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Output - WEseq data (OncoPrint)
Gene list:
IDH1 IDH2 CIC NOTCH1 FUBP1 TP53 PTEN ATRX
Subtype:
Primary LGG
Plot
Clinical data
Mutation data
R code
CGGA_ID Subtype Histology Grade Gender Age OS Censor Radio_status Chemo_status CGGA_528 Primary LGG A WHO II Female 51 2424 1 1 0 CGGA_579 Primary LGG O WHO II Female 42 2125 1 1 0 CGGA_653 Primary LGG OA WHO II Male 33 3605 0 1 0 CGGA_715 Primary LGG O WHO II Male 43 3429 0 1 0 CGGA_723 Primary LGG AOA WHO III Female 25 4151 0 0 1 CGGA_726 Primary LGG A WHO II Female 38 2942 1 1 0 CGGA_755 Primary LGG OA WHO II Male 45 4116 0 1 1 CGGA_762 Primary LGG O WHO II Female 40 4105 0 1 0 CGGA_785 Primary LGG O WHO II Male 43 3517 1 1 0 CGGA_835 Primary LGG O WHO II Male 31 517 0 1 NA CGGA_836 Primary LGG OA WHO II Female 26 4012 0 1 0 CGGA_858 Primary LGG O WHO II Male 42 3984 0 1 0 CGGA_864 Primary LGG O WHO II Male 34 3977 0 0 0 CGGA_871 Primary LGG O WHO II Male 37 3964 0 1 0 CGGA_890 Primary LGG AA WHO III Male 39 2982 1 1 0 CGGA_892 Primary LGG O WHO II Male 34 448 0 1 NA CGGA_893 Primary LGG A WHO II Female 36 3160 1 1 0 CGGA_1217 Primary LGG AA WHO III Male 47 3028 0 0 1 CGGA_1222 Primary GBM GBM WHO IV Male 54 339 1 1 0 CGGA_1226 Primary LGG A WHO II Female 33 670 1 1 1 CGGA_1227 Recurrent GBM rGBM WHO IV Female 46 1197 1 1 1 CGGA_1231 Recurrent LGG rAA WHO III Female 31 2279 1 1 1 CGGA_1232 Primary LGG AA WHO III Male 39 2067 1 1 1 CGGA_1237 Primary GBM GBM WHO IV Male 62 296 1 1 1 CGGA_1242 Primary LGG A WHO II Female 47 2997 0 1 1 CGGA_1244 Recurrent GBM rGBM WHO IV Male 42 276 1 0 1 CGGA_1250 Primary LGG AOA WHO III Male 51 2070 0 1 1 CGGA_1251 Primary GBM GBM WHO IV Female 42 272 1 1 1 CGGA_1254 Recurrent GBM rGBM WHO IV Female 20 459 1 0 1 CGGA_1255 Recurrent GBM rGBM WHO IV Male 49 118 1 1 1 CGGA_1256 Primary GBM GBM WHO IV Female 52 2557 0 1 1 CGGA_1257 Recurrent GBM rGBM WHO IV Male 59 192 1 1 1 CGGA_1259 Primary LGG A WHO II Female 43 2937 0 1 1 CGGA_1260 Recurrent GBM rGBM WHO IV Male 32 177 1 1 1 CGGA_1261 Primary GBM GBM WHO IV Male 41 159 1 1 1 CGGA_1263 Primary LGG AA WHO III Male 50 772 1 1 0 CGGA_1266 Recurrent GBM rGBM WHO IV Male 22 1101 1 1 1 CGGA_1274 Recurrent GBM rGBM WHO IV Female 41 730 1 1 1 CGGA_1277 Primary GBM GBM WHO IV Female 33 101 1 1 1 CGGA_1279 Primary GBM GBM WHO IV Male 56 513 1 1 1 CGGA_1282 Primary GBM GBM WHO IV Female 33 1116 1 1 1 CGGA_1287 Primary GBM GBM WHO IV Male 29 533 1 1 1 CGGA_1288 Primary GBM GBM WHO IV Male 35 2422 0 1 1 CGGA_1294 Recurrent LGG rAA WHO III Male 45 1285 1 1 1 CGGA_1295 Recurrent LGG rAA WHO III Male 40 310 1 1 1 CGGA_1303 Primary LGG AOA WHO III Female 45 2861 0 1 1 CGGA_1305 Primary LGG AA WHO III Male 43 2702 1 1 1 CGGA_1306 Recurrent LGG rA WHO II Male 48 781 1 1 1 CGGA_1307 Primary LGG AA WHO III Female 25 965 0 1 1 CGGA_1314 Primary GBM GBM WHO IV Female 27 172 1 0 0 CGGA_1317 Primary LGG OA WHO II Male 45 2864 0 0 0 CGGA_1318 Primary LGG A WHO II Male 39 1497 0 1 0 CGGA_1322 Primary LGG AA WHO III Male 10 253 1 1 1 CGGA_1325 Recurrent GBM rGBM WHO IV Male 20 NA NA 0 0 CGGA_1328 Primary GBM GBM WHO IV Female 48 2852 0 1 1 CGGA_1329 Recurrent LGG rAA WHO III Female 43 326 1 1 1 CGGA_1330 Primary LGG A WHO II Male 47 2846 0 1 1 CGGA_1338 Primary GBM GBM WHO IV Female 61 1122 1 1 1 CGGA_1339 Primary LGG O WHO II Male 41 2832 0 0 1 CGGA_1340 Primary LGG