Last updated: 2021-03-05
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The following document outlines and summarizes the GWAS results performed in PSYMETAB, for an overview of the method see: GWAS Method.
Drug_class | Interaction_outcome | Sensitivity_Model | N | Drug_CEU | NoDrug_CEU | Drug_MIXED | NoDrug_MIXED | Drug_YRI | NoDrug_YRI |
---|---|---|---|---|---|---|---|---|---|
all | BMI_slope | No | 1317 | 273 | 770 | 62 | 176 | 9 | 27 |
all | BMI_slope | Yes | 1317 | 273 | 770 | 62 | 176 | 9 | 27 |
all | LDL_slope | No | 759 | 153 | 453 | 39 | 92 | 8 | 14 |
all | LDL_slope | Yes | 759 | 153 | 453 | 39 | 92 | 8 | 14 |
all | BMI_slope_6mo | No | 1130 | 228 | 672 | 54 | 147 | 8 | 21 |
all | BMI_slope_6mo | Yes | 1130 | 228 | 672 | 54 | 147 | 8 | 21 |
all | LDL_slope_6mo | No | 673 | 138 | 400 | 33 | 81 | 8 | 13 |
all | LDL_slope_6mo | Yes | 673 | 138 | 400 | 33 | 81 | 8 | 13 |
all | BMI_slope_weight | No | 864 | 188 | 499 | 45 | 109 | 3 | 20 |
all | BMI_slope_weight | Yes | 864 | 188 | 499 | 45 | 109 | 3 | 20 |
all | LDL_slope_weight | No | 303 | 78 | 173 | 18 | 27 | 3 | 4 |
all | LDL_slope_weight | Yes | 303 | 78 | 173 | 18 | 27 | 3 | 4 |
all | BMI_slope_weight_6mo | No | 687 | 140 | 408 | 37 | 87 | 2 | 13 |
all | BMI_slope_weight_6mo | Yes | 687 | 140 | 408 | 37 | 87 | 2 | 13 |
all | LDL_slope_weight_6mo | No | 212 | 60 | 122 | 14 | 14 | 1 | 1 |
all | LDL_slope_weight_6mo | Yes | 212 | 60 | 122 | 14 | 14 | 1 | 1 |
all | BMI_change | No | 1317 | 273 | 770 | 62 | 176 | 9 | 27 |
all | BMI_change | Yes | 1317 | 273 | 770 | 62 | 176 | 9 | 27 |
all | LDL_change | No | 493 | 97 | 296 | 28 | 55 | 8 | 9 |
all | LDL_change | Yes | 493 | 97 | 296 | 28 | 55 | 8 | 9 |
all | BMI_change_1mo | No | 372 | 71 | 217 | 26 | 45 | 3 | 10 |
all | BMI_change_1mo | Yes | 372 | 71 | 217 | 26 | 45 | 3 | 10 |
all | LDL_change_1mo | No | 176 | 39 | 100 | 10 | 19 | 3 | 5 |
all | LDL_change_1mo | Yes | 176 | 39 | 100 | 10 | 19 | 3 | 5 |
all | BMI_change_3mo | No | 1002 | 203 | 592 | 51 | 131 | 7 | 18 |
all | BMI_change_3mo | Yes | 1002 | 203 | 592 | 51 | 131 | 7 | 18 |
all | LDL_change_3mo | No | 441 | 89 | 262 | 20 | 53 | 6 | 11 |
all | LDL_change_3mo | Yes | 441 | 89 | 262 | 20 | 53 | 6 | 11 |
all | BMI_change_6mo | No | 1132 | 228 | 673 | 55 | 147 | 8 | 21 |
all | BMI_change_6mo | Yes | 1132 | 228 | 673 | 55 | 147 | 8 | 21 |
all | LDL_change_6mo | No | 503 | 103 | 303 | 27 | 53 | 7 | 10 |
all | LDL_change_6mo | Yes | 503 | 103 | 303 | 27 | 53 | 7 | 10 |
olanz_cloz | BMI_slope | No | 1361 | 201 | 882 | 47 | 193 | 8 | 30 |
olanz_cloz | BMI_slope | Yes | 1361 | 201 | 882 | 47 | 193 | 8 | 30 |
olanz_cloz | LDL_slope | No | 784 | 111 | 518 | 31 | 100 | 7 | 17 |
olanz_cloz | LDL_slope | Yes | 784 | 111 | 518 | 31 | 100 | 7 | 17 |
olanz_cloz | BMI_slope_6mo | No | 1168 | 168 | 767 | 40 | 162 | 7 | 24 |
olanz_cloz | BMI_slope_6mo | Yes | 1168 | 168 | 767 | 40 | 162 | 7 | 24 |
olanz_cloz | LDL_slope_6mo | No | 693 | 100 | 456 | 26 | 88 | 7 | 16 |
olanz_cloz | LDL_slope_6mo | Yes | 693 | 100 | 456 | 26 | 88 | 7 | 16 |
olanz_cloz | BMI_slope_weight | No | 887 | 133 | 573 | 35 | 121 | 2 | 23 |
olanz_cloz | BMI_slope_weight | Yes | 887 | 133 | 573 | 35 | 121 | 2 | 23 |
olanz_cloz | LDL_slope_weight | No | 301 | 56 | 193 | 14 | 30 | 2 | 6 |
olanz_cloz | LDL_slope_weight | Yes | 301 | 56 | 193 | 14 | 30 | 2 | 6 |
olanz_cloz | BMI_slope_weight_6mo | No | 707 | 96 | 468 | 27 | 99 | 1 | 16 |
olanz_cloz | BMI_slope_weight_6mo | Yes | 707 | 96 | 468 | 27 | 99 | 1 | 16 |
olanz_cloz | LDL_slope_weight_6mo | No | 209 | 41 | 137 | 11 | 17 | 1 | 2 |
olanz_cloz | LDL_slope_weight_6mo | Yes | 209 | 41 | 137 | 11 | 17 | 1 | 2 |
olanz_cloz | BMI_change | No | 1361 | 201 | 882 | 47 | 193 | 8 | 30 |
olanz_cloz | BMI_change | Yes | 1361 | 201 | 882 | 47 | 193 | 8 | 30 |
olanz_cloz | LDL_change | No | 501 | 69 | 333 | 24 | 59 | 7 | 9 |
olanz_cloz | LDL_change | Yes | 501 | 69 | 333 | 24 | 59 | 7 | 9 |
olanz_cloz | BMI_change_1mo | No | 391 | 58 | 250 | 18 | 51 | 3 | 11 |
olanz_cloz | BMI_change_1mo | Yes | 391 | 58 | 250 | 18 | 51 | 3 | 11 |
olanz_cloz | LDL_change_1mo | No | 188 | 33 | 116 | 8 | 22 | 3 | 6 |
olanz_cloz | LDL_change_1mo | Yes | 188 | 33 | 116 | 8 | 22 | 3 | 6 |
olanz_cloz | BMI_change_3mo | No | 1033 | 153 | 671 | 38 | 145 | 6 | 20 |
olanz_cloz | BMI_change_3mo | Yes | 1033 | 153 | 671 | 38 | 145 | 6 | 20 |
olanz_cloz | LDL_change_3mo | No | 449 | 66 | 292 | 17 | 57 | 5 | 12 |
olanz_cloz | LDL_change_3mo | Yes | 449 | 66 | 292 | 17 | 57 | 5 | 12 |
olanz_cloz | BMI_change_6mo | No | 1170 | 168 | 768 | 41 | 162 | 7 | 24 |
olanz_cloz | BMI_change_6mo | Yes | 1170 | 168 | 768 | 41 | 162 | 7 | 24 |
olanz_cloz | LDL_change_6mo | No | 515 | 76 | 341 | 22 | 58 | 7 | 11 |
olanz_cloz | LDL_change_6mo | Yes | 515 | 76 | 341 | 22 | 58 | 7 | 11 |
valproate | BMI_slope | No | 1386 | 83 | 1006 | 17 | 235 | 1 | 44 |
valproate | BMI_slope | Yes | 1386 | 83 | 1006 | 17 | 235 | 1 | 44 |
valproate | LDL_slope | No | 802 | 48 | 594 | 9 | 126 | 1 | 24 |
valproate | LDL_slope | Yes | 802 | 48 | 594 | 9 | 126 | 1 | 24 |
valproate | BMI_slope_6mo | No | 1196 | 71 | 872 | 16 | 200 | 1 | 36 |
