.81E-09 8.47E-10 rs7564379 2 74,031,588 4.99E-01 rs8075775 17 68,160,426 2.40E-01 SLC39A11 64 MRPL53 75 6,490,350 7.70E-09 8.43E-10 rs10168354 2 75,236,218 7.03E-01 rs9511411 13 24,144,838 5.32E-01 ATP12A 63 MOGS 74 6,403,886 7.81E-09 5.32E-09 rs981296 2 75,447,553 1.13E-01 rs4931037 12 32,824,628 8.54E-01 - 268 RTKN 73 6,317,420 7.91E-09 5.33E-09 rs7564504 2 75,507,567 7.47E-01 rs7076213 10 4,780,557 8.71E-01 - 269 RNF181 35 3,030,230 1.65E-08 6.79E-09 rs7593080 2 85,999,298 8.81E-01 rs4244246 8 143,154,438 2.97E-01 - 313 VPS24 26 2,251,262 2.22E-08 6.01E-09 rs6547647 2 86,008,782 1.70E-01 rs10740406 10 53,417,852 2.76E-01 PRKG1 288 TXNDC9 51 4,414,662 1.13E-08 1.25E-09 rs4851278 2 100,244,629 9.44E-01 rs4979802 10 79,566,202 8.23E-01 - 87 MRPS9 90 7,787,070 6.42E-09 2.59E-10 rs2033303 2 104,924,327 1.70E-02 rs6068029 20 35,944,867 4.96E-01 - 26 PLEKHB2 17 1,472,132 3.40E-08 4.57E-09 rs12988224 2 132,179,448 1.97E-01 rs11826249 11 81,030,361 7.97E-01 - 233 GORASP2 64 5,539,136 9.03E-09 2.15E-09 rs10930438 2 171,315,117 2.25E-01 rs17081840 4 55,718,936 9.81E-01 - 138 PDK1 38 3,289,850 1.52E-08 9.42E-09 rs3769210 2 173,623,021 3.55E-01 rs1923655 10 113,555,440 9.22E-01 - 369 SP3 39 3,376,386 1.48E-08 7.32E-09 rs2600685 2 175,335,294 4.75E-01 rs12564925 1 151,880,169 4.21E-01 C1orf77 326 ATF2 29 2,510,936 1.99E-08 1.96E-08 rs2600685 2 175,335,294 2.26E-01 rs8032242 15 54,153,412 8.90E-01 - 424 NAB1 64 5,539,136 9.03E-09 9.19E-10 rs1080841 2 190,656,782 2.93E-01 rs13258857 8 121,328,369 5.38E-01 COL14A1 72 STAT1 66 5,712,102 8.75E-09 1.98E-09 rs4349283 2 192,398,223 8.11E-01 rs7419214 1 101,631,876 7.19E-01 - 124 SPATS2L 42 3,635,982 1.38E-08 5.89E-09 rs1653301 2 200,784,646 4.15E-01 rs383911 3 41,097,349 4.84E-01 - 283 TMBIM1 48 4,155,120 1.20E-08 4.84E-09 rs1430133 2 218,334,720 6.82E-01 rs11074618 16 24,287,484 9.65E-01 CACNG3 251 BCS1L 41 3,549,452 1.41E-08 4.05E-09 rs2279014 2 218,969,420 7.08E-01 rs966561 8 6,642,801 2.60E-02 - 216 EIF4E2 34 2,943,686 1.70E-08 6.48E-09 rs6431655 2 233,827,154 6.51E-01 rs38081 5 10,030,993 5.52E-01 - 303 PER2 70 6,058,010 8.25E-09 2.09E-09 rs2304431 2 238,321,675 8.91E-01 rs7808879 7 132,996,011 5.19E-01 EXOC4 132 HDLBP 40 3,462,920 1.44E-08 5.87E-10 rs11685173 2 240,872,867 5.80E-02 rs4937509 11 129,762,345 5.47E-01 FLJ34521 49 THUMPD3 113 9,774,500 5.12E-09 2.09E-10 rs2664122 3 9,136,375 6.80E-01 rs9283955 8 129,288,987 4.07E-01 - 23 PRRT3 87 7,527,762 6.64E-09 3.67E-09 rs7629381 3 10,586,407 5.61E-01 rs4697446 4 23,878,720 6.43E-01 - 204 SEC13 80 6,922,640 7.22E-09 4.09E-10 rs1881354 3 10,933,228 4.83E-01 rs12646488 4 21,694,351 4.32E-01 - 34 UBE2E1 146 12,624,182 3.96E-09 2.11E-09 rs826379 3 24,147,781 4.99E-01 rs6902872 6 135,128,716 8.18E-01 - 135 AZI2 96 8,305,632 6.02E-09 1.65E-09 rs9850192 3 29,081,737 5.53E-01 rs2720896 3 196,245,692 8.97E-01 - 108 CLASP2 65 5,625,620 8.89E-09 7.33E-09 rs13063187 3 32,671,788 1.43E-01 rs3103193 4 42,025,942 8.63E-01 - 327

4 SS18L2 49 4,241,636 1.18E-08 2.05E-09 rs17074351 3 42,408,309 2.14E-01 rs7682030 4 52,666,947 6.90E-01 SPATA18 130 SEC22C 50 4,328,150 1.16E-08 8.92E-09 rs11079 3 42,710,154 9.05E-01 rs10190431 2 214,756,457 6.14E-01 SPAG16 361 ABHD5 31 2,684,042 1.86E-08 4.88E-10 rs9839994 3 44,100,376 4.92E-01 rs11041554 11 7,722,652 1.61E-01 - 36 SHISA5 13 1,125,800 4.44E-08 1.49E-09 rs319686 3 47,905,424 8.33E-01 rs2968161 16 83,529,138 1.86E-01 - 96 MAP4 20 1,731,860 2.89E-08 2.24E-08 rs7619865 3 48,345,584 6.53E-01 rs797131 6 5,278,624 7.26E-01 FARS2 429 TRAIP 6 519,642 9.62E-08 4.69E-08 rs2236941 3 50,222,828 5.18E-01 rs9397719 6 154,797,305 5.10E-01 CNKSR3 440 APPL1 64 5,539,136 9.03E-09 4.94E-09 rs1386834 3 57,006,373 4.48E-01 rs1881870 7 118,298,051 5.63E-01 - 254 GBE1 48 4,155,119 1.20E-08 6.56E-09 rs17018517 3 81,231,278 6.90E-01 rs4897398 6 130,649,264 4.92E-01 - 308 CHMP2B 44 3,809,036 1.31E-08 3.53E-09 rs300989 3 87,427,487 1.46E-01 rs12328340 2 56,924,602 9.41E-01 - 196 ATP6V1A 72 6,230,952 8.02E-09 2.82E-09 rs7633291 3 115,369,758 9.38E-01 rs6597031 6 4,051,369 8.32E-01 C6orf201 169 C3orf1 60 5,193,180 9.63E-09 4.04E-09 rs1113808 3 119,716,660 9.84E-02 rs6074138 20 10,366,801 9.55E-01 MKKS 215 RAB7A 30 2,597,490 1.92E-08 7.59E-09 rs12634139 3 129,668,222 5.66E-01 rs2420477 10 120,232,177 5.09E-01 - 334 PIK3R4 27 2,337,822 2.14E-08 5.83E-09 rs6789666 3 132,042,006 2.84E-01 rs2517898 6 29,907,725 5.27E-01 HLA-G 281 PDCD10 28 2,424,380 2.06E-08 3.14E-09 rs13090569 3 168,954,239 4.09E-01 rs11158865 14 19,659,104 2.05E-01 OR4K17 181 RPL22L1 69 5,971,536 8.37E-09 6.53E-09 rs12495729 3 172,391,456 6.30E-01 rs619491 5 40,920,837 1.10E-01 - 306 MRPL47 48 4,155,120 1.20E-08 7.43E-09 rs9850338 3 180,660,939 3.12E-01 rs2724788 10 12,490,835 1.63E-01 CAMK1D 330 MAGEF1 60 5,193,180 9.63E-09 2.44E-09 rs12492217 3 185,269,231 1.25E-01 rs8026113 15 73,723,753 1.06E-01 IMP3 152 POLR2H 61 5,279,672 9.47E-09 1.86E-09 rs9875052 3 186,234,566 5.01E-01 rs361021 3 13,020,495 7.09E-01 - 117 ST6GAL1 103 8,910,530 5.61E-09 4.11E-09 rs3872724 3 188,223,915 3.34E-02 rs1959205 14 43,877,663 7.44E-01 - 218 SH3TC1 74 6,403,886 7.81E-09 7.08E-09 rs4689801 4 7,675,378 5.18E-01 rs4750638 10 6,656,369 1.63E-01 PRKCQ 320 ACOX3 68 5,885,060 8.50E-09 4.16E-09 rs10023670 4 7,745,372 8.50E-01 rs11710916 3 162,612,764 9.63E-01 - 220 WDR1 83 7,181,990 6.96E-09 3.53E-09 rs7660895 4 9,594,543 6.53E-01 rs10085762 7 135,220,728 9.96E-01 - 194 TLR10 67 5,798,582 8.62E-09 1.71E-09 rs11096956 4 38,452,575 1.39E-04 rs598227 5 140,627,801 3.78E-01 - 112 TLR1 66 5,712,102 8.75E-09 3.27E-09 rs11096956 4 38,452,575 8.27E-03 rs4650245 1 74,295,062 6.99E-02 - 186 PDS5A 47 4,068,602 1.23E-08 2.44E-09 rs11940694 4 39,091,388 9.63E-01 rs1566414 3 119,908,152 4.82E-01 - 151 RHOH 43 3,722,510 1.34E-08 3.54E-09 rs13138832 4 40,670,009 8.45E-01 rs17009138 4 126,216,236 4.83E-01 - 198 CEP135 58 5,020,190 9.96E-09 7.45E-09 rs1718886 4 57,544,008 1.03E-01 rs10254932 7 29,434,159 6.21E-02 CHN2 331 RCHY1 39 3,376,386 1.48E-08 4.78E-09 rs7682487 4 76,432,110 7.53E-01 rs4851820 2 105,619,436 9.06E-01 - 249 G3BP2 51 4,414,662 1.13E-08 4.77E-09 rs6850228 4 77,281,192 6.54E-01 rs1450473 4 122,003,130 1.85E-01 PRDM5 247 COQ2 56 4,847,192 1.03E-08 9.33E-10 rs1921848 4 85,255,505 8.61E-01 rs1190455 2 233,143,397 4.84E-01 EIF4E2 74