AA WHO III Male 35 1109 1 1 1 CGGA_1343 Recurrent GBM rGBM WHO IV Male 34 94 1 1 1 CGGA_1350 Primary LGG O WHO II Male 36 2819 0 0 0 CGGA_1351 Recurrent LGG rAA WHO III Female 22 NA NA 1 1 CGGA_1358 Primary LGG AA WHO III Female 33 2809 0 0 0 CGGA_1361 Primary LGG O WHO II Male 40 2804 0 1 1 CGGA_1362 Primary LGG AA WHO III Female 64 2804 0 1 1 CGGA_1364 Primary LGG AOA WHO III Female 45 1530 1 1 1 CGGA_1365 Primary GBM GBM WHO IV Male 55 253 1 1 1 CGGA_1368 Primary LGG O WHO II Male 49 2797 0 1 0 CGGA_1373 Primary LGG A WHO II Female 34 2787 0 1 0 CGGA_1374 Recurrent LGG rAA WHO III Male 22 141 1 1 0 CGGA_1377 Primary LGG AA WHO III Male 28 2780 0 1 1 CGGA_1378 Primary GBM GBM WHO IV Male 47 378 1 1 1 CGGA_1381 Recurrent GBM rGBM WHO IV Female 36 46 1 1 1 CGGA_1382 Primary GBM GBM WHO IV Male 57 284 1 1 1 CGGA_1383 Recurrent LGG rAA WHO III Female 47 884 0 1 0 CGGA_1384 Primary GBM GBM WHO IV Female 39 191 1 1 1 CGGA_1388 Recurrent LGG rAA WHO III Male 37 485 1 1 1 CGGA_1394 Recurrent GBM rGBM WHO IV Male 37 139 1 1 1 CGGA_1406 Primary LGG A WHO II Male 34 2154 1 1 1 CGGA_1408 Primary LGG AA WHO III Female 64 1362 1 1 1 CGGA_1409 Primary GBM GBM WHO IV Female 24 2727 0 0 1 CGGA_1411 Recurrent LGG rAA WHO III Female 40 329 1 1 1 CGGA_1413 Primary LGG AO WHO III Male 35 2720 0 1 1 CGGA_1415 Recurrent GBM rGBM WHO IV Female 30 2719 0 1 1 CGGA_1417 Primary LGG AO WHO III Male 56 2713 0 1 1 CGGA_1418 Primary GBM GBM WHO IV Female 73 287 1 1 1 CGGA_1422 Primary GBM GBM WHO IV Male 76 204 1 1 1 CGGA_1424 Primary LGG AO WHO III Female 41 2692 0 1 1 CGGA_1429 Recurrent GBM rGBM WHO IV Female 40 2685 0 1 1 CGGA_1445 Recurrent LGG rAA WHO III Male 37 2664 0 0 1 CGGA_1446 Primary LGG OA WHO II Male 29 2664 0 0 1 CGGA_1455 Primary LGG O WHO II Male 40 2655 0 0 0 CGGA_1463 Primary LGG O WHO II Female 69 2633 0 1 0 CGGA_1467 Primary GBM GBM WHO IV Male 58 866 1 1 0 CGGA_1474 Primary LGG AO WHO III Female 50 333 0 1 1 CGGA_1481 Primary GBM GBM WHO IV Male 55 131 1 0 0 CGGA_1486 Primary GBM GBM WHO IV Male 45 184 1 1 1 CGGA_1494 Primary GBM GBM WHO IV Male 21 269 1 1 1 CGGA_1497 Primary LGG AA WHO III Female 24 1178 1 1 1 CGGA_1498 Primary GBM GBM WHO IV Male 69 NA NA NA NA CGGA_1503 Primary GBM GBM WHO IV Male 47 777 1 1 1 CGGA_1514 Primary LGG A WHO II Female 57 76 1 0 0 CGGA_1521 Primary GBM GBM WHO IV Female 63 205 1 1 1 CGGA_1592 Recurrent LGG rAO WHO III Male 37 1588 1 1 1 CGGA_1635 Primary GBM GBM WHO IV Female 43 332 1 1 1 CGGA_1639 Primary LGG A WHO II Male 61 2266 0 1 0 CGGA_1645 Primary LGG AA WHO III Male 59 1996 0 1 1 CGGA_1650 Primary GBM GBM WHO IV Male 36 1283 1 1 1 CGGA_1656 Recurrent GBM rGBM WHO IV Male 56 149 1 0 1 CGGA_1667 Primary LGG AO WHO III Female 40 2180 0 1 1 CGGA_1699 Primary GBM GBM WHO IV Female 41 2088 0 0 1 CGGA_1720 Primary LGG A WHO II Male 35 1994 0 1 1 CGGA_1722 Primary GBM GBM WHO IV Female 60 349 1 1 1 CGGA_1780 Primary GBM GBM WHO IV Female 57 1826 0 0 1 CGGA_1807 Primary GBM GBM WHO IV Female 65 247 1 NA NA CGGA_1809 Primary LGG AO WHO III Male 27 343 1 1 1 CGGA_1812 Primary GBM GBM WHO IV Male 65 780 1 NA NA CGGA_1814 Recurrent GBM rGBM WHO IV Female 46 221 1 1 1 CGGA_1826 Primary GBM GBM WHO IV Female 70 44 1 0 0 CGGA_1829 Primary LGG A WHO II Male 23 801 0 0 0 CGGA_1833 Primary GBM GBM WHO IV Female 60 494 1 1 1 CGGA_1840 Primary GBM GBM WHO IV Female 58 1179 0 1 1 CGGA_1850 Primary LGG A WHO