Genomic location | Event | Number of patients 21 total patients | Number of samples with CNV 29 total samples | Number of Genes with somatic SNV within CNV | Mean fraction of chromosomal arm | Fraction GIST samples with CNV | SNV mutated Genes from Cell Cycle (and others) pathways found in regions of large scale CNV. Bolded gene names indicated genes mutated in more than one sample |
---|---|---|---|---|---|---|---|
14q | LOSS | 16 | 25 | 24 | 0.929948779 | 0.862068966 | ACOT4, ADAM20, BCL11B, COCH, DTD2, DYNC1H1, FLVCR2, HSP90AA1, KCNH5, LTBP2, MYH7, NGB, OR4M1, OR4N2, PSMB11, RBM25, SERPINA1, SERPINA9, TMEM30B |
1p | LOSS | 16 | 25 | 43 | 0.838940558 | 0.862068966 | ABCA4, ALDH4A1, B4GALT2, C8A, CCDC24, CD2, CDCP2, CROCC, CSDE1, CYP2J2, ELTD1, FBXO2, GADD45A, GJB5, GPR153, GRIK3, HSPG2, IGSF3, JUN, KIF2C, NBPF1, PALMD, RAP1GAP, RBMXL1, RERE, SF3A3, SRRM1, SZT2, TNFRSF8, TRIM45, TTC39A, WRAP73, ZMYM4, ZNF326 |
22q | LOSS | 17 | 23 | 17 | 0.878011687 | 0.793103448 | BCR, CHADL, GTPBP1, HDAC10, LZTR1, MLC1, NFAM1, NUP50, PEX26, RBFOX2, SOX10, TTC28 |
15q | LOSS | 13 | 21 | 29 | 0.940300484 | 0.724137931 | ANKRD34C, CHRNA5, CSPG4, FAM169B, IGF1R, IQGAP1, MAN2A2, MAP1A, MESP2, MGA, MORF4L1, MYO5C, NEO1, RFX7, RMDN3, RNF111, RYR3, SKOR1, SPINT1, SPTBN5, STARD5, TBC1D2B, TCF12, TJP1, TP53BP1, USP3 |
13q | LOSS | 12 | 20 | 13 | 0.888207393 | 0.689655172 | DACH1, LACC1, MYCBP2, PARP4, RB1, SHISA2, TPP2, ZC3H13 |
5p | GAIN | 10 | 14 | 10 | 0.928171594 | 0.482758621 | ADAMTS16, CDH10, CDH6, DAB2, OXCT1, PLEKHG4B, PRDM9 |
5q | GAIN | 9 | 9 | 25 | 0.924167057 | 0.310344828 | ACSL6, AGGF1, ARSI, CCNB1, CLINT1, DDX46, EBF1, FAM71B, FAT2, GNB2L1, MSH3, NDUFAF2, PCDHA1, PCDHB16, PCDHB7, PCDHGB6, PCSK1, RASGRF2, RBM27, TCOF1, TMCO6 |
7q | GAIN | 6 | 8 | 17 | 0.74250744 | 0.275862069 | CCDC136, CEP41, CUL1, FKBP6, MET, NOM1, OPN1SW, PCLO, PON1, TMEM168, TMEM176A, TRPV5, ZNF425, ZNF727 |
8q | GAIN | 7 | 8 | 11 | 0.818582114 | 0.275862069 | AGO2, COL14A1, EPPK1, NCOA2, PLEC, TNFRSF11B, TRPA1, ZFPM2 |