valproate | BMI_slope_6mo | Yes | 1196 | 71 | 872 | 16 | 200 | 1 | 36 |
valproate | LDL_slope_6mo | No | 708 | 44 | 523 | 8 | 109 | 1 | 23 |
valproate | LDL_slope_6mo | Yes | 708 | 44 | 523 | 8 | 109 | 1 | 23 |
valproate | BMI_slope_weight | No | 924 | 61 | 663 | 12 | 154 | 1 | 33 |
valproate | BMI_slope_weight | Yes | 924 | 61 | 663 | 12 | 154 | 1 | 33 |
valproate | LDL_slope_weight | No | 322 | 24 | 234 | 4 | 48 | 1 | 11 |
valproate | LDL_slope_weight | Yes | 322 | 24 | 234 | 4 | 48 | 1 | 11 |
valproate | BMI_slope_weight_6mo | No | 740 | 50 | 528 | 11 | 125 | 1 | 25 |
valproate | BMI_slope_weight_6mo | Yes | 740 | 50 | 528 | 11 | 125 | 1 | 25 |
valproate | LDL_slope_weight_6mo | No | 217 | 19 | 164 | 3 | 25 | 0 | 6 |
valproate | LDL_slope_weight_6mo | Yes | 217 | 19 | 164 | 3 | 25 | 0 | 6 |
valproate | BMI_change | No | 1386 | 83 | 1006 | 17 | 235 | 1 | 44 |
valproate | BMI_change | Yes | 1386 | 83 | 1006 | 17 | 235 | 1 | 44 |
valproate | LDL_change | No | 514 | 32 | 384 | 4 | 75 | 1 | 18 |
valproate | LDL_change | Yes | 514 | 32 | 384 | 4 | 75 | 1 | 18 |
valproate | BMI_change_1mo | No | 380 | 18 | 275 | 8 | 66 | 0 | 13 |
valproate | BMI_change_1mo | Yes | 380 | 18 | 275 | 8 | 66 | 0 | 13 |
valproate | LDL_change_1mo | No | 177 | 8 | 133 | 2 | 28 | 0 | 6 |
valproate | LDL_change_1mo | Yes | 177 | 8 | 133 | 2 | 28 | 0 | 6 |
valproate | BMI_change_3mo | No | 1054 | 59 | 769 | 15 | 178 | 1 | 32 |
valproate | BMI_change_3mo | Yes | 1054 | 59 | 769 | 15 | 178 | 1 | 32 |
valproate | LDL_change_3mo | No | 463 | 27 | 345 | 4 | 67 | 1 | 19 |
valproate | LDL_change_3mo | Yes | 463 | 27 | 345 | 4 | 67 | 1 | 19 |
valproate | BMI_change_6mo | No | 1197 | 71 | 873 | 16 | 200 | 1 | 36 |
valproate | BMI_change_6mo | Yes | 1197 | 71 | 873 | 16 | 200 | 1 | 36 |
valproate | LDL_change_6mo | No | 523 | 32 | 396 | 6 | 71 | 0 | 18 |
valproate | LDL_change_6mo | Yes | 523 | 32 | 396 | 6 | 71 | 0 | 18 |
olanz | BMI_slope | No | 1369 | 125 | 967 | 42 | 199 | 6 | 30 |
olanz | BMI_slope | Yes | 1369 | 125 | 967 | 42 | 199 | 6 | 30 |
olanz | LDL_slope | No | 785 | 72 | 560 | 29 | 102 | 5 | 17 |
olanz | LDL_slope | Yes | 785 | 72 | 560 | 29 | 102 | 5 | 17 |
olanz | BMI_slope_6mo | No | 1171 | 107 | 832 | 35 | 168 | 5 | 24 |
olanz | BMI_slope_6mo | Yes | 1171 | 107 | 832 | 35 | 168 | 5 | 24 |
olanz | LDL_slope_6mo | No | 692 | 64 | 493 | 24 | 90 | 5 | 16 |
olanz | LDL_slope_6mo | Yes | 692 | 64 | 493 | 24 | 90 | 5 | 16 |
olanz | BMI_slope_weight | No | 892 | 75 | 636 | 31 | 125 | 2 | 23 |
olanz | BMI_slope_weight | Yes | 892 | 75 | 636 | 31 | 125 | 2 | 23 |
olanz | LDL_slope_weight | No | 298 | 32 | 214 | 13 | 31 | 2 | 6 |
olanz | LDL_slope_weight | Yes | 298 | 32 | 214 | 13 | 31 | 2 | 6 |
olanz | BMI_slope_weight_6mo | No | 706 | 56 | 507 | 24 | 102 | 1 | 16 |
olanz | BMI_slope_weight_6mo | Yes | 706 | 56 | 507 | 24 | 102 | 1 | 16 |
olanz | LDL_slope_weight_6mo | No | 208 | 26 | 151 | 10 | 18 | 1 | 2 |
olanz | LDL_slope_weight_6mo | Yes | 208 | 26 | 151 | 10 | 18 | 1 | 2 |
olanz | BMI_change | No | 1369 | 125 | 967 | 42 | 199 | 6 | 30 |
olanz | BMI_change | Yes | 1369 | 125 | 967 | 42 | 199 | 6 | 30 |
olanz | LDL_change | No | 504 | 50 | 357 | 22 | 61 | 5 | 9 |
olanz | LDL_change | Yes | 504 | 50 | 357 | 22 | 61 | 5 | 9 |
olanz | BMI_change_1mo | No | 392 | 41 | 269 | 16 | 53 | 2 | 11 |
olanz | BMI_change_1mo | Yes | 392 | 41 | 269 | 16 | 53 | 2 | 11 |
olanz | LDL_change_1mo | No | 189 | 24 | 126 | 7 | 24 | 2 | 6 |
olanz | LDL_change_1mo | Yes | 189 | 24 | 126 | 7 | 24 | 2 | 6 |
olanz | BMI_change_3mo | No | 1035 | 99 | 728 | 34 | 150 | 4 | 20 |
olanz | BMI_change_3mo | Yes | 1035 | 99 | 728 | 34 | 150 | 4 | 20 |
olanz | LDL_change_3mo | No | 453 | 46 | 317 | 16 | 59 | 3 | 12 |
olanz | LDL_change_3mo | Yes | 453 | 46 | 317 | 16 | 59 | 3 | 12 |
olanz | BMI_change_6mo | No | 1173 | 107 | 833 | 36 | 168 | 5 | 24 |
olanz | BMI_change_6mo | Yes | 1173 | 107 | 833 | 36 | 168 | 5 | 24 |
olanz | LDL_change_6mo | No | 516 | 54 | 366 | 20 | 60 | 5 | 11 |
olanz | LDL_change_6mo | Yes | 516 | 54 | 366 | 20 | 60 | 5 | 11 |
cloza | BMI_slope | No | 1452 | 84 | 1057 | 7 | 256 | 2 | 46 |
cloza | BMI_slope | Yes | 1452 | 84 | 1057 | 7 | 256 | 2 | 46 |
cloza | LDL_slope | No | 845 | 42 | 632 | 4 | 138 | 2 | 27 |
cloza | LDL_slope | Yes | 845 | 42 | 632 | 4 | 138 | 2 | 27 |
cloza | BMI_slope_6mo | No | 1257 | 69 | 922 | 7 | 219 | 2 | 38 |
cloza | BMI_slope_6mo | Yes | 1257 | 69 | 922 | 7 | 219 | 2 | 38 |
cloza | LDL_slope_6mo | No | 744 | 39 | 554 | 3 | 120 | 2 | 26 |
cloza | LDL_slope_6mo | Yes | 744 | 39 | 554 | 3 | 120 | 2 | 26 |
cloza | BMI_slope_weight | No | 966 | 63 | 694 | 5 | 169 | 0 | 35 |
cloza | BMI_slope_weight | Yes | 966 | 63 | 694 | 5 | 169 | 0 | 35 |
cloza | LDL_slope_weight | No | 332 | 26 | 241 | 1 | 51 | 0 | 13 |
cloza | LDL_slope_weight | Yes | 332 | 26 | 241 | 1 | 51 | 0 | 13 |
cloza | BMI_slope_weight_6mo | No | 778 | 44 | 563 | 3 | 141 | 0 | 27 |
cloza | BMI_slope_weight_6mo | Yes | 778 | 44 | 563 | 3 | 141 | 0 | 27 |
cloza | LDL_slope_weight_6mo | No | 222 | 17 | 170 | 1 | 27 | 0 | 7 |
cloza | LDL_slope_weight_6mo | Yes | 222 | 17 | 170 | 1 | 27 | 0 | 7 |