II Male 29 750 0 0 1 CGGA_1862 Primary LGG AA WHO III Male 40 110 1 1 1 CGGA_1901 Primary GBM GBM WHO IV Male 60 540 1 1 1 CGGA_1906 Recurrent LGG rAA WHO III Male 57 1054 1 0 1 CGGA_1972 Recurrent GBM rGBM WHO IV Male 47 1291 0 1 1 CGGA_1985 Recurrent GBM rGBM WHO IV Male 41 380 1 NA NA CGGA_1994 Recurrent LGG rAO WHO III Female 32 1237 0 1 1 CGGA_2002 Recurrent LGG rA WHO II Male 40 572 1 1 1 CGGA_2003 Recurrent GBM rGBM WHO IV Male 40 780 1 1 1 CGGA_2006 Recurrent LGG rAA WHO III Male 43 626 1 1 1 CGGA_2008 Recurrent GBM rGBM WHO IV Male 56 44 1 1 NA CGGA_2013 Recurrent LGG rA WHO II Male 41 139 1 1 NA CGGA_2024 Recurrent GBM rGBM WHO IV Female 19 328 1 1 NA CGGA_2038 Recurrent GBM rGBM WHO IV Male 44 NA 1 1 1 CGGA_2046 Recurrent LGG rAA WHO III Male 46 251 1 1 1 CGGA_2047 Recurrent GBM rGBM WHO IV Female 64 598 1 1 1 CGGA_2053 Recurrent GBM rGBM WHO IV Male 55 1031 0 1 1 CGGA_2062 Recurrent GBM rGBM WHO IV Female 63 41 1 1 1 CGGA_2075 Recurrent GBM rGBM WHO IV Male 63 266 1 1 1 CGGA_2088 Recurrent GBM rGBM WHO IV Female 30 NA NA 1 1 CGGA_2099 Recurrent GBM rGBM WHO IV Female 40 929 0 0 1 CGGA_2106 Recurrent GBM rGBM WHO IV Female 39 892 0 1 1 CGGA_2115 Recurrent GBM rGBM WHO IV Female 31 171 1 1 1 CGGA_2129 Recurrent LGG rAA WHO III Male 48 828 0 1 0 CGGA_D12 Primary LGG A WHO II Female 28 NA NA 1 0 CGGA_D14 Recurrent LGG rAA WHO III Male 27 NA NA NA NA CGGA_D20 Primary LGG A WHO II Female 40 2367 1 0 0 CGGA_D21 Primary LGG AA WHO III Female 37 1208 1 1 0 CGGA_D22 Primary LGG OA WHO II Male 24 1082 1 1 0 CGGA_D24 Primary LGG AA WHO III Female 37 837 1 1 0 CGGA_D25 Primary LGG AA WHO III Male 44 NA NA NA NA CGGA_D27 Recurrent LGG rAO WHO III Male 33 3650 0 1 1 CGGA_D28 Primary LGG AA WHO III Male 25 860 1 1 0 CGGA_D31 Primary LGG A WHO II Male 28 NA NA NA NA CGGA_D33 Recurrent LGG rAA WHO III Male 38 116 1 0 0 CGGA_D39 Recurrent LGG rA WHO II Female 27 NA NA NA NA CGGA_D45 Recurrent LGG rAA WHO III Male 32 856 0 1 1 CGGA_D46 Recurrent LGG rAA WHO III Female 36 300 1 0 1 CGGA_D47 Primary LGG O WHO II Male 36 1048 1 1 1 CGGA_D48 Recurrent LGG rAA WHO III Female 23 221 1 1 1 CGGA_D50 Recurrent LGG rO WHO II Male 30 782 1 0 0 CGGA_D51 Recurrent GBM rGBM WHO IV Female 60 135 1 0 0 CGGA_J100 Recurrent GBM rGBM WHO IV Male 55 NA NA NA NA CGGA_J105 Primary GBM GBM WHO IV Male 30 3190 0 1 1 CGGA_J112 Primary LGG OA WHO II Male 25 2762 0 1 1 CGGA_J114 Primary LGG AA WHO III Male 38 3172 0 1 1 CGGA_J127 Primary LGG AOA WHO III Male 35 872 1 1 0 CGGA_J130 Recurrent LGG rA WHO II Male 40 3116 0 1 1 CGGA_J18 Primary GBM GBM WHO IV Female 38 369 1 1 0 CGGA_J24 Recurrent LGG rA WHO II Female 29 3410 0 0 0 CGGA_J26 Primary LGG AOA WHO III Female 42 1966 0 1 1 CGGA_J30 Primary LGG OA WHO II Male 38 3389 0 1 0 CGGA_J35 Primary GBM GBM WHO IV Male 53 2767 0 1 1 CGGA_J36 Primary GBM GBM WHO IV Male 54 873 1 1 0 CGGA_J41 Primary LGG A WHO II Male 44 3367 0 1 0 CGGA_J42 Recurrent LGG rA WHO II Male 38 1409 1 0 0 CGGA_J43 Primary LGG A WHO II Male 26 3361 0 1 0 CGGA_J47 Primary LGG AA WHO III Female 48 3351 0 1 1 CGGA_J8 Primary LGG A WHO II Male 45 271 1 1 1 CGGA_P100 Primary GBM GBM WHO IV Male 67 268 1 NA NA CGGA_P102 Primary GBM GBM WHO IV Male 30 1269 1 1 1 CGGA_P103 Primary LGG O WHO II Male 34 1651 0 1 0 CGGA_P104 Recurrent LGG rAOA WHO III Female 36 167 1 1 1 CGGA_P107 Primary LGG A WHO II Male 26 NA NA NA NA CGGA_P108 Primary LGG