5 MAPKSP1 19 1,645,286 3.04E-08 1.27E-08 rs11097691 4 101,294,060 5.42E-01 rs16842248 2 139,877,758 7.78E-01 - 398 MANBA 51 4,414,662 1.13E-08 1.70E-11 rs4698863 4 103,764,896 1.81E-04 rs13171027 5 4,031,902 5.97E-01 - 4 PAPSS1 39 3,376,386 1.48E-08 8.66E-09 rs2131463 4 109,075,225 8.82E-01 rs356241 11 126,989,668 1.31E-01 - 352 TIFA 74 6,403,886 7.81E-09 6.93E-09 rs4834273 4 113,545,359 1.64E-01 rs13382098 19 57,046,193 4.76E-01 - 315 CCRN4L 73 6,317,420 7.91E-09 4.37E-09 rs17305858 4 139,618,753 9.24E-02 rs4355264 3 10,567,147 9.97E-01 - 228 LRBA 42 3,635,982 1.38E-08 7.41E-09 rs3923657 4 151,138,248 3.08E-01 rs1990139 7 41,042,009 1.57E-02 - 329 IRF2 82 7,095,542 7.05E-09 6.03E-10 rs4444870 4 185,260,510 5.49E-01 rs2777819 1 156,243,190 5.61E-01 KIRREL 50 C4orf41 87 7,527,762 6.64E-09 5.19E-09 rs6552755 4 185,316,645 6.70E-01 rs9948697 18 29,278,608 7.91E-01 C18orf34 262 SRD5A1 150 12,969,450 3.86E-09 1.51E-09 rs727432 5 7,716,078 6.51E-01 rs713975 22 44,243,598 9.19E-01 - 100 MTMR12 146 12,624,182 3.96E-09 1.41E-09 rs1533015 5 33,031,360 4.93E-01 rs4145280 13 104,643,159 8.91E-01 - 93 OXCT1 53 4,587,680 1.09E-08 1.60E-10 rs7443604 5 41,234,769 9.85E-01 rs874426 11 19,526,139 4.21E-01 - 21 HMGCS1 22 1,905,002 2.62E-08 7.20E-09 rs12108783 5 43,273,505 1.65E-01 rs11940731 4 55,206,255 2.75E-01 - 322 ERBB2IP 112 9,688,112 5.16E-09 4.59E-09 rs2248213 5 65,124,923 2.93E-01 rs290107 11 30,968,024 9.70E-01 FLJ46154 235 CDK7 34 2,943,686 1.70E-08 6.33E-09 rs2932777 5 68,560,783 4.06E-01 rs2347549 17 28,932,421 5.13E-01 ACCN1 300 GIN1 92 7,959,932 6.28E-09 1.50E-09 rs382521 5 101,485,508 9.65E-01 rs12459781 19 3,713,119 8.90E-01 MRPL54 99 WDR36 95 8,219,210 6.08E-09 5.47E-09 rs27409 5 111,459,912 3.11E-01 rs9504183 6 4,605,997 4.61E-01 - 274 DCP2 75 6,490,350 7.70E-09 3.06E-09 rs341309 5 111,858,724 9.81E-01 rs449239 7 137,659,617 9.84E-01 - 175 ATG12 138 11,933,550 4.19E-09 2.13E-09 rs13176642 5 115,297,167 1.32E-01 rs7789974 7 11,954,098 9.62E-01 - 137 SAR1B 88 7,614,200 6.57E-09 2.36E-09 rs7723128 5 133,021,913 7.48E-01 rs2435327 6 51,946,331 8.40E-01 PKHD1 150 H2AFY 114 9,860,886 5.07E-09 5.24E-10 rs4976284 5 134,636,319 1.45E-01 rs10754020 1 190,851,418 5.51E-01 - 41 H2AFY 114 9,860,886 5.07E-09 5.50E-10 rs6878474 5 135,050,947 7.04E-01 rs11265364 1 158,483,593 8.65E-01 WDR42A 44 SMAD5 132 11,415,492 4.38E-09 1.15E-09 rs17170027 5 135,641,325 6.68E-01 rs11595391 10 53,092,518 4.69E-01 PRKG1 82 SRA1 47 4,068,602 1.23E-08 4.35E-10 rs1422780 5 139,165,693 2.84E-01 rs4240691 8 6,908,814 9.02E-01 DEFA5 35 WDR55 51 4,414,662 1.13E-08 8.89E-09 rs2306339 5 141,016,139 9.84E-02 rs4776982 15 65,902,028 1.59E-01 LBXCOR1 358 TAF7 78 6,749,730 7.41E-09 7.04E-09 rs7704263 5 141,016,860 3.74E-01 rs1886985 6 76,773,462 8.59E-01 IMPG1 317 HDAC3 91 7,873,502 6.35E-09 6.29E-09 rs32927 5 141,102,251 8.50E-01 rs171785 5 170,994,432 7.59E-02 - 297 CD74 148 12,796,820 3.91E-09 1.01E-10 rs353296 5 148,782,019 4.75E-01 rs4723272 7 33,187,391 6.45E-01 PTHB1 17 ATOX1 127 10,983,722 4.55E-09 2.80E-10 rs256149 5 151,464,576 4.55E-01 rs12441404 15 90,817,916 9.15E-02 C15orf32 27 GEMIN5 98 8,478,470 5.90E-09 7.35E-11 rs7732085 5 153,693,955 2.72E-01 rs1562797 16 52,900,570 4.55E-01 - 13 CLINT1 69 5,971,536 8.37E-09 6.86E-09 rs1145631 5 157,578,858 2.39E-01 rs10763832 10 31,117,402 3.82E-01 - 314

6 UBTD2 92 7,959,932 6.28E-09 6.76E-11 rs17074786 5 171,791,185 3.32E-01 rs4776794 15 64,659,320 8.57E-02 - 10 FAF2 48 4,155,120 1.20E-08 1.03E-08 rs2962783 5 176,108,989 1.44E-02 rs7113280 11 21,130,230 2.78E-01 NELL1 379 FAM193B 57 4,933,692 1.01E-08 2.11E-09 rs2913844 5 177,624,853 7.90E-01 rs1563563 8 122,853,195 8.53E-01 - 136 HNRNPAB 82 7,095,542 7.05E-09 6.55E-09 rs4701048 5 178,474,547 4.97E-01 rs17682376 7 125,975,752 2.00E-01 GRM8 307 CNOT6 75 6,490,350 7.70E-09 7.02E-09 rs4105011 5 180,046,557 8.78E-01 rs764758 3 95,794,269 7.08E-01 - 316 GMDS 138 11,933,550 4.19E-09 6.06E-11 rs932409 6 1,396,521 6.63E-01 rs2143980 14 32,277,657 3.21E-01 AKAP6 8 SOX4 89 7,700,636 6.49E-09 6.41E-09 rs2328716 6 22,601,203 6.02E-01 rs10188007 2 53,912,562 6.10E-01 - 302 HIST1H2BD 40 3,462,920 1.44E-08 3.66E-09 rs2744241 6 25,361,203 7.51E-01 rs2672587 10 124,225,345 2.73E-01 HTRA1 203 C6orf106 44 3,809,036 1.31E-08 2.52E-09 rs3800341 6 33,972,976 8.33E-01 rs17105347 14 36,335,202 6.51E-01 SLC25A21 156 TAF11 46 3,982,082 1.26E-08 7.07E-09 rs7747856 6 33,997,930 1.68E-01 rs10009520 4 27,282,744 2.60E-01 - 319 TBCC 42 3,635,982 1.38E-08 4.60E-09 rs4714570 6 42,206,073 4.16E-01 rs11163262 1 81,604,823 8.07E-01 - 237 KIAA0240 45 3,895,560 1.28E-08 8.91E-09 rs2941399 6 42,575,876 8.60E-01 rs335891 7 125,792,066 1.58E-01 - 360 DST 40 3,462,920 1.44E-08 7.14E-09 rs9370542 6 56,575,183 5.75E-01 rs11049978 12 29,030,367 9.04E-01 - 321 ZNF451 33 2,857,140 1.75E-08 1.21E-08 rs9396278 6 57,323,453 1.55E-01 rs1516126 2 188,459,766 2.95E-01 - 391 PTP4A1 50 4,328,150 1.16E-08 4.96E-09 rs2843106 6 63,479,964 7.99E-02 rs7312112 12 101,570,953 6.99E-02 - 256 PRDM1 74 6,403,886 7.81E-09 7.23E-09 rs1891720 6 107,259,564 8.41E-02 rs2993312 13 112,731,466 6.39E-01 MCF2L 323 TSPYL1 53 4,587,680 1.09E-08 4.33E-09 rs9374613 6 116,990,071 3.54E-01 rs455676 13 31,574,504 9.49E-01 FRY 227 HDDC2 50 4,328,150 1.16E-08 4.39E-09 rs521717 6 125,514,512 1.16E-01 rs4660278 1 44,705,332 4.55E-01 C1orf164 229 MED23 49 4,241,636 1.18E-08 3.12E-09 rs3850238 6 131,560,587 1.30E-01 rs10119727 9 135,818,189 9.29E-01 VAV2 180 TBPL1 74 6,403,886 7.81E-09 1.26E-09 rs2224382 6 133,653,034 8.69E-01 rs12502595 4 166,143,892 9.67E-01 - 88 CCDC28A 65 5,625,620 8.89E-09 6.74E-11 rs12190319 6 138,316,778 2.29E-01 rs1391285 1 215,628,091 4.90E-01 - 9 STXBP5 116 10,033,652 4.98E-09 4.67E-09 rs7741525 6 147,380,172 8.28E-01 rs9446658 6 73,219,615 5.50E-01 - 243 RMND1 138 11,933,550 4.19E-09 2.76E-09 rs9383858 6 151,375,528 8.99E-01 rs7189236 16 81,693,643 6.10E-01 CDH13 167 SYNE1 124 10,724,636 4.66E-09 2.23E-09 rs1856057 6 152,109,562 5.47E-01 rs6445296 3 62,678,612 1.40E-01 CADPS 143 EZR 81 7,009,092 7.13E-09 4.65E-09 rs6927137 6 158,616,288 6.78E-01 rs6589826 11 120,022,853 7.60E-01 - 240 MAP3K4 111 9,601,722 5.21E-09 7.24E-10 rs1465620 6 161,056,475 8.46E-01 rs704887 1 32,838,071 9.99E-01 ZBTB8 55 TBP 22 1,905,002 2.62E-08 3.97E-09 rs6936493 6 170,266,017 8.14E-01 rs10496637 2 125,023,660 4.65E-01 CNTNAP5 214 PDCD2 20 1,731,860 2.89E-08 1.36E-08 rs10946292 6 170,267,446 7.31E-01 rs6755279 2 45,390,362 8.43E-01 - 406 RNF216 31 2,684,042 1.86E-08 1.73E-09 rs7790378 7 5,189,482 1.30E-01 rs4061659 17 1,944,194 7.49E-01 SMG6 113 CYCS 105 9,083,340 5.50E-09 5.46E-09 rs7799305 7 25,438,406 9.16E-01 rs10255125 7 78,183,944 2.08E-01 MAGI2 273