cloza | BMI_change | No | 1452 | 84 | 1057 | 7 | 256 | 2 | 46 |
cloza | BMI_change | Yes | 1452 | 84 | 1057 | 7 | 256 | 2 | 46 |
cloza | LDL_change | No | 528 | 20 | 404 | 3 | 81 | 2 | 18 |
cloza | LDL_change | Yes | 528 | 20 | 404 | 3 | 81 | 2 | 18 |
cloza | BMI_change_1mo | No | 409 | 23 | 298 | 2 | 71 | 1 | 14 |
cloza | BMI_change_1mo | Yes | 409 | 23 | 298 | 2 | 71 | 1 | 14 |
cloza | LDL_change_1mo | No | 195 | 12 | 144 | 1 | 30 | 1 | 7 |
cloza | LDL_change_1mo | Yes | 195 | 12 | 144 | 1 | 30 | 1 | 7 |
cloza | BMI_change_3mo | No | 1106 | 61 | 808 | 6 | 196 | 2 | 33 |
cloza | BMI_change_3mo | Yes | 1106 | 61 | 808 | 6 | 196 | 2 | 33 |
cloza | LDL_change_3mo | No | 474 | 23 | 354 | 2 | 73 | 2 | 20 |
cloza | LDL_change_3mo | Yes | 474 | 23 | 354 | 2 | 73 | 2 | 20 |
cloza | BMI_change_6mo | No | 1258 | 69 | 923 | 7 | 219 | 2 | 38 |
cloza | BMI_change_6mo | Yes | 1258 | 69 | 923 | 7 | 219 | 2 | 38 |
cloza | LDL_change_6mo | No | 541 | 24 | 415 | 3 | 78 | 2 | 19 |
cloza | LDL_change_6mo | Yes | 541 | 24 | 415 | 3 | 78 | 2 | 19 |
risp | BMI_slope | No | 1367 | 223 | 855 | 59 | 185 | 17 | 28 |
risp | BMI_slope | Yes | 1211 | 223 | 724 | 59 | 162 | 17 | 26 |
risp | LDL_slope | No | 798 | 127 | 507 | 34 | 101 | 13 | 16 |
risp | LDL_slope | Yes | 714 | 127 | 437 | 34 | 88 | 13 | 15 |
risp | BMI_slope_6mo | No | 1178 | 199 | 733 | 53 | 156 | 14 | 23 |
risp | BMI_slope_6mo | Yes | 1058 | 199 | 634 | 53 | 136 | 14 | 22 |
risp | LDL_slope_6mo | No | 704 | 110 | 448 | 30 | 88 | 13 | 15 |
risp | LDL_slope_6mo | Yes | 631 | 110 | 386 | 30 | 78 | 13 | 14 |
risp | BMI_slope_weight | No | 903 | 142 | 570 | 39 | 120 | 11 | 21 |
risp | BMI_slope_weight | Yes | 795 | 142 | 479 | 39 | 104 | 11 | 20 |
risp | LDL_slope_weight | No | 304 | 44 | 199 | 8 | 39 | 8 | 6 |
risp | LDL_slope_weight | Yes | 268 | 44 | 169 | 8 | 34 | 8 | 5 |
risp | BMI_slope_weight_6mo | No | 723 | 115 | 452 | 34 | 98 | 8 | 16 |
risp | BMI_slope_weight_6mo | Yes | 649 | 115 | 390 | 34 | 86 | 8 | 16 |
risp | LDL_slope_weight_6mo | No | 201 | 33 | 136 | 4 | 21 | 4 | 3 |
risp | LDL_slope_weight_6mo | Yes | 175 | 33 | 114 | 4 | 17 | 4 | 3 |
risp | BMI_change | No | 1367 | 223 | 855 | 59 | 185 | 17 | 28 |
risp | BMI_change | Yes | 1211 | 223 | 724 | 59 | 162 | 17 | 26 |
risp | LDL_change | No | 503 | 74 | 324 | 21 | 61 | 12 | 11 |
risp | LDL_change | Yes | 451 | 74 | 282 | 21 | 52 | 12 | 10 |
risp | BMI_change_1mo | No | 386 | 64 | 238 | 22 | 46 | 7 | 9 |
risp | BMI_change_1mo | Yes | 352 | 64 | 209 | 22 | 41 | 7 | 9 |
risp | LDL_change_1mo | No | 183 | 22 | 120 | 13 | 19 | 4 | 5 |
risp | LDL_change_1mo | Yes | 165 | 22 | 104 | 13 | 17 | 4 | 5 |
risp | BMI_change_3mo | No | 1043 | 177 | 641 | 51 | 139 | 14 | 21 |
risp | BMI_change_3mo | Yes | 937 | 177 | 553 | 51 | 122 | 14 | 20 |
risp | LDL_change_3mo | No | 447 | 68 | 285 | 22 | 48 | 13 | 11 |
risp | LDL_change_3mo | Yes | 402 | 68 | 247 | 22 | 42 | 13 | 10 |
risp | BMI_change_6mo | No | 1179 | 199 | 734 | 53 | 156 | 14 | 23 |
risp | BMI_change_6mo | Yes | 1059 | 199 | 635 | 53 | 136 | 14 | 22 |
risp | LDL_change_6mo | No | 513 | 77 | 337 | 18 | 58 | 12 | 11 |
risp | LDL_change_6mo | Yes | 458 | 77 | 291 | 18 | 50 | 12 | 10 |
quet | BMI_slope | No | 1286 | 414 | 596 | 84 | 150 | 13 | 29 |
quet | BMI_slope | Yes | 1153 | 414 | 484 | 84 | 131 | 13 | 27 |
quet | LDL_slope | No | 763 | 264 | 346 | 44 | 82 | 10 | 17 |
quet | LDL_slope | Yes | 688 | 264 | 283 | 44 | 71 | 10 | 16 |
quet | BMI_slope_6mo | No | 1100 | 358 | 509 | 66 | 132 | 12 | 23 |
quet | BMI_slope_6mo | Yes | 998 | 358 | 425 | 66 | 115 | 12 | 22 |
quet | LDL_slope_6mo | No | 671 | 232 | 304 | 40 | 69 | 10 | 16 |
quet | LDL_slope_6mo | Yes | 607 | 232 | 249 | 40 | 61 | 10 | 15 |
quet | BMI_slope_weight | No | 862 | 285 | 395 | 51 | 101 | 11 | 19 |
quet | BMI_slope_weight | Yes | 771 | 285 | 318 | 51 | 88 | 11 | 18 |
quet | LDL_slope_weight | No | 312 | 118 | 130 | 21 | 31 | 5 | 7 |
quet | LDL_slope_weight | Yes | 281 | 118 | 105 | 21 | 26 | 5 | 6 |
quet | BMI_slope_weight_6mo | No | 698 | 233 | 315 | 47 | 79 | 10 | 14 |
quet | BMI_slope_weight_6mo | Yes | 636 | 233 | 263 | 47 | 69 | 10 | 14 |
quet | LDL_slope_weight_6mo | No | 215 | 77 | 102 | 13 | 14 | 5 | 4 |
quet | LDL_slope_weight_6mo | Yes | 190 | 77 | 82 | 13 | 9 | 5 | 4 |
quet | BMI_change | No | 1286 | 414 | 596 | 84 | 150 | 13 | 29 |
quet | BMI_change | Yes | 1153 | 414 | 484 | 84 | 131 | 13 | 27 |
quet | LDL_change | No | 486 | 173 | 220 | 28 | 46 | 7 | 12 |
quet | LDL_change | Yes | 438 | 173 | 180 | 28 | 39 | 7 | 11 |
quet | BMI_change_1mo | No | 352 | 116 | 165 | 18 | 42 | 4 | 7 |
quet | BMI_change_1mo | Yes | 319 | 116 | 137 | 18 | 37 | 4 | 7 |
quet | LDL_change_1mo | No | 184 | 69 | 81 | 10 | 18 | 3 | 3 |
quet | LDL_change_1mo | Yes | 163 | 69 | 63 | 10 | 15 | 3 | 3 |
quet | BMI_change_3mo | No | 972 | 316 | 448 | 63 | 116 | 10 | 19 |
quet | BMI_change_3mo | Yes | 882 | 316 | 374 | 63 | 101 | 10 | 18 |
quet | LDL_change_3mo | No | 433 | 147 | 201 | 25 | 42 | 6 | 12 |
quet | LDL_change_3mo | Yes | 392 | 147 | 166 | 25 | 37 | 6 | 11 |
quet | BMI_change_6mo | No | 1101 | 358 | 510 | 66 | 132 | 12 | 23 |