AA WHO III Female 30 1644 0 1 1 CGGA_P110 Primary LGG AO WHO III Female 56 800 1 1 1 CGGA_P111 Primary LGG O WHO II Female 44 1638 0 0 0 CGGA_P112 Primary GBM GBM WHO IV Male 65 834 1 1 1 CGGA_P113 Primary LGG A WHO II Male 32 1708 0 1 0 CGGA_P114 Primary LGG O WHO II Male 32 NA 1 1 NA CGGA_P115 Primary LGG A WHO II Male 25 1626 0 1 0 CGGA_P116 Primary GBM GBM WHO IV Male 58 305 1 1 NA CGGA_P117 Primary LGG AA WHO III Male 24 NA NA NA NA CGGA_P118 Primary LGG OA WHO II Female 43 1622 0 1 0 CGGA_P121 Primary LGG A WHO II Male 39 1608 0 1 0 CGGA_P122 Recurrent LGG rO WHO II Male 43 1638 0 1 0 CGGA_P128 Primary LGG A WHO II Male 41 1586 0 1 0 CGGA_P131 Primary LGG AO WHO III Female 45 1596 0 1 1 CGGA_P132 Primary LGG O WHO II Male 42 1603 0 1 0 CGGA_P137 Primary LGG A WHO II Male 42 1526 0 0 0 CGGA_P142 Primary LGG AO WHO III Male 45 1558 0 1 1 CGGA_P143 Primary GBM GBM WHO IV Female 66 261 1 1 1 CGGA_P144 Primary LGG AA WHO III Male 44 1559 0 1 1 CGGA_P147 Primary LGG A WHO II Male 52 863 1 1 0 CGGA_P150 Primary LGG A WHO II Male 34 NA 0 1 0 CGGA_P151 Primary LGG A WHO II Female 46 1582 0 1 1 CGGA_P153 Primary LGG A WHO II Male 45 1484 0 1 1 CGGA_P155 Primary LGG A WHO II Male 50 1483 0 1 1 CGGA_P156 Primary LGG O WHO II Male 30 1488 0 0 0 CGGA_P157 Primary LGG AA WHO III Female 55 470 1 1 1 CGGA_P158 Primary LGG OA WHO II Male 27 1510 0 1 1 CGGA_P159 Primary LGG AA WHO III Male 59 211 1 0 0 CGGA_P160 Primary GBM GBM WHO IV Female 72 219 1 1 1 CGGA_P163 Recurrent LGG rAO WHO III Female 45 855 1 1 1 CGGA_P164 Primary GBM GBM WHO IV Male 27 1553 0 1 1 CGGA_P165 Primary LGG AOA WHO III Female 51 598 1 1 1 CGGA_P167 Primary LGG AOA WHO III Male 59 1540 0 1 0 CGGA_P172 Primary LGG AA WHO III Male 33 1049 1 1 1 CGGA_P173 Primary LGG A WHO II Male 31 1448 0 1 0 CGGA_P174 Primary LGG O WHO II Male 31 1482 0 1 1 CGGA_P175 Recurrent GBM rGBM WHO IV Male 45 183 1 1 1 CGGA_P176 Primary LGG O WHO II Female 32 804 0 1 0 CGGA_P177 Primary LGG A WHO II Male 43 1442 0 1 1 CGGA_P178 Primary GBM GBM WHO IV Female 52 1442 0 1 1 CGGA_P179 Primary LGG A WHO II Female 53 1454 0 1 1 CGGA_P180 Primary GBM GBM WHO IV Male 47 260 1 1 1 CGGA_P181 Primary LGG AA WHO III Female 21 238 1 NA NA CGGA_P182 Recurrent GBM rGBM WHO IV Female 58 1512 0 1 1 CGGA_P183 Primary LGG AO WHO III Male 58 1512 0 1 1 CGGA_P185 Recurrent LGG rAA WHO III Female 41 502 1 1 1 CGGA_P197 Primary LGG A WHO II Male 37 1414 0 1 0 CGGA_P198 Recurrent LGG rA WHO II Female 46 1414 0 1 1 CGGA_P205 Primary GBM GBM WHO IV Male 66 583 1 1 1 CGGA_P265 Primary LGG AA WHO III Male 36 779 1 1 1 CGGA_P266 Primary LGG AA WHO III Female 28 253 1 1 1 CGGA_P270 Recurrent LGG rA WHO II Male 33 NA 1 1 1 CGGA_P271 Primary LGG A WHO II Male 42 1376 0 1 0 CGGA_P335 Recurrent GBM rGBM WHO IV Male 42 1203 0 1 1 CGGA_P337 Recurrent LGG rAO WHO III Female 61 689 1 1 1 CGGA_P388 Recurrent LGG rAA WHO III Female 37 293 1 1 1 CGGA_P392 Recurrent LGG rA WHO II Male 35 1099 0 1 1 CGGA_P401 Recurrent GBM rGBM WHO IV Male 31 788 1 1 NA CGGA_P411 Recurrent GBM rGBM WHO IV Female 47 440 1 1 1 CGGA_P415 Recurrent GBM rGBM WHO IV Female 56 195 1 1 1 CGGA_P416 Recurrent LGG rAO WHO III Male 29 1069 0 1 1 CGGA_P421 Recurrent LGG rAA WHO III Male 26 308 1 1 1 CGGA_P422 Primary LGG O WHO II Female 41 1091 0 1 0 CGGA_P437 Primary LGG AO WHO III Female 47 1023 0 0 1 CGGA_P438 Recurrent LGG rAO WHO III Male 41 1023 0 1 