7 ELMO1 110 9,515,330 5.25E-09 1.09E-10 rs10259008 7 36,799,785 1.95E-01 rs776692 15 40,134,818 9.96E-02 - 18 ANLN 103 8,910,530 5.61E-09 1.07E-09 rs11770746 7 36,881,176 3.53E-01 rs325879 5 41,148,161 5.44E-01 - 78 C7orf25 80 6,922,640 7.22E-09 2.02E-09 rs7786662 7 43,503,278 8.97E-01 rs10873634 15 21,431,644 6.29E-01 MAGEL2 127 FIGNL1 77 6,663,272 7.50E-09 2.19E-09 rs2715107 7 50,684,146 4.00E-01 rs7164421 15 86,285,551 7.87E-01 NTRK3 142 GBAS 38 3,289,850 1.52E-08 6.39E-09 rs1543109 7 56,699,692 1.10E-01 rs4687863 3 120,701,941 8.90E-01 C3orf1 301 PEX1 29 2,510,936 1.99E-08 4.66E-09 rs2285504 7 92,825,257 8.85E-01 rs7034789 9 6,935,423 1.28E-01 JMJD2C 241 SGCE 51 4,414,662 1.13E-08 3.30E-10 rs2519630 7 93,289,019 3.96E-02 rs1899477 10 6,962,621 8.16E-01 - 29 ZNF655 16 1,385,552 3.61E-08 3.10E-08 rs522415 7 99,289,309 1.71E-01 rs1431780 11 132,486,656 9.16E-01 OPCML 436 TRIM4 9 779,436 6.41E-08 2.82E-12 rs1121592 7 99,361,567 2.40E-06 rs457414 3 10,177,884 1.47E-01 VHL 1 NAMPT 50 4,328,150 1.16E-08 6.52E-09 rs881295 7 106,414,965 6.98E-01 rs1366420 5 22,957,793 1.30E-01 - 305 BCAP29 59 5,106,686 9.79E-09 4.00E-10 rs3801948 7 107,025,683 4.16E-01 rs6589851 11 120,340,278 1.72E-01 GRIK4 32 ST7 58 5,020,190 9.96E-09 2.26E-09 rs6466571 7 115,697,281 8.08E-01 rs12712091 2 101,253,584 4.17E-02 C2orf29 145 WASL 66 5,712,102 8.75E-09 6.07E-09 rs10081283 7 122,961,600 1.40E-01 rs4143185 13 38,630,830 9.03E-01 - 290 UBE2H 53 4,587,680 1.09E-08 2.95E-09 rs13238028 7 130,059,499 1.38E-01 rs3798848 6 55,729,224 5.67E-01 BMP5 173 COPG2 63 5,452,650 9.17E-09 4.66E-09 rs13221321 7 130,544,382 1.88E-01 rs6431005 2 128,743,219 7.06E-01 HS6ST1 242 ZC3HAV1 65 5,625,620 8.89E-09 7.69E-10 rs10276304 7 138,374,407 6.15E-01 rs9566990 13 42,062,710 8.43E-01 TNFSF11 58 CASP2 46 3,982,082 1.26E-08 3.00E-09 rs7787537 7 143,370,472 1.06E-01 rs29453 5 16,966,348 7.25E-02 MYO10 174 EZH2 85 7,354,880 6.80E-09 7.82E-11 rs851704 7 147,169,364 3.97E-01 rs1957190 14 45,567,885 5.58E-01 - 14 KRBA1 53 4,587,680 1.09E-08 9.99E-09 rs734004 7 148,136,393 3.63E-02 rs1946314 9 21,122,495 2.65E-01 IFNW1 376 ZNF775 55 4,760,690 1.05E-08 1.86E-09 rs10278673 7 150,149,326 9.85E-01 rs1180936 1 55,028,171 6.63E-01 TTC22 118 GIMAP2 65 5,625,620 8.89E-09 2.10E-09 rs2299962 7 150,808,067 1.02E-01 rs1840154 5 8,065,193 4.87E-01 - 134 INSIG1 94 8,132,786 6.15E-09 5.75E-10 rs6958895 7 153,808,456 9.88E-01 rs16842268 2 209,606,260 2.20E-01 - 48 BLK 62 5,366,162 9.32E-09 5.30E-09 rs1293320 8 11,729,348 3.03E-03 rs1634506 17 31,449,476 2.50E-01 CCL4 267 DUSP4 56 4,847,192 1.03E-08 2.65E-09 rs4612386 8 29,524,113 1.35E-01 rs946130 1 230,508,836 8.51E-01 - 163 IMPAD1 68 5,885,060 8.50E-09 5.35E-10 rs4737476 8 58,871,836 1.27E-01 rs1477013 16 50,871,897 4.84E-01 - 43 YTHDF3 37 3,203,312 1.56E-08 7.18E-10 rs1079158 8 63,599,030 2.98E-01 rs177237 14 77,564,087 4.83E-01 - 54 UBE2W 65 5,625,620 8.89E-09 1.50E-09 rs7000526 8 75,582,870 4.97E-01 rs7182972 15 35,571,428 9.53E-01 - 98 PKIA 29 2,510,936 1.99E-08 3.69E-09 rs6980983 8 79,347,879 5.33E-01 rs1212724 1 7,498,022 9.19E-01 CAMTA1 205 PAG1 51 4,414,662 1.13E-08 2.02E-09 rs12548193 8 82,009,658 9.22E-02 rs4515996 11 69,597,170 7.90E-01 TMEM16A 128 STK3 32 2,770,592 1.80E-08 1.58E-08 rs4735529 8 99,208,786 3.99E-03 rs9638780 7 21,231,832 6.58E-01 - 415

8 PKHD1L1 50 4,328,150 1.16E-08 1.12E-08 rs3102255 8 110,825,947 1.90E-04 rs1399096 11 22,452,671 1.01E-01 - 384 RAD21 35 3,030,230 1.65E-08 3.60E-09 rs1695724 8 118,359,905 9.72E-01 rs2032489 22 47,222,142 5.85E-01 - 199 EXT1 67 5,798,582 8.62E-09 4.95E-09 rs7006088 8 119,720,982 9.09E-01 rs6696976 1 97,701,564 3.19E-01 DPYD 255 TRMT12 62 5,366,162 9.32E-09 7.69E-09 rs11783434 8 125,250,769 3.93E-02 rs2865851 19 58,907,560 9.73E-01 - 337 ZFAT 70 6,058,010 8.25E-09 6.75E-09 rs11995190 8 135,723,924 8.86E-02 rs3168115 11 68,614,666 6.92E-02 TPCN2 312 RPL8 11 952,622 5.25E-08 8.21E-09 rs1063739 8 145,700,535 1.43E-01 rs7726449 5 39,286,198 8.64E-01 - 344 JAK2 130 11,242,790 4.45E-09 3.40E-09 rs10974793 9 4,793,651 9.80E-01 rs12475354 2 77,441,949 4.83E-01 - 189 UHRF2 102 8,824,122 5.67E-09 5.24E-09 rs2803469 9 7,455,205 8.78E-02 rs7026175 9 93,572,203 6.31E-01 ROR2 264 KIAA1797 75 6,490,350 7.70E-09 4.62E-09 rs4978125 9 20,769,843 4.97E-01 rs2981973 6 167,636,033 1.04E-01 UNC93A 238 TOPORS 45 3,895,560 1.28E-08 8.10E-09 rs1842636 9 32,100,777 1.08E-02 rs17777630 5 147,987,146 3.01E-01 HTR4 342 NFX1 29 2,510,936 1.99E-08 1.63E-08 rs10813959 9 33,156,234 2.33E-01 rs13360152 5 149,461,017 8.17E-01 CSF1R 416 UBE2R2 36 3,116,772 1.60E-08 1.31E-08 rs12686575 9 34,877,364 8.42E-01 rs10204810 2 184,987,565 2.21E-01 - 400 SMC5 59 5,106,686 9.79E-09 7.99E-09 rs7025697 9 72,583,010 8.95E-01 rs4634107 3 187,824,087 4.59E-01 AHSG 340 CDK5RAP2 53 4,587,680 1.09E-08 3.07E-09 rs4617229 9 122,520,517 5.63E-03 rs1532121 5 66,833,063 4.79E-01 - 176 GAPVD1 43 3,722,510 1.34E-08 4.75E-09 rs4838339 9 127,919,994 7.09E-01 rs7320494 13 108,020,975 9.05E-01 - 246 WDR34 18 1,558,710 3.21E-08 1.72E-08 rs10760628 9 131,363,058 4.08E-01 rs3737408 21 16,713,622 8.08E-01 C21orf34 420 TOR1A 34 2,943,686 1.70E-08 1.17E-08 rs13283293 9 131,614,298 7.19E-02 rs7790881 7 77,921,358 5.44E-01 MAGI2 388 MED22 47 4,068,602 1.23E-08 9.92E-09 rs11243978 9 134,871,505 5.69E-01 rs2803469 9 7,455,205 5.24E-02 - 374 TTF1 58 5,020,190 9.96E-09 2.25E-09 rs641959 9 135,123,520 6.16E-01 rs4981202 14 33,206,000 7.74E-01 NPAS3 144 ZMYND19 11 952,622 5.25E-08 1.66E-08 rs2914521 9 140,174,582 5.48E-01 rs4870877 8 125,002,201 7.60E-01 C8ORFK23 417 C10orf18 58 5,020,190 9.96E-09 5.56E-09 rs1886050 10 6,563,131 1.81E-01 rs9806558 15 23,458,783 4.46E-01 - 277 STAM 97 8,392,052 5.96E-09 2.86E-09 rs7897594 10 18,458,186 7.49E-01 rs7897566 10 78,626,486 9.60E-01 KCNMA1 172 ITGB1 45 3,895,560 1.28E-08 1.22E-08 rs10827102 10 33,011,443 1.31E-01 rs9507259 13 23,620,809 5.72E-02 - 392 HNRNPF 47 4,068,602 1.23E-08 1.66E-09 rs2742236 10 42,940,557 3.69E-01 rs80454 22 46,043,490 5.20E-02 - 109 ZNF32 55 4,760,690 1.05E-08 8.67E-09 rs7920511 10 43,694,905 2.56E-01 rs17096112 14 71,217,800 9.35E-01 SIPA1L1 353 DNAJB12 41 3,549,452 1.41E-08 3.84E-09 rs12783388 10 72,962,430 7.81E-01 rs16940910 18 20,488,510 9.57E-01 - 209 DDIT4 43 3,722,510 1.34E-08 8.35E-10 rs1227081 10 73,121,579 5.33E-01 rs2286595 17 72,133,230 4.38E-01 ST6GALNAC1 62 PLAU 11 952,622 5.25E-08 2.34E-09 rs11001137 10 76,182,895 2.60E-01 rs6679504 1 15,228,810 6.47E-01 KIAA1026 149 FAM35A 27 2,337,822 2.14E-08 2.60E-09 rs2244092 10 89,767,768 2.69E-01 rs2172229 11 27,733,198 5.15E-01 - 161 NPM3 25 2,164,700 2.31E-08 1.17E-08 rs7088572 10 102,619,531 7.66E-01 rs2285965 19 5,548,026 6.44E-01 SAFB2 389