quet | BMI_change_6mo | Yes | 999 | 358 | 426 | 66 | 115 | 12 | 22 |
quet | LDL_change_6mo | No | 489 | 172 | 228 | 25 | 43 | 9 | 12 |
quet | LDL_change_6mo | Yes | 438 | 172 | 184 | 25 | 37 | 9 | 11 |
ocq | BMI_slope | No | 1263 | 586 | 412 | 120 | 108 | 19 | 18 |
ocq | BMI_slope | Yes | 1263 | 586 | 412 | 120 | 108 | 19 | 18 |
ocq | LDL_slope | No | 737 | 351 | 237 | 66 | 57 | 15 | 11 |
ocq | LDL_slope | Yes | 737 | 351 | 237 | 66 | 57 | 15 | 11 |
ocq | BMI_slope_6mo | No | 1077 | 499 | 354 | 98 | 95 | 17 | 14 |
ocq | BMI_slope_6mo | Yes | 1077 | 499 | 354 | 98 | 95 | 17 | 14 |
ocq | LDL_slope_6mo | No | 650 | 312 | 206 | 58 | 49 | 15 | 10 |
ocq | LDL_slope_6mo | Yes | 650 | 312 | 206 | 58 | 49 | 15 | 10 |
ocq | BMI_slope_weight | No | 832 | 394 | 265 | 77 | 72 | 12 | 12 |
ocq | BMI_slope_weight | Yes | 832 | 394 | 265 | 77 | 72 | 12 | 12 |
ocq | LDL_slope_weight | No | 295 | 157 | 84 | 27 | 17 | 7 | 3 |
ocq | LDL_slope_weight | Yes | 295 | 157 | 84 | 27 | 17 | 7 | 3 |
ocq | BMI_slope_weight_6mo | No | 667 | 308 | 219 | 68 | 54 | 10 | 8 |
ocq | BMI_slope_weight_6mo | Yes | 667 | 308 | 219 | 68 | 54 | 10 | 8 |
ocq | LDL_slope_weight_6mo | No | 208 | 108 | 65 | 19 | 9 | 6 | 1 |
ocq | LDL_slope_weight_6mo | Yes | 208 | 108 | 65 | 19 | 9 | 6 | 1 |
ocq | BMI_change | No | 1263 | 586 | 412 | 120 | 108 | 19 | 18 |
ocq | BMI_change | Yes | 1263 | 586 | 412 | 120 | 108 | 19 | 18 |
ocq | LDL_change | No | 478 | 227 | 154 | 44 | 34 | 12 | 7 |
ocq | LDL_change | Yes | 478 | 227 | 154 | 44 | 34 | 12 | 7 |
ocq | BMI_change_1mo | No | 355 | 164 | 114 | 33 | 30 | 7 | 7 |
ocq | BMI_change_1mo | Yes | 355 | 164 | 114 | 33 | 30 | 7 | 7 |
ocq | LDL_change_1mo | No | 182 | 94 | 51 | 16 | 12 | 6 | 3 |
ocq | LDL_change_1mo | Yes | 182 | 94 | 51 | 16 | 12 | 6 | 3 |
ocq | BMI_change_3mo | No | 957 | 444 | 311 | 93 | 83 | 15 | 11 |
ocq | BMI_change_3mo | Yes | 957 | 444 | 311 | 93 | 83 | 15 | 11 |
ocq | LDL_change_3mo | No | 424 | 201 | 136 | 35 | 34 | 10 | 8 |
ocq | LDL_change_3mo | Yes | 424 | 201 | 136 | 35 | 34 | 10 | 8 |
ocq | BMI_change_6mo | No | 1078 | 499 | 355 | 98 | 95 | 17 | 14 |
ocq | BMI_change_6mo | Yes | 1078 | 499 | 355 | 98 | 95 | 17 | 14 |
ocq | LDL_change_6mo | No | 485 | 235 | 155 | 40 | 34 | 14 | 7 |
ocq | LDL_change_6mo | Yes | 485 | 235 | 155 | 40 | 34 | 14 | 7 |
ami | BMI_slope | No | 1403 | 119 | 989 | 45 | 205 | 11 | 34 |
ami | BMI_slope | Yes | 462 | 119 | 209 | 45 | 67 | 11 | 11 |
ami | LDL_slope | No | 819 | 79 | 583 | 23 | 108 | 7 | 19 |
ami | LDL_slope | Yes | 268 | 79 | 119 | 23 | 37 | 7 | 3 |
ami | BMI_slope_6mo | No | 1205 | 110 | 844 | 42 | 171 | 11 | 27 |
ami | BMI_slope_6mo | Yes | 417 | 110 | 187 | 42 | 59 | 11 | 8 |
ami | LDL_slope_6mo | No | 719 | 66 | 515 | 20 | 93 | 7 | 18 |
ami | LDL_slope_6mo | Yes | 232 | 66 | 104 | 20 | 32 | 7 | 3 |
ami | BMI_slope_weight | No | 933 | 86 | 650 | 39 | 124 | 8 | 26 |
ami | BMI_slope_weight | Yes | 321 | 86 | 140 | 39 | 41 | 8 | 7 |
ami | LDL_slope_weight | No | 315 | 26 | 228 | 11 | 38 | 2 | 10 |
ami | LDL_slope_weight | Yes | 98 | 26 | 44 | 11 | 14 | 2 | 1 |
ami | BMI_slope_weight_6mo | No | 746 | 72 | 515 | 31 | 104 | 6 | 18 |
ami | BMI_slope_weight_6mo | Yes | 257 | 72 | 111 | 31 | 33 | 6 | 4 |
ami | LDL_slope_weight_6mo | No | 207 | 21 | 157 | 2 | 22 | 1 | 4 |
ami | LDL_slope_weight_6mo | Yes | 59 | 21 | 29 | 2 | 6 | 1 | 0 |
ami | BMI_change | No | 1403 | 119 | 989 | 45 | 205 | 11 | 34 |
ami | BMI_change | Yes | 462 | 119 | 209 | 45 | 67 | 11 | 11 |
ami | LDL_change | No | 517 | 51 | 372 | 10 | 66 | 5 | 13 |
ami | LDL_change | Yes | 166 | 51 | 78 | 10 | 21 | 5 | 1 |
ami | BMI_change_1mo | No | 386 | 31 | 277 | 13 | 54 | 1 | 10 |
ami | BMI_change_1mo | Yes | 118 | 31 | 53 | 13 | 17 | 1 | 3 |
ami | LDL_change_1mo | No | 186 | 12 | 140 | 3 | 25 | 1 | 5 |
ami | LDL_change_1mo | Yes | 50 | 12 | 28 | 3 | 5 | 1 | 1 |
ami | BMI_change_3mo | No | 1055 | 97 | 737 | 40 | 150 | 9 | 22 |
ami | BMI_change_3mo | Yes | 362 | 97 | 164 | 40 | 47 | 9 | 5 |
ami | LDL_change_3mo | No | 459 | 39 | 331 | 13 | 56 | 5 | 15 |
ami | LDL_change_3mo | Yes | 146 | 39 | 71 | 13 | 17 | 5 | 1 |
ami | BMI_change_6mo | No | 1206 | 110 | 845 | 42 | 171 | 11 | 27 |
ami | BMI_change_6mo | Yes | 417 | 110 | 187 | 42 | 59 | 11 | 8 |
ami | LDL_change_6mo | No | 525 | 49 | 388 | 11 | 59 | 5 | 13 |
ami | LDL_change_6mo | Yes | 166 | 49 | 81 | 11 | 19 | 5 | 1 |
datatable(subgroup_interest)
[1] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_all_CEU_qq.png"
[2] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_all_META_qq.png"
[3] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_all_CEU_manhattan.png"
[4] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_all_META_manhattan.png"
[5] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_sensitivity_all_CEU_qq.png"
[6] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_all_META_qq.png"
[7] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_all_CEU_manhattan.png"
[8] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_all_META_manhattan.png"
[9] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_all_CEU_qq.png"