1 CGGA_P439 Recurrent LGG rA WHO II Male 45 1022 0 1 1 CGGA_P446 Recurrent LGG rAO WHO III Female 47 1009 0 1 1 CGGA_P461 Recurrent LGG rAA WHO III Male 28 599 1 1 1 CGGA_P468 Primary LGG AO WHO III Female 42 974 0 1 1 CGGA_P483 Recurrent LGG rAA WHO III Male 41 299 1 1 1 CGGA_P492 Recurrent LGG rO WHO II Female 44 938 0 0 1 CGGA_P499 Recurrent GBM rGBM WHO IV Female 69 NA NA 1 NA CGGA_P500 Recurrent LGG rO WHO II Female 34 930 0 1 0 CGGA_P501 Recurrent LGG rA WHO II Male 27 926 0 1 1 CGGA_P505 Recurrent LGG rA WHO II Male 34 924 0 1 0 CGGA_P508 Recurrent LGG rAA WHO III Male 40 377 1 1 1 CGGA_P510 Recurrent LGG rAO WHO III Male 42 912 0 1 1 CGGA_P512 Recurrent GBM rGBM WHO IV Male 23 541 1 1 1 CGGA_P520 Recurrent LGG rAO WHO III Female 44 884 0 1 1 CGGA_P568 Recurrent LGG rAO WHO III Female 23 218 1 1 1 CGGA_P585 Recurrent GBM rGBM WHO IV Male 50 344 1 1 1 CGGA_P594 Recurrent LGG rAA WHO III Male 40 84 1 1 1 CGGA_P596 Recurrent GBM rGBM WHO IV Female 60 777 0 1 1 CGGA_P604 Recurrent LGG rAA WHO III Female 15 262 1 1 1 CGGA_P609 Primary GBM GBM WHO IV Female 19 726 0 1 1 CGGA_P610 Recurrent GBM rGBM WHO IV Male 62 345 1 1 1 CGGA_P615 Recurrent LGG rO WHO II Male 40 NA NA NA NA CGGA_P619 Recurrent GBM rGBM WHO IV Female 66 236 1 1 1 CGGA_P623 Primary LGG AA WHO III Male 52 NA NA NA NA CGGA_P625 Recurrent GBM rGBM WHO IV Female 46 161 1 NA NA CGGA_P633 Recurrent LGG rAA WHO III Female 40 676 0 1 1 CGGA_P83 Primary LGG A WHO II Female 28 1698 0 1 1 CGGA_P84 Primary LGG A WHO II Female 40 1694 0 1 0 CGGA_P86 Primary LGG O WHO II Female 34 1694 0 1 0 CGGA_P87 Recurrent GBM rGBM WHO IV Male 32 240 1 1 1 CGGA_P89 Recurrent GBM rGBM WHO IV Male 42 294 1 1 1 CGGA_P90 Primary GBM GBM WHO IV Female 52 861 1 1 1 CGGA_P95 Primary LGG A WHO II Female 44 NA 0 0 0 CGGA_P99 Recurrent GBM rGBM WHO IV Male 52 679 0 1 1
Gene_Name CGGA_528 CGGA_579 CGGA_653 CGGA_715 CGGA_723 CGGA_726 CGGA_755 CGGA_762 CGGA_785 CGGA_835 CGGA_836 CGGA_858 CGGA_864 CGGA_871 CGGA_890 CGGA_892 CGGA_893 CGGA_1217 CGGA_1222 CGGA_1226 CGGA_1227 CGGA_1231 CGGA_1232 CGGA_1237 CGGA_1242 CGGA_1244 CGGA_1250 CGGA_1251 CGGA_1254 CGGA_1255 CGGA_1256 CGGA_1257 CGGA_1259 CGGA_1260 CGGA_1261 CGGA_1263 CGGA_1266 CGGA_1274 CGGA_1277 CGGA_1279 CGGA_1282 CGGA_1287 CGGA_1288 CGGA_1294 CGGA_1295 CGGA_1303 CGGA_1305 CGGA_1306 CGGA_1307 CGGA_1314 CGGA_1317 CGGA_1318 CGGA_1322 CGGA_1325 CGGA_1328 CGGA_1329 CGGA_1330 CGGA_1338 CGGA_1339 CGGA_1340 CGGA_1343 CGGA_1350 CGGA_1351 CGGA_1358 CGGA_1361 CGGA_1362 CGGA_1364 CGGA_1365 CGGA_1368 CGGA_1373 CGGA_1374 CGGA_1377 CGGA_1378 CGGA_1381 CGGA_1382 CGGA_1383 CGGA_1384 CGGA_1388 CGGA_1394 CGGA_1406 CGGA_1408 CGGA_1409 CGGA_1411 CGGA_1413 CGGA_1415 CGGA_1417 CGGA_1418 CGGA_1422 CGGA_1424 CGGA_1429 CGGA_1445 CGGA_1446 CGGA_1455 CGGA_1463 CGGA_1467 CGGA_1474 CGGA_1481 CGGA_1486 CGGA_1494 CGGA_1497 CGGA_1498 CGGA_1503 CGGA_1514 CGGA_1521 CGGA_1592 CGGA_1635 CGGA_1639 CGGA_1645 CGGA_1650 CGGA_1656 CGGA_1667 CGGA_1699 CGGA_1720 CGGA_1722 CGGA_1780 CGGA_1807 CGGA_1809 CGGA_1812 CGGA_1814 CGGA_1826 CGGA_1829 CGGA_1833 CGGA_1840 CGGA_1850 CGGA_1862 CGGA_1901 CGGA_1906 CGGA_1972 CGGA_1985 CGGA_1994 CGGA_2002 CGGA_2003 CGGA_2006 CGGA_2008 CGGA_2013 CGGA_2024 CGGA_2038 CGGA_2046 CGGA_2047 CGGA_2053 CGGA_2062 CGGA_2075 CGGA_2088 CGGA_2099 CGGA_2106 CGGA_2115 CGGA_2129 CGGA_D12 CGGA_D14 CGGA_D20 CGGA_D21 CGGA_D22 CGGA_D24 CGGA_D25 CGGA_D27 CGGA_D28 