9 CASP7 51 4,414,662 1.13E-08 3.61E-09 rs496783 10 116,127,951 2.24E-01 rs36510 16 47,928,444 2.95E-01 - 200 TRUB1 34 2,943,686 1.70E-08 6.21E-09 rs180708 10 117,723,403 8.79E-02 rs3006177 6 169,566,676 1.86E-01 - 295 FAM175B 63 5,452,650 9.17E-09 2.50E-09 rs6588741 10 125,716,018 8.49E-01 rs4692898 4 172,788,071 3.27E-01 - 155 ZRANB1 65 5,625,620 8.89E-09 2.67E-09 rs10901422 10 127,433,924 2.25E-01 rs750700 13 42,662,448 7.19E-01 - 164 BCCIP 89 7,700,636 6.49E-09 4.18E-09 rs6597740 10 127,842,711 2.15E-01 rs9634308 12 42,225,890 9.01E-02 ADAMTS20 222 UROS 89 7,700,636 6.49E-09 4.86E-09 rs7067739 10 128,245,022 3.58E-01 rs2187353 4 108,163,936 3.20E-01 DKK2 252 ADAM8 22 1,905,002 2.62E-08 1.81E-08 rs3008304 10 134,832,113 3.37E-02 rs10938364 4 44,470,685 9.56E-01 - 422 C10orf125 21 1,818,432 2.75E-08 8.35E-09 rs2249546 10 135,108,137 9.46E-01 rs4579919 11 11,409,808 4.49E-01 GALNTL4 346 LSP1 54 4,674,186 1.07E-08 8.91E-09 rs2301160 11 1,053,767 2.08E-01 rs10930873 2 152,549,752 9.37E-01 CACNB4 359 SWAP70 89 7,700,636 6.49E-09 1.52E-09 rs7123429 11 8,823,384 7.30E-01 rs7110655 11 26,730,606 7.14E-01 - 102 C11orf17 83 7,181,990 6.96E-09 1.30E-09 rs2568061 11 8,842,836 2.08E-01 rs29581 16 8,325,369 9.79E-01 - 89 UEVLD 58 5,020,190 9.96E-09 5.66E-11 rs6483561 11 18,966,071 7.05E-01 rs5743404 8 6,724,531 4.68E-01 DEFB1 7 CAPRIN1 70 6,058,010 8.25E-09 3.37E-09 rs7943316 11 34,417,048 2.66E-01 rs2372250 3 31,045,491 5.90E-01 - 188 CD82 86 7,441,322 6.72E-09 5.88E-09 rs11037747 11 43,914,435 3.04E-01 rs1342514 1 56,959,948 3.03E-02 C1orf168 282 PSMC3 9 779,436 6.41E-08 1.01E-08 rs10838739 11 47,629,319 1.15E-01 rs6578283 11 2,630,151 3.07E-01 KCNQ1 377 ZDHHC5 46 3,982,082 1.26E-08 8.68E-09 rs10896597 11 56,791,325 8.56E-01 rs6680131 1 73,878,694 3.40E-01 - 356 CTNND1 41 3,549,452 1.41E-08 4.63E-09 rs2510552 11 58,072,282 9.07E-01 rs1904428 11 82,395,900 7.13E-01 RAB30 239 SLC3A2 30 2,597,490 1.92E-08 1.86E-08 rs10897276 11 61,966,110 8.16E-01 rs2156282 18 42,374,191 3.79E-01 LOXHD1 423 SNX15 24 2,078,136 2.41E-08 1.07E-08 rs2957154 11 64,341,563 3.48E-01 rs12946336 17 28,705,001 3.48E-01 ACCN1 380 EHBP1L1 17 1,472,132 3.40E-08 2.01E-08 rs593525 11 65,484,375 9.54E-01 rs2277007 5 1,519,813 8.07E-01 AYTL2 425 RNASEH2C 16 1,385,552 3.61E-08 9.76E-09 rs512421 11 65,741,744 6.07E-01 rs10139287 14 90,966,287 9.73E-01 - 373 GSTP1 23 1,991,570 2.51E-08 5.41E-09 rs7929569 11 67,306,971 9.48E-01 rs1560759 12 105,001,506 5.89E-01 NUAK1 272 TCIRG1 26 2,251,262 2.22E-08 6.75E-09 rs3133327 11 67,611,208 6.84E-01 rs12904160 15 98,227,199 7.80E-02 - 311 SUV420H1 35 3,030,230 1.65E-08 5.99E-09 rs4495899 11 68,715,236 8.61E-01 rs1952966 14 31,508,235 3.49E-01 - 287 CTTN 55 4,760,690 1.05E-08 5.54E-09 rs7944926 11 70,843,273 4.39E-01 rs7716272 5 50,559,126 7.88E-01 - 276 SPCS2 56 4,847,192 1.03E-08 1.75E-09 rs6592590 11 74,058,677 4.07E-01 rs12694711 2 227,678,911 5.53E-01 COL4A4 114 CHCHD8 33 2,857,140 1.75E-08 1.32E-08 rs6592590 11 74,058,677 5.94E-01 rs11151180 18 60,996,941 4.05E-01 - 402 ACER3 57 4,933,692 1.01E-08 9.98E-09 rs10899249 11 76,058,005 5.74E-01 rs9787399 1 182,561,419 1.76E-01 - 375 CEP57 67 5,798,582 8.62E-09 4.29E-09 rs1939471 11 95,476,732 4.93E-01 rs10736602 11 131,229,114 6.34E-01 - 224 DDX10 36 3,116,772 1.60E-08 4.11E-09 rs183460 11 107,595,920 4.86E-01 rs7644986 3 108,409,554 5.53E-01 - 217

10 POU2AF1 28 2,424,380 2.06E-08 2.04E-08 rs6589226 11 110,754,436 4.65E-01 rs10739140 9 7,701,695 1.30E-01 - 426 DPAGT1 50 4,328,150 1.16E-08 8.45E-09 rs7480736 11 117,677,574 9.34E-01 rs1644449 5 160,538,661 7.74E-01 - 350 NLRX1 50 4,328,150 1.16E-08 3.09E-09 rs626645 11 118,080,390 8.08E-01 rs1231587 18 9,957,164 7.41E-01 VAPA 178 LRRC23 30 2,597,490 1.92E-08 9.18E-09 rs3759350 12 6,882,208 6.95E-17 rs2038688 20 46,423,183 7.65E-01 - 366 IFFO1 46 3,982,082 1.26E-08 5.72E-09 rs7311869 12 7,353,951 8.09E-01 rs6796265 3 31,945,822 1.83E-01 OSBPL10 279 DDX47 97 8,392,052 5.96E-09 4.82E-09 rs10744027 12 13,460,222 2.89E-01 rs7778774 7 42,244,641 6.11E-02 - 250 STRAP 71 6,144,482 8.14E-09 6.11E-09 rs7313129 12 16,432,128 6.74E-01 rs11954735 5 97,829,376 3.05E-01 - 291 RECQL 58 5,020,190 9.96E-09 5.17E-09 rs4149054 12 21,222,446 6.06E-01 rs9833462 3 34,942,350 8.85E-02 - 261 C12orf11 82 7,095,542 7.05E-09 3.54E-09 rs10842900 12 27,358,207 7.59E-01 rs788534 5 29,493,799 3.15E-01 - 197 MRPS35 65 5,625,620 8.89E-09 5.61E-10 rs7305790 12 28,180,991 9.65E-03 rs1487111 3 81,379,240 4.51E-01 - 46 SPRYD4 26 2,251,262 2.22E-08 1.12E-08 rs6581110 12 55,553,362 2.09E-01 rs6897808 5 144,344,346 9.15E-01 - 385 STAT2 29 2,510,936 1.99E-08 1.20E-08 rs4495925 12 55,554,383 5.22E-01 rs10489631 1 67,373,703 7.78E-02 C1orf141 390 METTL1 53 4,587,680 1.09E-08 8.68E-09 rs1908536 12 57,124,955 1.76E-02 rs4833611 4 120,366,908 6.47E-01 - 355 NAP1L1 48 4,155,120 1.20E-08 9.72E-09 rs7980645 12 74,310,977 3.44E-01 rs4578800 2 192,835,591 4.12E-02 - 372 E2F7 55 4,760,690 1.05E-08 9.56E-09 rs4761350 12 76,035,440 7.11E-01 rs10863379 1 216,421,416 7.40E-01 - 371 NUDT4 66 5,712,102 8.75E-09 4.40E-09 rs12579818 12 92,876,840 2.93E-01 rs2549772 16 79,448,769 3.93E-01 - 230 VEZT 88 7,614,200 6.57E-09 6.54E-10 rs10859687 12 93,139,222 3.66E-01 rs7960504 12 63,732,203 8.78E-01 WIF1 52 ARL1 50 4,328,150 1.16E-08 3.07E-09 rs7136973 12 99,806,727 7.94E-01 rs4719831 7 3,190,717 2.54E-02 - 177 RIC8B 71 6,144,482 8.14E-09 3.19E-09 rs4337138 12 104,720,004 5.76E-01 rs4906465 14 36,404,184 4.65E-01 SLC25A21 184 KIAA1033 96 8,305,632 6.02E-09 8.02E-10 rs7131912 12 105,021,077 9.33E-01 rs6734226 2 171,141,769 8.11E-02 MYO3B 60 PRDM4 45 3,895,560 1.28E-08 3.95E-09 rs7960241 12 107,263,514 2.01E-01 rs9655259 7 25,345,110 8.61E-01 - 213 GLTP 28 2,424,380 2.06E-08 1.46E-08 rs2075440 12 108,343,483 8.69E-01 rs420460 5 150,529,123 9.91E-01 - 411 C12orf24 10 866,030 5.77E-08 2.15E-08 rs7307171 12 108,657,357 8.96E-01 rs7956923 12 98,702,781 1.91E-01 ANKS1B 427 COQ5 35 3,030,230 1.65E-08 2.86E-09 rs787820 12 119,410,702 4.31E-03 rs836689 2 168,355,398 8.95E-01 - 171 RNF34 34 2,943,686 1.70E-08 1.09E-08 rs1151849 12 119,824,982 1.85E-01 rs1020947 19 60,922,956 4.59E-01 NALP9 382 DIABLO 16 1,385,552 3.61E-08 2.21E-08 rs1168658 12 120,822,949 1.79E-01 rs13039901 20 17,672,703 8.26E-01 C20orf179 428 ATP6V0A2 28 2,424,380 2.06E-08 8.42E-09 rs4765348 12 123,227,110 4.45E-01 rs6964421 7 6,487,201 5.87E-01 KDELR2 347 PUS1 41 3,549,452 1.41E-08 1.37E-08 rs2895148 12 130,493,365 3.74E-02 rs11122622 1 229,122,047 2.83E-01 TTC13 407 FAM48A 76 6,576,812 7.60E-09 2.28E-09 rs9548131 13 37,447,149 7.89E-01 rs12907480 15 37,037,626 4.88E-01 - 146 PHF11 46 3,982,082 1.26E-08 2.08E-11 rs2181539 13 48,569,216 6.52E-01 rs7571794 2 67,969,620 7.46E-01 - 5