[10] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_all_META_qq.png"
[11] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_all_CEU_manhattan.png"
[12] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_all_META_manhattan.png"
[13] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_sensitivity_all_CEU_qq.png"
[14] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_all_META_qq.png"
[15] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_all_CEU_manhattan.png"
[16] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_all_META_manhattan.png"
[17] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_6mo_all_CEU_qq.png"
[18] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_6mo_all_META_qq.png"
[19] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_6mo_all_CEU_manhattan.png"
[20] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_6mo_all_META_manhattan.png"
[21] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_6mo_sensitivity_all_CEU_qq.png"
[22] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_6mo_all_META_qq.png"
[23] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_6mo_all_CEU_manhattan.png"
[24] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_6mo_all_META_manhattan.png"
[25] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_6mo_all_CEU_qq.png"
[26] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_6mo_all_META_qq.png"
[27] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_6mo_all_CEU_manhattan.png"
[28] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_6mo_all_META_manhattan.png"
[29] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_6mo_sensitivity_all_CEU_qq.png"
[30] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_6mo_all_META_qq.png"
[31] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_6mo_all_CEU_manhattan.png"
[32] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_6mo_all_META_manhattan.png"
[33] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_all_CEU_qq.png"
[34] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_all_META_qq.png"
[35] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_all_CEU_manhattan.png"
[36] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_all_META_manhattan.png"
[37] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_sensitivity_all_CEU_qq.png"
[38] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_all_META_qq.png"
[39] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_all_CEU_manhattan.png"
[40] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_all_META_manhattan.png"
[41] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_all_CEU_qq.png"
[42] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_all_META_qq.png"
[43] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_all_CEU_manhattan.png"
[44] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_all_META_manhattan.png"
[45] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_sensitivity_all_CEU_qq.png"
[46] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_all_META_qq.png"
[47] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_all_CEU_manhattan.png"
[48] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_all_META_manhattan.png"
[49] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_6mo_all_CEU_qq.png"
[50] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_6mo_all_META_qq.png"
[51] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_6mo_all_CEU_manhattan.png"
[52] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_6mo_all_META_manhattan.png"
[53] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_6mo_sensitivity_all_CEU_qq.png"
[54] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_6mo_all_META_qq.png"
[55] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_6mo_all_CEU_manhattan.png"
[56] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_weight_6mo_all_META_manhattan.png"
[57] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_6mo_all_CEU_qq.png"
[58] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_6mo_all_META_qq.png"
[59] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_6mo_all_CEU_manhattan.png"
[60] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_6mo_all_META_manhattan.png"
[61] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_6mo_sensitivity_all_CEU_qq.png"
[62] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_6mo_all_META_qq.png"
[63] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_6mo_all_CEU_manhattan.png"
[64] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_weight_6mo_all_META_manhattan.png"
[65] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_all_CEU_qq.png"
[66] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_all_META_qq.png"
[67] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_all_CEU_manhattan.png"
[68] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_all_META_manhattan.png"
[69] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_sensitivity_all_CEU_qq.png"
[70] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_all_META_qq.png"
[71] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_all_CEU_manhattan.png"
[72] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_all_META_manhattan.png"