CGGA_D31 CGGA_D33 CGGA_D39 CGGA_D45 CGGA_D46 CGGA_D47 CGGA_D48 CGGA_D50 CGGA_D51 CGGA_J100 CGGA_J105 CGGA_J112 CGGA_J114 CGGA_J127 CGGA_J130 CGGA_J18 CGGA_J24 CGGA_J26 CGGA_J30 CGGA_J35 CGGA_J36 CGGA_J41 CGGA_J42 CGGA_J43 CGGA_J47 CGGA_J8 CGGA_P100 CGGA_P102 CGGA_P103 CGGA_P104 CGGA_P107 CGGA_P108 CGGA_P110 CGGA_P111 CGGA_P112 CGGA_P113 CGGA_P114 CGGA_P115 CGGA_P116 CGGA_P117 CGGA_P118 CGGA_P121 CGGA_P122 CGGA_P128 CGGA_P131 CGGA_P132 CGGA_P137 CGGA_P142 CGGA_P143 CGGA_P144 CGGA_P147 CGGA_P150 CGGA_P151 CGGA_P153 CGGA_P155 CGGA_P156 CGGA_P157 CGGA_P158 CGGA_P159 CGGA_P160 CGGA_P163 CGGA_P164 CGGA_P165 CGGA_P167 CGGA_P172 CGGA_P173 CGGA_P174 CGGA_P175 CGGA_P176 CGGA_P177 CGGA_P178 CGGA_P179 CGGA_P180 CGGA_P181 CGGA_P182 CGGA_P183 CGGA_P185 CGGA_P197 CGGA_P198 CGGA_P205 CGGA_P265 CGGA_P266 CGGA_P270 CGGA_P271 CGGA_P335 CGGA_P337 CGGA_P388 CGGA_P392 CGGA_P401 CGGA_P411 CGGA_P415 CGGA_P416 CGGA_P421 CGGA_P422 CGGA_P437 CGGA_P438 CGGA_P439 CGGA_P446 CGGA_P461 CGGA_P468 CGGA_P483 CGGA_P492 CGGA_P499 CGGA_P500 CGGA_P501 CGGA_P505 CGGA_P508 CGGA_P510 CGGA_P512 CGGA_P520 CGGA_P568 CGGA_P585 CGGA_P594 CGGA_P596 CGGA_P604 CGGA_P609 CGGA_P610 CGGA_P615 CGGA_P619 CGGA_P623 CGGA_P625 CGGA_P633 CGGA_P83 CGGA_P84 CGGA_P86 CGGA_P87 CGGA_P89 CGGA_P90 CGGA_P95 CGGA_P99 ATRX frameshift_variant stop_gained stop_gained frameshift_variant stop_gained frameshift_variant missense_variant stop_gained frameshift_variant missense_variant frameshift_variant stop_gained frameshift_variant frameshift_variant frameshift_variant frameshift_variant frameshift_variant multiple_variant missense_variant missense_variant stop_gained missense_variant stop_gained multiple_variant missense_variant multiple_variant stop_gained missense_variant stop_gained frameshift_variant frameshift_variant frameshift_variant frameshift_variant frameshift_variant missense_variant frameshift_variant stop_gained missense_variant frameshift_variant missense_variant frameshift_variant frameshift_variant frameshift_variant frameshift_variant frameshift_variant frameshift_variant frameshift_variant frameshift_variant frameshift_variant frameshift_variant stop_gained frameshift_variant frameshift_variant stop_gained frameshift_variant missense_variant frameshift_variant frameshift_variant stop_gained missense_variant stop_gained frameshift_variant frameshift_variant missense_variant multiple_variant multiple_variant frameshift_variant frameshift_variant frameshift_variant missense_variant frameshift_variant frameshift_variant stop_gained multiple_variant frameshift_variant frameshift_variant frameshift_variant missense_variant stop_gained multiple_variant frameshift_variant missense_variant frameshift_variant missense_variant frameshift_variant CIC missense_variant missense_variant multiple_variant missense_variant frameshift_variant missense_variant stop_gained frameshift_variant frameshift_variant frameshift_variant missense_variant missense_variant missense_variant frameshift_variant missense_variant missense_variant missense_variant stop_gained stop_gained inframe_deletion stop_gained missense_variant inframe_deletion missense_variant multiple_variant multiple_variant inframe_deletion missense_variant missense_variant multiple_variant frameshift_variant missense_variant missense_variant frameshift_variant missense_variant frameshift_variant frameshift_variant frameshift_variant