UK Biobank LDL-C and DIAGRAM T2D | GLGC | |||||||||||
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Chr | bp_min | bp_max | Nearest genes | Top SNP-metaCCA | metaCCA-min P | T2D β | T2D P | LDL β | LDL P | Top SNP-metaCCA | LDL P | metaCCA P |

1 | 109,285,825 | 109,285,825 | FNDC7-STXBP3 | rs12144658 | 6.7E−10 | −0.095 | 8.3E−06 | 0.028 | 7.0E−06 | rs12144658 | 1.7E−03 | 4.2E−07 |

1 | 109,843,746 | 110,078,255 | SORT1-PSMA5 | rs56218586 | 2.0E−178 | −0.059 | 8.1E−06 | 0.095 | 2.6E−118 | rs17647543 | 6.3E−27 | 2.5E−32 |

2 | 27,161,476 | 28,246,841 | GCKR | rs6547692 | 1.4E−194 | −0.055 | 1.6E−17 | 0.043 | 8.1E−113 | rs1260326 | 8.4E−10 | 1.3E−32 |

2 | 43,452,183 | 44,020,441 | THADA | rs116097055 | 2.2E−15 | 0.18 | 1.5E−10 | −0.034 | 1.7E−06 | rs55877805 | 1.1E−03 | 2.4E−29 |

2 | 121,306,440 | 121,350,667 | LINC01101-GLI2 | rs17050272 | 2.0E−51 | −0.031 | 3.5E−06 | 0.026 | 6.4E−42 | rs896499 | 8.9E−09 | 4.7E−12 |

2 | 234,508,963 | 234,565,917 | UGT1A8 | rs2741038 | 8.5E−09 | −0.03 | 1.5E−05 | 0.009 | 3.8E−05 | rs2741019 | 3.5E−06 | 2.5E−09 |

3 | 12,058,246 | 12,456,689 | PPARG | rs17036170 | 1.8E−19 | −0.13 | 2.7E−06 | 0.073 | 9.9E−15 | rs17036326 | 1.5E−08 | 1.2E−24 |

3 | 124,912,207 | 129,301,874 | SLC12A8 | rs9873519 | 1.8E−16 | −0.039 | 1.4E−09 | 0.011 | 1.9E−08 | rs4679370 | 3.2E−04 | 2.7E−10 |

3 | 170,631,635 | 170,743,747 | SLC2A2 | rs12496734 | 8.0E−18 | 0.05 | 2.5E−07 | −0.020 | 4.5E−12 | rs7430672 | 4.2E−05 | 1.1E−15 |

5 | 74,352,180 | 75,042,913 | HMGCR-POC5 | rs34361 | 6.9E−322 | −0.05 | 8.7E−14 | 0.054 | 3.3E−156 | rs7703051 | 3.0E−86 | 7.5E−118 |

5 | 78,350,390 | 78,385,845 | BHMT2 | rs592052 | 1.7E−10 | 0.031 | 1.1E−06 | −0.008 | 1.3E−05 | rs557302 | 3.0E−03 | 2.3E−07 |

6 | 31,145,920 | 31,372,569 | HLA-C/B | rs36057735 | 1.4E−15 | −0.037 | 6.7E−06 | 0.016 | 2.3E−11 | rs7743761 | 2.5E−11 | 2.5E−10 |

6 | 32,127,477 | 33,514,567 | HLA-DQA1/B1 | rs3130276 | 1.8E−10 | 0.031 | 3.8E−06 | −0.009 | 4.4E−06 | rs9275221 | 3.6E−15 | 1.0E−23 |

6 | 126,629,425 | 127,167,072 | CENPW | rs9388490 | 3.2E−29 | −0.049 | 4.5E−14 | 0.015 | 3.2E−15 | rs9388490 | 3.8E−03 | 8.9E−15 |

7 | 44,585,052 | 44,709,372 | NPC1L1-DDX56 | rs2008428 | 2.9E−78 | 0.031 | 4.8E−05 | −0.038 | 4.5E−63 | rs217386 | 6.3E−22 | 4.3E−23 |

7 | 100,266,081 | 100,414,386 | GIGYF1-POP7-EPO | rs221793 | 2.5E−24 | −0.047 | 1.9E−05 | 0.029 | 6.7E−20 | rs506597 | 4.8E−04 | 3.5E−08 |