[73] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_all_CEU_qq.png"
[74] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_all_META_qq.png"
[75] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_all_CEU_manhattan.png"
[76] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_all_META_manhattan.png"
[77] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_sensitivity_all_CEU_qq.png"
[78] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_all_META_qq.png"
[79] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_all_CEU_manhattan.png"
[80] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_all_META_manhattan.png"
[81] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_all_CEU_qq.png"
[82] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_all_META_qq.png"
[83] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_all_CEU_manhattan.png"
[84] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_all_META_manhattan.png"
[85] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_sensitivity_all_CEU_qq.png"
[86] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_all_META_qq.png"
[87] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_all_CEU_manhattan.png"
[88] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_all_META_manhattan.png"
[89] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_all_CEU_qq.png"
[90] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_all_META_qq.png"
[91] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_all_CEU_manhattan.png"
[92] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_all_META_manhattan.png"
[93] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_sensitivity_all_CEU_qq.png"
[94] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_all_META_qq.png"
[95] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_all_CEU_manhattan.png"
[96] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_all_META_manhattan.png"
[97] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_all_CEU_qq.png"
[98] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_all_META_qq.png"
[99] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_all_CEU_manhattan.png"
[100] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_all_META_manhattan.png"
[101] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_sensitivity_all_CEU_qq.png"
[102] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_all_META_qq.png"
[103] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_all_CEU_manhattan.png"
[104] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_all_META_manhattan.png"
[105] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_all_CEU_qq.png"
[106] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_all_META_qq.png"
[107] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_all_CEU_manhattan.png"
[108] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_all_META_manhattan.png"
[109] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_sensitivity_all_CEU_qq.png"
[110] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_all_META_qq.png"
[111] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_all_CEU_manhattan.png"
[112] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_all_META_manhattan.png"
[113] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_all_CEU_qq.png"
[114] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_all_META_qq.png"
[115] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_all_CEU_manhattan.png"
[116] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_all_META_manhattan.png"
[117] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_sensitivity_all_CEU_qq.png"
[118] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_all_META_qq.png"
[119] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_all_CEU_manhattan.png"
[120] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_all_META_manhattan.png"
[121] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_all_CEU_qq.png"
[122] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_all_META_qq.png"
[123] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_all_CEU_manhattan.png"
[124] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_all_META_manhattan.png"
[125] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_sensitivity_all_CEU_qq.png"
[126] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_all_META_qq.png"
[127] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_all_CEU_manhattan.png"
[128] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_all_META_manhattan.png"
[129] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_olanz_cloz_CEU_qq.png"
[130] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_olanz_cloz_META_qq.png"
[131] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_olanz_cloz_CEU_manhattan.png"
[132] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_olanz_cloz_META_manhattan.png"
[133] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_sensitivity_olanz_cloz_CEU_qq.png"
[134] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_olanz_cloz_META_qq.png"
[135] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_olanz_cloz_CEU_manhattan.png"