multiple_variant missense_variant frameshift_variant FUBP1 missense_variant frameshift_variant frameshift_variant multiple_variant multiple_variant frameshift_variant frameshift_variant frameshift_variant frameshift_variant missense_variant multiple_variant stop_gained IDH1 missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant synonymous_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant IDH2 missense_variant missense_variant missense_variant missense_variant missense_variant NOTCH1 missense_variant missense_variant multiple_variant missense_variant multiple_variant disruptive_inframe_deletion frameshift_variant stop_gained missense_variant missense_variant multiple_variant multiple_variant disruptive_inframe_deletion frameshift_variant multiple_variant missense_variant disruptive_inframe_deletion multiple_variant frameshift_variant multiple_variant inframe_deletion missense_variant multiple_variant missense_variant PTEN missense_variant frameshift_variant stop_gained stop_gained missense_variant stop_gained frameshift_variant missense_variant multiple_variant frameshift_variant multiple_variant stop_gained frameshift_variant stop_gained multiple_variant missense_variant inframe_deletion multiple_variant frameshift_variant TP53 missense_variant multiple_variant missense_variant multiple_variant missense_variant inframe_deletion multiple_variant frameshift_variant missense_variant frameshift_variant missense_variant stop_gained disruptive_inframe_deletion frameshift_variant missense_variant multiple_variant multiple_variant missense_variant missense_variant missense_variant missense_variant stop_gained multiple_variant missense_variant disruptive_inframe_deletion missense_variant stop_gained missense_variant multiple_variant missense_variant multiple_variant frameshift_variant missense_variant multiple_variant missense_variant stop_gained stop_gained stop_gained missense_variant frameshift_variant multiple_variant missense_variant stop_gained missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant frameshift_variant missense_variant missense_variant missense_variant missense_variant multiple_variant missense_variant missense_variant missense_variant missense_variant frameshift_variant missense_variant multiple_variant frameshift_variant missense_variant missense_variant missense_variant missense_variant multiple_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant stop_gained multiple_variant missense_variant missense_variant missense_variant multiple_variant missense_variant missense_variant missense_variant frameshift_variant missense_variant missense_variant stop_gained missense_variant missense_variant missense_variant multiple_variant missense_variant missense_variant missense_variant multiple_variant frameshift_variant missense_variant missense_variant multiple_variant missense_variant missense_variant missense_variant frameshift_variant missense_variant missense_variant missense_variant missense_variant multiple_variant missense_variant multiple_variant missense_variant multiple_variant multiple_variant missense_variant missense_variant missense_variant missense_variant missense_variant missense_variant multiple_variant missense_variant frameshift_variant missense_variant missense_variant missense_variant