11 TGDS 70 6,058,010 8.25E-09 9.00E-11 rs7993213 13 94,886,853 6.40E-01 rs13392004 2 48,495,333 2.92E-01 - 15 TMEM55B 112 9,688,112 5.16E-09 2.76E-09 rs7158152 14 20,203,164 6.09E-01 rs4276697 8 25,903,188 8.12E-03 - 166 ABHD4 140 12,106,220 4.13E-09 5.06E-10 rs12589171 14 21,169,346 2.03E-01 rs7434089 3 26,672,777 6.78E-01 LRRC3B 38 RABGGTA 92 7,959,932 6.28E-09 2.34E-09 rs17185460 14 24,499,438 9.50E-01 rs7757117 6 98,311,698 4.93E-01 - 148 STRN3 53 4,587,680 1.09E-08 3.31E-09 rs7157390 14 30,989,479 1.85E-01 rs10125827 9 113,984,327 9.60E-01 SUSD1 187 C14orf147 146 12,624,182 3.96E-09 1.36E-09 rs7142489 14 34,602,721 3.19E-01 rs10782864 1 102,189,681 5.55E-01 OLFM3 90 TRAPPC6B 105 9,083,340 5.50E-09 3.34E-10 rs2415545 14 38,933,553 3.51E-01 rs1510363 3 68,574,765 7.27E-01 FAM19A1 30 PRPF39 52 4,501,172 1.11E-08 6.11E-09 rs1889764 14 43,797,204 9.08E-01 rs248111 5 126,547,250 9.26E-01 - 292 FKBP3 52 4,501,172 1.11E-08 3.42E-09 rs1742657 14 45,621,678 8.62E-01 rs3749895 6 116,707,467 7.51E-01 TSPYL1 191 C14orf138 81 7,009,092 7.13E-09 2.24E-10 rs12891659 14 48,917,891 8.04E-01 rs17696192 18 36,973,070 3.85E-02 - 24 ATP5S 83 7,181,990 6.96E-09 3.90E-09 rs7148177 14 48,957,521 6.42E-02 rs11624961 14 39,068,209 4.25E-01 - 212 C14orf104 58 5,020,190 9.96E-09 8.88E-10 rs1353204 14 50,151,265 5.44E-01 rs6824192 4 31,213,677 5.03E-01 - 68 TMX1 164 14,177,636 3.53E-09 6.93E-10 rs1959534 14 50,521,299 5.64E-01 rs11160812 14 104,135,502 7.53E-01 FLJ42486 53 NIN 133 11,501,840 4.35E-09 1.13E-10 rs11850904 14 51,130,033 1.64E-01 rs6836445 4 29,296,175 4.56E-01 - 19 FNTB 68 5,885,060 8.50E-09 5.96E-09 rs1679880 14 64,723,379 8.64E-02 rs7165654 15 56,627,331 4.07E-01 LIPC 286 PCNX 100 8,651,300 5.78E-09 1.61E-09 rs4902926 14 70,786,676 8.13E-01 rs10493109 1 42,658,772 9.91E-01 FAM80A 107 ISCA2 50 4,328,150 1.16E-08 7.81E-09 rs1156021 14 73,969,345 1.48E-01 rs2143083 6 24,615,033 7.31E-01 ALDH5A1 339 NPC2 50 4,328,150 1.16E-08 1.21E-09 rs7359152 14 74,998,770 3.55E-01 rs874054 16 79,563,643 1.59E-01 C16orf61 84 ALKBH1 157 13,573,592 3.68E-09 2.80E-10 rs10138030 14 76,824,300 4.74E-01 rs7177659 15 77,945,097 3.72E-02 MTHFS 28 C14orf4 129 11,156,436 4.48E-09 3.65E-09 rs11159290 14 77,359,447 6.50E-01 rs194788 16 23,697,839 1.92E-01 - 202 SNW1 153 13,228,380 3.78E-09 7.57E-10 rs4903696 14 77,586,113 3.29E-01 rs1228824 1 30,312,975 7.86E-01 - 57 SMEK1 83 7,181,990 6.96E-09 5.18E-10 rs7146512 14 90,841,378 2.04E-01 rs418410 5 31,722,785 9.50E-01 - 40 CCDC88C 83 7,181,990 6.96E-09 7.26E-11 rs2430363 14 91,434,804 2.78E-01 rs2748992 6 52,704,534 3.12E-01 - 12 C14orf142 105 9,083,340 5.50E-09 2.32E-09 rs11160134 14 93,196,268 6.70E-01 rs12474317 2 227,219,625 2.77E-01 - 147 UBE3A 124 10,724,636 4.66E-09 5.55E-10 rs225592 15 23,384,385 7.87E-01 rs942384 6 42,377,540 3.09E-01 TRERF1 45 C15orf24 142 12,278,882 4.07E-09 1.14E-09 rs670957 15 32,876,724 1.10E-02 rs1551533 9 20,257,413 9.30E-01 - 81 NDUFAF1 43 3,722,510 1.34E-08 6.14E-09 rs13380176 15 38,857,291 7.25E-01 rs11153672 6 117,965,805 9.62E-01 DCBLD1 294 SNAP23 32 2,770,592 1.80E-08 1.69E-09 rs1614300 15 40,058,359 4.85E-01 rs2328412 20 19,495,270 2.07E-01 SLC24A3 111 VPS39 31 2,684,042 1.86E-08 2.59E-09 rs776727 15 40,167,451 7.93E-01 rs10477340 5 146,921,563 8.41E-01 - 159 CCNDBP1 6 519,642 9.62E-08 4.78E-09 rs11070410 15 41,844,337 7.45E-01 rs830472 8 77,146,051 3.79E-01 - 248