[136] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_slope_olanz_cloz_META_manhattan.png"
[137] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_olanz_cloz_CEU_qq.png"
[138] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_olanz_cloz_META_qq.png"
[139] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_slope_olanz_cloz_CEU_manhattan.png"
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[1094] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_ami_META_qq.png"
[1095] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_ami_CEU_manhattan.png"
[1096] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_ami_META_manhattan.png"
[1097] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_ami_CEU_qq.png"
[1098] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_ami_META_qq.png"
[1099] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_ami_CEU_manhattan.png"
[1100] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_ami_META_manhattan.png"
[1101] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_sensitivity_ami_CEU_qq.png"
[1102] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_ami_META_qq.png"
[1103] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_ami_CEU_manhattan.png"
[1104] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_ami_META_manhattan.png"
[1105] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_ami_CEU_qq.png"
[1106] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_ami_META_qq.png"
[1107] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_ami_CEU_manhattan.png"
[1108] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_ami_META_manhattan.png"
[1109] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_sensitivity_ami_CEU_qq.png"
[1110] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_ami_META_qq.png"
[1111] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_ami_CEU_manhattan.png"
[1112] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_1mo_ami_META_manhattan.png"
[1113] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_ami_CEU_qq.png"
[1114] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_ami_META_qq.png"
[1115] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_ami_CEU_manhattan.png"
[1116] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_ami_META_manhattan.png"
[1117] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_sensitivity_ami_CEU_qq.png"
[1118] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_ami_META_qq.png"
[1119] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_ami_CEU_manhattan.png"
[1120] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_1mo_ami_META_manhattan.png"
[1121] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_ami_CEU_qq.png"
[1122] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_ami_META_qq.png"
[1123] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_ami_CEU_manhattan.png"
[1124] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_ami_META_manhattan.png"
[1125] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_sensitivity_ami_CEU_qq.png"
[1126] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_ami_META_qq.png"
[1127] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_ami_CEU_manhattan.png"
[1128] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_3mo_ami_META_manhattan.png"
[1129] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_ami_CEU_qq.png"
[1130] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_ami_META_qq.png"
[1131] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_ami_CEU_manhattan.png"
[1132] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_ami_META_manhattan.png"
[1133] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_sensitivity_ami_CEU_qq.png"
[1134] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_ami_META_qq.png"
[1135] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_ami_CEU_manhattan.png"
[1136] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_3mo_ami_META_manhattan.png"
[1137] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_ami_CEU_qq.png"
[1138] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_ami_META_qq.png"
[1139] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_ami_CEU_manhattan.png"
[1140] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_ami_META_manhattan.png"
[1141] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_sensitivity_ami_CEU_qq.png"
[1142] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_ami_META_qq.png"
[1143] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_ami_CEU_manhattan.png"
[1144] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_BMI_change_6mo_ami_META_manhattan.png"
[1145] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_ami_CEU_qq.png"
[1146] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_ami_META_qq.png"
[1147] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_ami_CEU_manhattan.png"
[1148] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_ami_META_manhattan.png"
[1149] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_sensitivity_ami_CEU_qq.png"
[1150] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_ami_META_qq.png"
[1151] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_ami_CEU_manhattan.png"