8 | 9,168,146 | 9,740,317 | PPP1R3B | rs9987289 | 1.6E−88 | 0.066 | 3.9E−09 | −0.057 | 1.1E−65 | rs9987289 | 1.4E−27 | 1.4E−36 |

10 | 64,988,931 | 65,340,897 | REEP3 | rs3847326 | 8.4E−15 | −0.028 | 1.3E−05 | 0.012 | 9.2E−11 | rs12775231 | 1.1E−03 | 6.7E−06 |

10 | 101,900,579 | 102,039,463 | ERLIN1-CWF19L1 | rs35614792 | 2.8E−15 | 0.031 | 1.9E−06 | −0.012 | 2.2E−10 | rs369136533 | 1.8E−03 | 8.5E−08 |

11 | 65,422,853 | 65,604,195 | OVOL1-SNX32 | rs34381009 | 1.2E−09 | 0.037 | 2.3E−05 | −0.012 | 2.8E−06 | rs3814707 | 4.3E−04 | 6.5E−08 |

12 | 50,881,148 | 50,987,378 | DIP2B | rs7316864 | 3.3E−11 | −0.029 | 4.6E−05 | 0.011 | 6.7E−08 | rs10876041 | 1.1E−06 | 1.2E−06 |

12 | 121,435,778 | 123,891,209 | HNF1A-OASL | rs12231806 | 8.5E−17 | −0.05 | 8.0E−08 | 0.018 | 1.4E−10 | rs7131696 | 4.4E−06 | 1.4E−15 |

15 | 62,383,155 | 63,314,519 | C2CD4A/B | rs1881415 | 2.8E−17 | 0.047 | 4.7E−13 | −0.008 | 1.8E−05 | rs4502156 | 1.1E−04 | 5.0E−14 |

17 | 29,628,549 | 29,749,444 | NF1-EVI2A | rs7502556 | 9.7E−19 | 0.032 | 5.3E−07 | −0.014 | 2.8E−13 | rs1129506 | 5.8E−06 | 9.2E−08 |

17 | 46,044,031 | 46,114,620 | COPZ2 | rs12935890 | 3.0E−17 | −0.032 | 6.6E−06 | 0.015 | 6.2E−13 | rs11651275 | 3.6E−03 | 2.4E−07 |

19 | 19,320,825 | 19,793,545 | TM6SF2 | rs59148799 | 9.9E−324 | −0.054 | 3.4E−08 | 0.077 | 1.4E−162 | rs10401969 | 4.6E−61 | 1.6E−86 |

19 | 45,324,756 | 45,428,234 | APOE | rs10119 | 4.9E−42 | 0.043 | 3.5E−09 | −0.024 | 3.1E−31 | rs2075650 | 0.0E+00 | 0.0E+00 |

19 | 46,123,929 | 46,314,504 | GIPR | rs2238689 | 2.0E−33 | −0.05 | 1.3E−14 | 0.017 | 9.4E−19 | rs10422601 | 1.9E−09 | 3.4E−22 |

20 | 42,958,768 | 43,042,364 | HNF4A | rs1800961 | 5.3E−72 | −0.16 | 3.2E−20 | 0.076 | 1.8E−42 | rs1800961 | 5.2E−11 | 7.1E−31 |

22 | 18,415,158 | 18,486,514 | MICAL3 | rs5992928 | 3.6E−11 | 0.035 | 3.1E−06 | −0.011 | 7.9E−07 | rs7286607 | 3.4E−05 | 2.4E−08 |

22 | 44,324,730 | 44,394,402 | PNPLA3 | rs738408 | 4.6E−19 | −0.049 | 1.8E−10 | 0.014 | 7.1E−10 | rs738408 | 2.9E−05 | 1.9E−11 |

β-Coefficients refer to the SNP with the lowest

*P*value for each trait in the respective region. The minimum univariate*P*value for LDL-C in GLGC summary statistics as well as the top SNP and*P*value of the top metaCCA SNP for the region discovered in UK Biobank is also shown. bp_min and bp_max are the minimum and maximum base pair position for which all SNPs have*P*< 5E−5 for LDL-C and T2D, with opposite directions of effect, and with metaCCA*P*< 5E−8. Human build GRCh37/hg19; β-coefficients correspond to log-ORs for T2D and SDs for LDL-C.*P*values from GLGC LDL-C associations are for SNPs showing opposite direction of association with T2D (DIAGRAM). Chr, chromosome.