12 MAPK6 62 5,366,162 9.32E-09 2.10E-09 rs11633713 15 49,695,344 5.99E-03 rs6717646 2 82,271,380 6.23E-02 - 133 GNB5 64 5,539,136 9.03E-09 4.60E-09 rs17650082 15 50,179,198 1.83E-02 rs11898585 2 109,405,865 5.37E-01 - 236 SLTM 116 10,033,652 4.98E-09 9.11E-10 rs8025419 15 56,376,746 8.37E-01 rs10780646 9 85,862,309 4.93E-01 - 70 LACTB 79 6,836,186 7.31E-09 9.09E-10 rs7350775 15 60,843,451 5.89E-01 rs6805912 3 194,936,427 5.68E-01 - 69 TIPIN 87 7,527,762 6.64E-09 4.29E-09 rs678113 15 63,444,537 9.99E-01 rs11025673 11 20,620,543 1.49E-01 SLC6A5 225 RCN2 36 3,116,772 1.60E-08 8.54E-10 rs11072674 15 75,868,713 1.64E-01 rs10216261 7 103,899,966 8.82E-01 LHFPL3 65 VPS33B 71 6,144,482 8.14E-09 7.36E-09 rs464822 15 89,108,681 7.10E-01 rs2043817 3 72,614,352 7.50E-01 - 328 CRTC3 66 5,712,102 8.75E-09 7.27E-09 rs8038691 15 89,884,762 3.15E-02 rs11723176 4 187,648,291 3.36E-01 - 325 FAM174B 165 14,263,920 3.51E-09 2.59E-09 rs12324208 15 90,682,710 9.62E-01 rs16856362 2 217,121,913 9.52E-01 - 160 LUC7L 29 2,510,936 1.99E-08 1.23E-08 rs214247 16 289,222 6.12E-01 rs7753265 6 42,101,839 3.71E-01 - 393 C16orf59 58 5,020,190 9.96E-09 9.10E-09 rs2301763 16 2,885,091 3.36E-01 rs4633069 8 51,939,038 5.03E-01 - 364 FLYWCH1 53 4,587,680 1.09E-08 1.03E-08 rs2301763 16 2,885,091 3.41E-01 rs539268 1 70,749,627 9.70E-01 - 378 CREBBP 74 6,403,886 7.81E-09 3.56E-10 rs740862 16 3,629,679 6.57E-01 rs2224528 11 33,465,264 6.52E-01 - 31 NUBP1 125 10,811,000 4.62E-09 9.53E-10 rs3852749 16 10,253,169 5.43E-01 rs4675598 2 199,335,524 4.66E-01 - 76 SOCS1 112 9,688,112 5.16E-09 2.82E-09 rs10852285 16 10,264,582 2.90E-01 rs983487 5 124,566,491 3.54E-01 - 170 MAPK3 12 1,039,212 4.81E-08 2.51E-08 rs4609871 16 29,839,565 2.92E-02 rs656895 6 158,818,130 6.84E-01 TULP4 432 C16orf53 15 1,298,970 3.85E-08 2.62E-08 rs11150577 16 29,894,026 4.37E-01 rs12817595 12 95,083,811 7.41E-01 - 434 RNF40 15 1,298,970 3.85E-08 6.77E-11 rs4788213 16 29,942,025 1.23E-01 rs638286 19 55,397,668 2.20E-01 MYH14 11 MTHFSD 169 14,609,036 3.42E-09 2.82E-09 rs3762872 16 84,924,145 2.08E-02 rs872120 1 154,619,020 4.11E-01 RHBG 168 BANP 93 8,046,360 6.21E-09 2.58E-09 rs2003990 16 85,753,069 2.37E-01 rs406742 10 8,885,947 9.02E-01 - 158 SLC7A5 92 7,959,932 6.28E-09 1.95E-09 rs864837 16 86,164,322 7.52E-01 rs7298390 12 19,832,243 9.32E-01 - 123 PRPF8 86 7,441,322 6.72E-09 4.74E-09 rs1237094 17 566,592 9.53E-01 rs11762404 7 26,570,498 6.76E-01 - 245 TSR1 74 6,403,886 7.81E-09 6.70E-09 rs1109303 17 1,350,227 4.39E-01 rs1334751 10 29,057,579 6.19E-02 - 310 ATP2A3 57 4,933,692 1.01E-08 4.47E-09 rs4790404 17 2,833,392 1.60E-01 rs6435306 2 206,443,765 7.39E-01 - 231 MPDU1 86 7,441,322 6.72E-09 1.99E-09 rs2302762 17 7,299,585 9.67E-01 rs1463332 3 177,816,921 3.37E-01 - 125 MYH10 101 8,737,712 5.72E-09 1.91E-09 rs2253820 17 7,988,894 9.39E-01 rs11773345 7 14,600,646 1.14E-01 DGKB 121 NT5M 28 2,424,380 2.06E-08 5.10E-10 rs8079271 17 16,263,089 2.22E-01 rs4436446 1 215,509,686 3.89E-01 - 39 MED9 22 1,905,002 2.62E-08 1.41E-08 rs3818716 17 16,792,559 1.60E-01 rs12453248 17 12,821,674 9.42E-01 KIAA0672 409 USP22 31 2,684,042 1.86E-08 1.40E-08 rs11204328 17 20,812,923 1.12E-01 rs8036066 15 58,377,907 9.57E-01 - 408 TRAF4 32 2,770,592 1.80E-08 7.81E-09 rs11080081 17 24,488,565 1.31E-01 rs2349177 10 85,282,939 8.76E-01 - 338

13 SPAG5 39 3,376,386 1.48E-08 1.68E-09 rs9897342 17 24,548,627 6.26E-01 rs2275353 1 201,416,831 4.58E-01 CHI3L1 110 CDK5R1 79 6,836,186 7.31E-09 1.09E-09 rs12453495 17 28,620,340 9.56E-01 rs1982397 16 59,174,059 9.97E-01 - 79 MYO19 48 4,155,120 1.20E-08 4.67E-09 rs1634506 17 31,449,476 7.23E-01 rs276863 15 37,308,204 5.51E-01 - 244 ACACA 66 5,712,102 8.75E-09 5.10E-09 rs11650464 17 32,749,624 3.83E-01 rs7988599 13 83,651,454 7.75E-01 - 260 CASC3 42 3,635,982 1.38E-08 1.17E-08 rs9303277 17 35,229,995 5.58E-01 rs9393456 6 10,710,469 2.97E-01 GCNT2 386 CDK12 45 3,895,560 1.28E-08 1.22E-09 rs3859192 17 35,382,174 4.70E-01 rs9588148 13 109,819,082 5.76E-01 COL4A2 85 CNP 31 2,684,042 1.86E-08 1.30E-08 rs7217728 17 37,700,927 4.74E-03 rs11581564 1 107,236,630 9.71E-01 - 399 DHX58 31 2,684,042 1.86E-08 3.73E-09 rs4796793 17 37,795,736 9.53E-01 rs268459 17 8,425,408 2.69E-01 MYH10 206 RUNDC1 32 2,770,592 1.80E-08 1.34E-08 rs4792930 17 38,059,370 1.13E-01 rs7934456 11 43,195,118 2.26E-01 - 405 ATP6V0A1 29 2,510,936 1.99E-08 1.51E-08 rs2271028 17 38,094,923 4.15E-01 rs2161972 6 143,699,116 8.46E-01 AIG1 412 COASY 25 2,164,700 2.31E-08 5.96E-09 rs9897724 17 38,100,440 7.60E-01 rs7009915 8 88,429,921 7.55E-01 CNBD1 285 PSME3 30 2,597,490 1.92E-08 1.42E-08 rs8071941 17 39,165,839 4.46E-01 rs16880815 5 8,602,977 2.70E-01 - 410 DHX8 38 3,289,850 1.52E-08 1.24E-08 rs11079983 17 39,553,696 7.02E-02 rs1415339 1 175,827,058 6.05E-01 - 395 FMNL1 33 2,857,140 1.75E-08 1.70E-08 rs1724425 17 41,137,530 7.58E-01 rs4368165 16 20,098,136 9.07E-01 - 419 UBE2Z 41 3,549,452 1.41E-08 2.19E-09 rs12937634 17 44,799,441 2.40E-01 rs1689802 1 180,429,300 3.32E-01 - 141 ABI3 41 3,549,452 1.41E-08 2.47E-09 rs2671650 17 44,958,515 6.33E-01 rs1927399 13 101,999,071 4.00E-01 - 153 NME1 76 6,576,812 7.60E-09 5.27E-09 rs7207028 17 46,271,051 2.47E-01 rs4130310 10 113,169,519 8.52E-01 - 265 RAD51C 27 2,337,822 2.14E-08 1.69E-08 rs2286485 17 54,820,686 6.62E-01 rs3741240 11 61,943,118 3.13E-02 SCGB1A1 418 CD79B 27 2,337,822 2.14E-08 3.10E-09 rs7209608 17 59,357,542 1.70E-09 rs16860514 3 149,730,988 4.24E-01 - 179 DCAF7 34 2,943,686 1.70E-08 1.33E-08 rs4141178 17 59,425,913 7.74E-01 rs4134813 19 7,600,021 7.84E-01 PCP2 404 WIPI1 86 7,441,322 6.72E-09 3.46E-09 rs8081909 17 64,299,023 4.03E-01 rs4754035 11 101,387,589 3.20E-01 - 192 MIF4GD 45 3,895,560 1.28E-08 1.24E-08 rs4078474 17 71,001,162 4.96E-01 rs259074 5 79,168,663 4.58E-01 - 394 SRP68 58 5,020,190 9.96E-09 9.35E-09 rs820206 17 71,153,309 6.50E-01 rs2462869 4 138,828,628 3.20E-01 - 368 EXOC7 59 5,106,686 9.79E-09 5.39E-09 rs4789378 17 72,441,961 3.17E-01 rs9967265 18 8,214,797 5.31E-01 PTPRM 271 C17orf70 47 4,068,602 1.23E-08 5.10E-11 rs7207933 17 77,131,682 3.75E-07 rs35060330 5 150,818,278 8.38E-01 SLC36A1 6 NPLOC4 51 4,414,662 1.13E-08 5.04E-10 rs9894429 17 77,207,216 1.01E-09 rs4584156 8 131,723,447 7.89E-01 - 37 CSNK1D 51 4,414,662 1.13E-08 9.02E-09 rs7213057 17 77,972,228 1.96E-01 rs7217062 17 29,769,276 8.97E-02 - 362 NARF 48 4,155,120 1.20E-08 6.03E-09 rs7211499 17 78,218,468 1.84E-01 rs2790947 10 48,264,214 9.50E-01 - 289 TBCD 40 3,462,920 1.44E-08 7.48E-09 rs668990 17 78,358,611 1.86E-01 rs6873777 5 156,421,481 8.77E-01 HAVCR1 332 WDR45L 45 3,895,560 1.28E-08 1.25E-08 rs7209936 17 78,519,504 3.36E-01 rs1415339 1 175,827,058 3.40E-01 - 396