[1152] "../analysis/GWAS/interaction/processed/PSYMETAB_GWAS_LDL_change_6mo_ami_META_manhattan.png"
het_out <-
fread(
paste0("analysis/GWAS/subgroup/", eth, "/", output, "_", suffix,
"_", eth, ".", outcome_var, ".het"),
header = F,
data.table = F
)
sig_list <- which(as.numeric(het_out[, 2]) < 5e-08)
length(sig_list)
colnames(het_out) <- c("ID", "P_HET")
result <- cbind(filter, "P_HET" = het_out$P_HET)
png(
paste0("analysis/GWAS/subgroup/", eth, "/", output, "_", suffix, "_", eth, ".", outcome_var, ".het.manhattan.png"),
width = 2000,
height = 1000,
pointsize = 18
)
manhattan(result, p = "P_HET", chr = "CHROM")
dev.off()
png(
paste0(
"analysis/GWAS/subgroup/", eth, "/", output, "_", suffix, "_", eth, ".", outcome_var, ".het.qq.png"),
width = 2000,
height = 1000,
pointsize = 18
)
qq(result$P_HET)
dev.off()
#### GWAS
sig_nodrug <-nodrug[ which(nodrug$P < 5e-08),]
sig_drug <- drug[which(drug$P < 5e-08),]
for(data in c("nodrug", "drug"))
{
gwas_result <- get(data)
joint <- reduce(list(gwas_result,freq,info), full_join, by = "ID")
sig <- joint %>%
mutate_at("P", as.numeric) %>%
filter(P < 5e-06) %>%
filter(ALT_FREQS > maf_threshold & ALT_FREQS < (1 - maf_threshold)) %>%
filter(R2 > info_threshold)
joint_maf <- joint %>% filter(ALT_FREQS > maf_threshold & ALT_FREQS < (1- maf_threshold))%>% mutate_at("P", as.numeric)
sig <- joint_maf %>% filter(P < gw_sig)
png("man_interaction.png", width=2000, height=1000, pointsize=18)
manhattan(joint_maf)
dev.off()
png("interaction_qq2.png", width=2000, height=1000, pointsize=18)
qq(joint_maf$P)
dev.off()
qq(gwas_result2$P)
# sig_nodrug <- sig
}
gwas_result <- fread(result, data.table=F, stringsAsFactors=F)
gwas_result2 <- gwas_result %>% rename(CHR = "#CHROM") %>% rename(BP = POS) %>% filter(!is.na(P))
#### GWAS
sig_nodrug <-nodrug[ which(nodrug$P < 5e-08),]
sig_drug <- drug[which(drug$P < 5e-08),]
for(data in c("nodrug", "drug"))
{
gwas_result <- get(data)
gwas_munge <- gwas_result %>% rename(CHR = "#CHROM") %>% rename(BP = POS) %>% filter(!is.na(P))
joint <- reduce(list(gwas_munge,freq,info), full_join, by = "ID")
sig <- joint %>%
mutate_at("P", as.numeric) %>%
filter(P < 5e-06) %>%
filter(ALT_FREQS > maf_threshold & ALT_FREQS < (1 - maf_threshold)) %>%
filter(R2 > info_threshold)
# sig_nodrug <- sig
}
sessionInfo()
R version 3.5.3 (2019-03-11)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)
Matrix products: default
BLAS: /data/sgg2/jenny/bin/R-3.5.3/lib64/R/lib/libRblas.so
LAPACK: /data/sgg2/jenny/bin/R-3.5.3/lib64/R/lib/libRlapack.so
locale:
[1] en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] tidyselect_0.2.5 DT_0.11 rbgen_0.1
[4] ukbtools_0.11.3 hrbrthemes_0.8.0 OpenImageR_1.1.6
[7] fuzzyjoin_0.1.5 kableExtra_1.1.0 R.utils_2.9.2
[10] R.oo_1.23.0 R.methodsS3_1.7.1 TwoSampleMR_0.4.25
[13] reader_1.0.6 NCmisc_1.1.6 optparse_1.6.4
[16] readxl_1.3.1 ggthemes_4.2.0 tryCatchLog_1.1.6
[19] futile.logger_1.4.3 DataExplorer_0.8.0 taRifx_1.0.6.1
[22] qqman_0.1.4 MASS_7.3-51.5 bit64_0.9-7
[25] bit_1.1-14 rslurm_0.5.0 rmeta_3.0
[28] devtools_2.2.1 usethis_1.5.1 data.table_1.12.8
[31] clustermq_0.8.8.1 future.batchtools_0.8.1 future_1.15.1
[34] rlang_0.4.5 knitr_1.26 drake_7.12.0.9000
[37] forcats_0.4.0 stringr_1.4.0 dplyr_0.8.3
[40] purrr_0.3.3 readr_1.3.1 tidyr_1.0.3
[43] tibble_2.1.3 ggplot2_3.3.2 tidyverse_1.3.0
[46] pacman_0.5.1 processx_3.4.1 workflowr_1.6.0
loaded via a namespace (and not attached):
[1] backports_1.1.6 systemfonts_0.2.3 plyr_1.8.5
[4] igraph_1.2.5 storr_1.2.1 crosstalk_1.0.0
[7] listenv_0.8.0 digest_0.6.25 foreach_1.4.7
[10] htmltools_0.4.0 tiff_0.1-5 fansi_0.4.1
[13] magrittr_1.5 checkmate_1.9.4 memoise_1.1.0
[16] base64url_1.4 doParallel_1.0.15 remotes_2.1.0
[19] globals_0.12.5 extrafont_0.17 modelr_0.1.5
[22] extrafontdb_1.0 prettyunits_1.1.0 jpeg_0.1-8.1
[25] colorspace_1.4-1 rvest_0.3.5 rappdirs_0.3.1
[28] haven_2.2.0 xfun_0.11 callr_3.4.0
[31] crayon_1.3.4 jsonlite_1.6 iterators_1.0.12
[34] brew_1.0-6 glue_1.4.0 gtable_0.3.0
[37] webshot_0.5.2 pkgbuild_1.0.6 Rttf2pt1_1.3.8
[40] scales_1.1.0 futile.options_1.0.1 DBI_1.1.0
[43] Rcpp_1.0.3 xtable_1.8-4 viridisLite_0.3.0
[46] progress_1.2.2 txtq_0.2.0 htmlwidgets_1.5.1
[49] httr_1.4.1 getopt_1.20.3 calibrate_1.7.5
[52] ellipsis_0.3.0 XML_3.98-1.20 pkgconfig_2.0.3
[55] dbplyr_1.4.2 reshape2_1.4.3 later_1.0.0
[58] munsell_0.5.0 cellranger_1.1.0 tools_3.5.3
[61] cli_2.0.1 generics_0.0.2 broom_0.5.3
[64] fastmap_1.0.1 evaluate_0.14 yaml_2.2.0
[67] fs_1.3.1 packrat_0.5.0 nlme_3.1-143
[70] mime_0.8 whisker_0.4 formatR_1.7
[73] proftools_0.99-2 xml2_1.2.2 compiler_3.5.3
[76] rstudioapi_0.10 png_0.1-7 filelock_1.0.2
[79] testthat_2.3.1 reprex_0.3.0 stringi_1.4.5
[82] highr_0.8 ps_1.3.0 desc_1.2.0
[85] gdtools_0.2.2 lattice_0.20-38 vctrs_0.2.4
[88] pillar_1.4.3 lifecycle_0.1.0 networkD3_0.4
[91] httpuv_1.5.2 R6_2.4.1 promises_1.1.0
[94] gridExtra_2.3 sessioninfo_1.1.1 codetools_0.2-16
[97] lambda.r_1.2.4 assertthat_0.2.1 pkgload_1.0.2
[100] rprojroot_1.3-2 withr_2.1.2 batchtools_0.9.12
[103] parallel_3.5.3 hms_0.5.3 grid_3.5.3
[106] rmarkdown_1.18 git2r_0.26.1 shiny_1.4.0
[109] lubridate_1.7.4