clinical <- "clinical.data.txt" mutation <- "mutation.data.txt" Plot_Type <- "Primary LGG" ##impoort R package library(circlize) library(gridExtra) library(ComplexHeatmap) ##clinical clinical_dat <- read.table(clinical, head = T, sep = '\t', row.names = 1) clinical_dat$Censor <- as.factor(clinical_dat$Censor) clinical_dat$Radio_status <- as.factor(clinical_dat$Radio_status) clinical_dat$Chemo_status <- as.factor(clinical_dat$Chemo_status) ##mutation mut_dat<-read.table(mutation, head = T, row.names = 1, sep = '\t') ##subgroup clinical_dat <- clinical_dat[clinical_dat$Subtype==Plot_Type,] mut_dat <- mut_dat[,rownames(clinical_dat)] colors <- c("#FF8AD8","#0433FF","#73FDFF","#FFD479", "#9437FF","#00F900","#FF9300","#005493", "#945200","#797979","#FF2F92") alter_fun = list( background = function(x, y, w, h) { grid.rect(x, y, w-unit(0.5, 'mm'), h-unit(1, 'mm'), gp = gpar(fill = '#CCCCCC', col = NA)) }, multiple_variant = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[1], col = NA)) }, missense_variant = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[2], col = NA)) }, stop_gained = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[3], col = NA)) }, frameshift_variant = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[4], col = NA)) }, inframe_deletion = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[5], col = NA)) }, inframe_insertion = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[6], col = NA)) }, disruptive_inframe_deletion = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[7], col = NA)) }, start_lost = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[8], col = NA)) }, stop_lost = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[9], col = NA)) }, disruptive_inframe_insertion = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[10], col = NA)) }, synonymous_variant = function(x, y, w, h) { grid.rect(x, y, w-unit(0.25, 'mm'), h*0.7, gp = gpar(fill = colors[11], col = NA)) } ) anno_col<-list(Subtype=c(`Primary LGG` = "#4211bc", `Primary GBM` = "#e18900", `Recurrent GBM` = "#006c56", `Recurrent LGG` = "#af00ff"), Histology = c("A" = "#72ff8a", "O" = "#c8ff96", "OA" = "#ee66f7", "AOA" = "#b496f4", "AA" = "#ffb190", "GBM" = "#9a64ee", "rGBM" = "#1bffef", "rAA" = "#7fffaa", "rA" = "#ff55db", "AO" = "#84ffbb", "rAO" = "#fdf59d", "rO" = "#9fff8d", "rAOA" = "#8f5efe" ), Grade = c(`WHO II` = "#2e4977", `WHO III` = "#790000", `WHO IV` = "#671a00"), Gender = c("Female" = "#008600", "Male" = "#ce4b00"), Age = colorRamp2(c(0, 80), c("white", "#007700")), OS = colorRamp2(c(0, 4000), c("white", "#f80099")), Censor = c("1" = "#ff00e6", "0" = "#00e36e"), Radio_status =c("1" = "#d7b1ff", "0" = "#ffdac5", "NA" = "gray"), Chemo_status =c("1" = "#ffe200", "0" = "#00d3e0", "NA" = "gray")) print1<-oncoPrint(mut_dat, alter_fun = alter_fun, col = c(`multiple_variant` = colors[1], `missense_variant` = colors[2], `stop_gained` = colors[3], `frameshift_variant` = colors[4], `inframe_deletion` = colors[5], `inframe_insertion` = colors[6], `disruptive_inframe_deletion` = colors[7], `start_lost` = colors[8], `stop_lost` = colors[9], `disruptive_inframe_insertion` = colors[10], `synonymous_variant` = colors[11]), bottom_annotation = HeatmapAnnotation(df = clinical_dat, show_annotation_name = TRUE, height = unit(rep(5,7),'cm'), col = anno_col), remove_empty_columns = F) draw(print1, heatmap_legend_side = 'right', annotation_legend_side = 'bottom')
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