14 PIAS2 43 3,722,510 1.34E-08 1.44E-09 rs2156282 18 42,374,191 3.71E-01 rs2509987 11 61,968,666 4.33E-01 AHNAK 94 IER3IP1 47 4,068,602 1.23E-08 1.77E-09 rs12970759 18 42,562,237 4.16E-01 rs6836686 4 60,006,533 5.08E-01 - 115 CXXC1 52 4,501,172 1.11E-08 3.63E-09 rs1705521 18 45,955,763 4.07E-01 rs11836262 12 8,772,935 4.73E-01 FAM80B 201 MBD1 52 4,501,172 1.11E-08 8.44E-09 rs1705521 18 45,955,763 3.78E-01 rs11836262 12 8,772,935 7.85E-01 FAM80B 348 KIAA1468 52 4,501,172 1.11E-08 5.30E-09 rs2003066 18 57,853,994 7.17E-01 rs8084067 18 6,105,740 7.17E-01 L3MBTL4 266 SERPINB8 66 5,712,102 8.75E-09 8.34E-09 rs17071220 18 59,322,883 7.62E-01 rs9373729 6 104,320,935 5.17E-01 - 345 GAMT 65 5,625,620 8.89E-09 4.90E-09 rs6510799 19 433,221 3.87E-03 rs4774498 15 45,660,897 7.16E-02 - 253 DAZAP1 64 5,539,136 9.03E-09 4.27E-09 rs3764640 19 1,158,238 1.41E-01 rs331558 5 94,504,637 8.16E-01 MCTP1 223 ARID3A 57 4,933,692 1.01E-08 5.35E-09 rs4807928 19 1,399,180 2.04E-01 rs7569796 2 79,838,927 2.35E-01 CTNNA2 270 MED16 55 4,760,690 1.05E-08 1.94E-09 rs3764606 19 1,735,944 2.09E-01 rs3910958 5 13,535,724 5.66E-01 - 122 MUM1 67 5,798,582 8.62E-09 3.86E-09 rs2074625 19 1,948,729 4.57E-01 rs6504822 17 48,822,129 6.29E-01 - 210 LMNB2 82 7,095,542 7.05E-09 7.85E-10 rs12975319 19 3,365,088 3.16E-01 rs1952494 14 24,588,166 7.62E-01 STXBP6 59 APBA3 75 6,490,350 7.70E-09 4.09E-10 rs888928 19 4,239,205 1.90E-01 rs3790254 20 19,471,056 5.57E-01 SLC24A3 33 C19orf10 71 6,144,482 8.14E-09 1.40E-09 rs243338 19 4,354,017 6.50E-01 rs10477042 5 152,409,097 6.45E-01 - 92 PNPLA6 77 6,663,272 7.50E-09 5.99E-12 rs608773 19 7,743,306 8.73E-01 rs1794066 2 113,602,821 7.19E-01 IL1RN 2 LDLR 44 3,809,036 1.31E-08 9.08E-09 rs11085720 19 10,178,763 6.99E-01 rs6445704 3 54,614,308 1.32E-01 CACNA2D3 363 C19orf53 72 6,230,952 8.02E-09 1.59E-09 rs4926199 19 14,286,353 4.76E-01 rs11649145 16 51,658,191 5.55E-01 - 106 ILVBL 90 7,787,070 6.42E-09 3.48E-09 rs10407394 19 14,665,183 3.43E-01 rs1356013 3 172,101,493 2.33E-01 EIF5A2 193 MRPL34 48 4,155,120 1.20E-08 8.80E-09 rs16981520 19 16,948,912 7.84E-01 rs11103828 9 137,376,941 7.19E-01 - 357 CHERP 72 6,230,952 8.02E-09 7.54E-09 rs12459084 19 17,031,885 5.29E-01 rs2505614 10 36,788,370 6.11E-01 - 333 C19orf62 51 4,414,662 1.13E-08 7.26E-09 rs91710 19 18,002,123 1.44E-01 rs10239033 7 33,688,863 3.24E-01 - 324 ELL 30 2,597,490 1.92E-08 2.28E-10 rs10423674 19 18,678,903 6.72E-01 rs1159531 20 7,051,595 8.46E-01 - 25 RFXANK 36 3,116,772 1.60E-08 2.73E-09 rs2238663 19 19,117,870 9.46E-01 rs10262611 7 9,306,452 2.80E-01 - 165 ATP13A1 38 3,289,850 1.52E-08 8.74E-10 rs8106464 19 20,039,694 5.44E-01 rs1992202 8 4,597,504 6.76E-01 CSMD1 66 CD22 70 6,058,010 8.25E-09 6.29E-09 rs1573611 19 40,535,548 3.67E-01 rs2511250 13 28,231,291 1.87E-01 - 298 ECH1 63 5,452,650 9.17E-09 5.95E-09 rs1001413 19 44,058,951 9.66E-02 rs6565116 16 81,678,111 8.45E-01 CDH13 284 CIC 16 1,385,552 3.61E-08 6.07E-10 rs6508987 19 46,812,618 4.95E-01 rs4793722 17 47,168,234 9.69E-01 CA10 51 ETHE1 39 3,376,386 1.48E-08 1.33E-08 rs12610002 19 49,241,136 1.86E-01 rs4679938 3 152,982,051 8.71E-01 - 403 EMP3 64 5,539,136 9.03E-09 6.30E-09 rs251685 19 53,293,162 7.41E-01 rs1325922 1 89,200,041 8.87E-01 KAT3 299 KPTN 61 5,279,672 9.47E-09 8.67E-09 rs2380123 19 53,485,502 4.02E-01 rs375943 1 48,909,609 5.08E-01 AGBL4 354

15 PPP1R15A 64 5,539,136 9.03E-09 5.22E-09 rs1654322 19 54,453,607 8.82E-01 rs4751807 10 122,666,991 3.53E-01 BRWD2 263 CNOT3 91 7,873,502 6.35E-09 4.52E-09 rs2617653 19 58,583,819 5.67E-01 rs242219 3 60,454,420 4.50E-01 FHIT 232 LILRB1 69 5,971,536 8.37E-09 5.68E-09 rs10411879 19 59,815,117 5.84E-04 rs11073332 15 36,604,906 9.84E-01 RASGRP1 278 SAPS1 86 7,441,322 6.72E-09 3.41E-09 rs775821 19 60,250,380 2.11E-01 rs2982554 6 152,099,703 3.58E-01 - 190 STK35 97 8,392,052 5.96E-09 2.05E-09 rs1178015 20 2,944,423 4.87E-01 rs11763741 7 154,194,209 3.00E-01 DPP6 131 SNX5 116 10,033,652 4.98E-09 1.59E-09 rs2072958 20 17,453,226 7.37E-01 rs10512565 17 66,891,355 6.16E-01 - 104 DTD1 111 9,601,722 5.21E-09 2.49E-09 rs2745826 20 17,733,930 4.42E-01 rs7842016 8 115,814,391 2.59E-02 - 154 TM9SF4 17 1,472,132 3.40E-08 2.35E-08 rs2093067 20 31,116,477 6.12E-01 rs11105173 12 88,011,928 8.74E-01 - 430 AHCY 32 2,770,592 1.80E-08 1.22E-09 rs1577924 20 33,247,949 4.63E-01 rs9304402 18 46,409,165 6.23E-01 MAPK4 86 SRC 58 5,020,190 9.96E-09 9.28E-09 rs6021982 20 36,005,342 5.90E-01 rs9676242 18 10,544,459 7.33E-01 NAPG 367 TOMM34 79 6,836,186 7.31E-09 2.52E-09 rs6031340 20 42,133,738 8.00E-01 rs12632865 3 60,107,430 7.10E-01 FHIT 157 ADNP 115 9,947,270 5.03E-09 3.89E-09 rs2269217 20 48,139,802 2.05E-01 rs992507 16 72,346,691 1.77E-01 - 211 ZFP64 125 10,811,000 4.62E-09 1.90E-09 rs4811201 20 49,629,361 4.29E-01 rs6561342 13 46,458,623 3.96E-01 - 120 C20orf11 39 3,376,386 1.48E-08 8.17E-09 rs6089336 20 60,246,240 4.54E-01 rs1550548 3 144,443,709 6.14E-01 - 343 SAMSN1 31 2,684,042 1.86E-08 1.54E-08 rs2822737 21 14,820,662 2.04E-03 rs6485350 11 11,970,193 7.24E-01 DKK3 414 IFNGR2 49 4,241,636 1.18E-08 5.04E-09 rs2834013 21 33,226,124 1.69E-02 rs1549712 1 197,976,009 9.08E-01 - 259 RCAN1 65 5,625,620 8.89E-09 1.68E-10 rs1888461 21 35,795,033 8.38E-01 rs803119 17 36,003,822 5.14E-01 - 22 BRWD1 70 6,058,010 8.25E-09 1.45E-09 rs2836835 21 39,309,928 7.96E-01 rs9837226 3 190,766,514 5.29E-01 - 95 HIRA 29 2,510,936 1.99E-08 5.29E-10 rs13053792 22 18,004,104 6.16E-02 rs2079644 7 123,913,274 9.77E-01 - 42 UBE2L3 9 779,436 6.41E-08 4.29E-08 rs165846 22 19,254,028 6.47E-01 rs5751963 22 23,462,498 4.02E-01 PIWIL3 439 MAPK1 7 606,242 8.25E-08 4.01E-08 rs11704205 22 20,475,253 4.73E-01 rs9586800 13 104,764,424 2.34E-01 - 438 AP1B1 16 1,385,552 3.61E-08 3.83E-09 rs4822998 22 27,690,297 9.35E-01 rs2753596 14 38,712,591 3.54E-01 PNN 208 SF3A1 17 1,472,132 3.40E-08 1.51E-08 rs5749185 22 29,612,893 9.70E-01 rs9945084 18 38,976,893 7.46E-01 - 413 FBXO7 38 3,289,850 1.52E-08 1.32E-08 rs9621455 22 31,182,077 9.83E-01 rs880901 10 31,974,771 6.10E-01 - 401 RABL4 50 4,328,150 1.16E-08 9.12E-10 rs5756332 22 35,467,730 3.95E-01 rs4490416 4 162,652,761 1.53E-01 FSTL5 71 DNAL4 22 1,905,002 2.62E-08 2.50E-08 rs139314 22 37,829,550 8.36E-01 rs473027 1 78,764,790 4.52E-01 PTGFR 431 L3MBTL2 11 952,622 5.25E-08 1.78E-08 rs139499 22 39,975,031 7.51E-01 rs258804 5 142,514,411 2.73E-01 ARHGAP26 421 EP300 10 866,030 5.77E-08 3.82E-08 rs5758341 22 40,145,884 4.56E-01 rs7782014 7 120,454,902 2.64E-01 FLJ21986 437 MCAT 39 3,376,386 1.48E-08 7.47E-10 rs5751245 22 40,950,884 1.89E-01 rs10162701 15 31,980,167 8.56E-01 AVEN 56 POLDIP3 24 2,078,136 2.41E-08 1.85E-09 rs7284681 22 41,426,940 9.67E-01 rs4714238 6 39,397,492 6.46E-01 KCNK16 116

16 Supplementary table 3: Column 1 lists cis-trans interacting transcripts with significant results in the one-locus eQTL analysis, column 2 gives the number of tested cis-SNPs at each transcript, column 3 shows the number of cis-trans tests, column 4 lists the Bonferroni-adjusted P-values necessary for a ‘significant’ finding, column 5 shows the uncorrected P-value per transcript obtained in the two-locus interaction analysis, the next columns provide information about the cis- and trans-SNPs including their eQTL effects under a one-locus model, the last column ranks the two- locus finding by the interaction evidence.

# of tested # of epistasis Bonferroni Top two-locus Top cis-acting SNP Top trans-acting SNP Transcript cis-SNPs tests P-value P-value rs chr Position one-locus P-value rs chr Position one-locus P-value Gene Rank

LRRC23 30 2,597,490 1.92E-08 9.18E-09 rs3759350 12 6,882,208 6.95E-17 rs2038688 20 46,423,183 n.s. - 366 NPLOC4 51 4,414,662 1.13E-08 5.04E-10 rs9894429 17 77,207,216 1.01E-09 rs4584156 8 131,723,447 n.s. - 37 CD79B 27 2,337,822 2.14E-08 3.10E-09 rs7209608 17 59,357,542 1.70E-09 rs16860514 3 149,730,988 n.s. - 179 C17orf70 47 4,068,602 1.23E-08 5.10E-11 rs7207933 17 77,131,682 3.75E-07 rs35060330 5 150,818,278 n.s. SLC36A1 6 TRIM4 9 779,436 6.41E-08 2.82E-12 rs1121592 7 99,361,567 2.40E-06 rs457414 3 10,177,884 n.s. VHL 1 TLR10 67 5,798,582 8.62E-09 1.71E-09 rs11096956 4 38,452,575 1.39E-04 rs598227 5 140,627,801 n.s. - 112 MANBA 51 4,414,662 1.13E-08 1.70E-11 rs4698863 4 103,764,896 1.81E-04 rs13171027 5 4,031,902 n.s. - 4 PKHD1L1 50 4,328,150 1.16E-08 1.12E-08 rs3102255 8 110,825,947 1.90E-04 rs1399096 11 22,452,671 n.s. - 384 LILRB1 69 5,971,536 8.37E-09 5.68E-09 rs10411879 19 59,815,117 5.84E-04 rs11073332 15 36,604,906 n.s. RASGRP1 278 SAMSN1 31 2,684,042 1.86E-08 1.54E-08 rs2822737 21 14,820,662 2.04E-03 rs6485350 11 11,970,193 n.s. DKK3 414 BLK 62 5,366,162 9.32E-09 5.30E-09 rs1293320 8 11,729,348 3.03E-03 rs1634506 17 31,449,476 n.s. CCL4 267 GAMT 65 5,625,620 8.89E-09 4.90E-09 rs6510799 19 433,221 3.87E-03 rs4774498 15 45,660,897 n.s. - 253 STK3 32 2,770,592 1.80E-08 1.58E-08 rs4735529 8 99,208,786 3.99E-03 rs9638780 7 21,231,832 n.s. - 415 S100PBP 36 3,116,772 1.60E-08 1.45E-10 rs7518553 1 32,087,734 4.10E-03 rs9910295 17 74,124,040 n.s. - 20 COQ5 35 3,030,230 1.65E-08 2.86E-09 rs787820 12 119,410,702 4.31E-03 rs836689 2 168,355,398 n.s. - 171 CNP 31 2,684,042 1.86E-08 1.30E-08 rs7217728 17 37,700,927 4.74E-03 rs11581564 1 107,236,630 n.s. - 399 CDK5RAP2 53 4,587,680 1.09E-08 3.07E-09 rs4617229 9 122,520,517 5.63E-03 rs1532121 5 66,833,063 n.s. - 176 MAPK6 62 5,366,162 9.32E-09 2.10E-09 rs11633713 15 49,695,344 5.99E-03 rs6717646 2 82,271,380 n.s. - 133 TLR1 66 5,712,102 8.75E-09 3.27E-09 rs11096956 4 38,452,575 8.27E-03 rs4650245 1 74,295,062 n.s. - 186 MRPS35 65 5,625,620 8.89E-09 5.61E-10 rs7305790 12 28,180,991 9.65E-03 rs1487111 3 81,379,240 n.s. - 46 TOPORS 45 3,895,560 1.28E-08 8.10E-09 rs1842636 9 32,100,777 1.08E-02 rs17777630 5 147,987,146 n.s. HTR4 342

17 C15orf24 142 12,278,882 4.07E-09 1.14E-09 rs670957 15 32,876,724 1.10E-02 rs1551533 9 20,257,413 n.s. - 81 FAF2 48 4,155,120 1.20E-08 1.03E-08 rs2962783 5 176,108,989 1.44E-02 rs7113280 11 21,130,230 n.s. NELL1 379 IFNGR2 49 4,241,636 1.18E-08 5.04E-09 rs2834013 21 33,226,124 1.69E-02 rs1549712 1 197,976,009 n.s. - 259 MRPS9 90 7,787,070 6.42E-09 2.59E-10 rs2033303 2 104,924,327 1.70E-02 rs6068029 20 35,944,867 n.s. - 26 METTL1 53 4,587,680 1.09E-08 8.68E-09 rs1908536 12 57,124,955 1.76E-02 rs4833611 4 120,366,908 n.s. - 355 GNB5 64 5,539,136 9.03E-09 4.60E-09 rs17650082 15 50,179,198 1.83E-02 rs11898585 2 109,405,865 n.s. - 236 MTHFSD 169 14,609,036 3.42E-09 2.82E-09 rs3762872 16 84,924,145 2.08E-02 rs872120 1 154,619,020 n.s. RHBG 168 PPM1B 67 5,798,582 8.62E-09 3.53E-09 rs4146528 2 44,237,689 2.48E-02 rs11535192 7 39,290,874 n.s. POU6F2 195 CTSS 24 2,078,136 2.41E-08 9.15E-09 rs4970996 1 148,773,213 2.62E-02 rs11202527 10 89,469,355 n.s. PAPSS2 365 MAPK3 12 1,039,212 4.81E-08 2.51E-08 rs4609871 16 29,839,565 2.92E-02 rs656895 6 158,818,130 n.s. TULP4 432 CRTC3 66 5,712,102 8.75E-09 7.27E-09 rs8038691 15 89,884,762 3.15E-02 rs11723176 4 187,648,291 n.s. - 325 ST6GAL1 103 8,910,530 5.61E-09 4.11E-09 rs3872724 3 188,223,915 3.34E-02 rs1959205 14 43,877,663 n.s. - 218 ADAM8 22 1,905,002 2.62E-08 1.81E-08 rs3008304 10 134,832,113 3.37E-02 rs10938364 4 44,470,685 n.s. - 422 KRBA1 53 4,587,680 1.09E-08 9.99E-09 rs734004 7 148,136,393 3.63E-02 rs1946314 9 21,122,495 n.s. IFNW1 376 PUS1 41 3,549,452 1.41E-08 1.37E-08 rs2895148 12 130,493,365 3.74E-02 rs11122622 1 229,122,047 n.s. TTC13 407 TRMT12 62 5,366,162 9.32E-09 7.69E-09 rs11783434 8 125,250,769 3.93E-02 rs2865851 19 58,907,560 n.s. - 337 SGCE 51 4,414,662 1.13E-08 3.30E-10 rs2519630 7 93,289,019 3.96E-02 rs1899477 10 6,962,621 n.s. - 29 CEBPZ 87 7,527,762 6.64E-09 9.16E-11 rs12052952 2 36,842,683 4.59E-02 rs807018 10 102,763,001 n.s. LZTS2 16 VRK2 66 5,712,102 8.75E-09 2.16E-09 rs10178765 2 58,363,538 4.76E-02 rs4950076 1 95,349,885 n.s. TMEM56 139 ILF2 50 4,328,150 1.16E-08 1.12E-08 rs310122 1 151,330,912 n.s. rs4794258 17 46,964,483 1.40E-03 - 383 TMEM55B 112 9,688,112 5.16E-09 2.76E-09 rs7158152 14 20,203,164 n.s. rs4276697 8 25,903,188 8.12E-03 - 166 LRBA 42 3,635,982 1.38E-08 7.41E-09 rs3923657 4 151,138,248 n.s. rs1990139 7 41,042,009 1.57E-02 - 329 FCRLA 66 5,712,102 8.75E-09 9.31E-10 rs4657141 1 160,328,271 n.s. rs7904080 10 7,672,592 1.59E-02 ITIH5 73 ARL1 50 4,328,150 1.16E-08 3.07E-09 rs7136973 12 99,806,727 n.s. rs4719831 7 3,190,717 2.54E-02 - 177 DTD1 111 9,601,722 5.21E-09 2.49E-09 rs2745826 20 17,733,930 n.s. rs7842016 8 115,814,391 2.59E-02 - 154 BCS1L 41 3,549,452 1.41E-08 4.05E-09 rs2279014 2 218,969,420 n.s. rs966561 8 6,642,801 2.60E-02 - 216 CD82 86 7,441,322 6.72E-09 5.88E-09 rs11037747 11 43,914,435 n.s. rs1342514 1 56,959,948 3.03E-02 C1orf168 282 RAD51C 27 2,337,822 2.14E-08 1.69E-08 rs2286485 17 54,820,686 n.s. rs3741240 11 61,943,118 3.13E-02 SCGB1A1 418 ASPM 24 2,078,136 2.41E-08 9.66E-10 rs7417237 1 194,341,448 n.s. rs1866610 2 4,889,477 3.36E-02 - 77 ALKBH1 157 13,573,592 3.68E-09 2.80E-10 rs10138030 14 76,824,300 n.s. rs7177659 15 77,945,097 3.72E-02 MTHFS 28

18 C14orf138 81 7,009,092 7.13E-09 2.24E-10 rs12891659 14 48,917,891 n.s. rs17696192 18 36,973,070 3.85E-02 - 24 RBM15 86 7,441,322 6.72E-09 3.17E-09 rs12731815 1 110,923,611 n.s. rs10813990 9 33,496,670 3.97E-02 - 183 NAP1L1 48 4,155,120 1.20E-08 9.72E-09 rs7980645 12 74,310,977 n.s. rs4578800 2 192,835,591 4.12E-02 - 372 ST7 58 5,020,190 9.96E-09 2.26E-09 rs6466571 7 115,697,281 n.s. rs12712091 2 101,253,584 4.17E-02 C2orf29 145 HS2ST1 56 4,847,192 1.03E-08 8.45E-09 rs12137116 1 87,882,416 n.s. rs17643219 5 73,593,173 4.58E-02 - 349