Transcript Fusion
The transcript fusion data of TCGA were retrieved from the TumorFusions database.
List of the transcript fusions of the PDGs in each cancer type
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| Cancer Type | TCGA_barcode | Patient | Fusion_transcript | Gene_A | Gene_B | Chr_A | Chr_B | Strand_A | Strand_B | #_Discordant_Pairs | #_JSR | #_perfect_JSR | Evalue | Junction_A | Junction_B | Tier | Frame | TN | WGS_validation | Centrality |
| LUSC | TCGA-66-2766-01A | TCGA-66-2766 | HCK|C20orf160 | HCK | C20orf160 | 20 | 20 | 1 | 1 | 16 | 6 | 4 | 0.017 | 30640289 | 30616798 | tier1 | 5UTR-CDS | 7607 | non-validated | 0 |
| CESC | TCGA-MY-A5BE-01A | TCGA-MY-A5BE | JAG1|C20orf94 | JAG1 | C20orf94 | 20 | 20 | -1 | 1 | 2 | 5 | 5 | 3.6 | 10622108 | 10582379 | tier3 | Out-of-frame | 8468 | NA | 0 |
| LGG | TCGA-DU-6404-01A | TCGA-DU-6404 | CST3|CCT5 | CST3 | CCT5 | 20 | 5 | -1 | 1 | 2 | 19 | 11 | 0.078 | 23614294 | 10250033 | tier4 | 3UTR-5UTR | 4302 | non-validated | 0.3672 |
| BRCA | TCGA-AQ-A54N-01A | TCGA-AQ-A54N | WFDC2|PI3 | WFDC2 | PI3 | 20 | 20 | 1 | 1 | 157 | 112 | 97 | 100 | 44099172 | 43804502 | tier1 | In-frame | 19827 | NA | 0 |
| HNSC | TCGA-IQ-A61G-01A | TCGA-IQ-A61G | USP14|THOC1 | USP14 | THOC1 | 18 | 18 | 1 | -1 | 66 | 24 | 23 | 1.1 | 180339 | 216633 | tier1 | In-frame | 19312 | NA | 0 |
| SARC | TCGA-DX-A48L-01A | TCGA-DX-A48L | USP14|NOL4 | USP14 | NOL4 | 18 | 18 | 1 | -1 | 10 | 5 | 2 | 0.014 | 180339 | 31463388 | tier1 | Out-of-frame | 19311 | NA | 0 |
| BLCA | TCGA-ZF-AA4T-01A | TCGA-ZF-AA4T | LIPG|UCMA | LIPG | UCMA | 18 | 10 | 1 | -1 | 27 | 15 | 15 | 1.5 | 47095918 | 13275800 | tier1 | In-frame | 9368 | NA | 0.33889 |
| HNSC | TCGA-CV-7101-01A | TCGA-CV-7101 | RIOK3|TAF4B | RIOK3 | TAF4B | 18 | 18 | 1 | 1 | 22 | 31 | 31 | 0.2 | 21033466 | 23969809 | tier1 | In-frame | 14703 | NA | 0 |
| BRCA | TCGA-A8-A09Q-01A | TCGA-A8-A09Q | POLA1|MAP3K15 | POLA1 | MAP3K15 | X | X | 1 | -1 | 14 | 12 | 10 | 0.021 | 24906239 | 19428091 | tier1 | In-frame | 13140 | NA | 0.35986 |
| BLCA | TCGA-FD-A3SJ-01A | TCGA-FD-A3SJ | POLA1|CXorf58 | POLA1 | CXorf58 | X | X | 1 | 1 | 5 | 3 | 3 | 1.2 | 24948666 | 23928400 | tier1 | CDS-5UTR | 13139 | NA | 0 |
| BRCA | TCGA-AN-A0AM-01A | TCGA-AN-A0AM | POLA1|TIMELESS | POLA1 | TIMELESS | X | 12 | 1 | -1 | 3 | 5 | 5 | 0.86 | 24735875 | 56828015 | tier1 | CDS-5UTR | 13141 | NA | 0.36776 |
| BRCA | TCGA-E2-A1II-01A | TCGA-E2-A1II | ATP11C|PREX1 | ATP11C | PREX1 | X | 20 | -1 | -1 | 3 | 4 | 3 | 0.48 | 139014175 | 47309328 | tier1 | Out-of-frame | 1686 | NA | 0.3573 |
| LIHC | TCGA-DD-AAD1-01A | TCGA-DD-AAD1 | ATP11C|CXorf66 | ATP11C | CXorf66 | X | X | -1 | -1 | 7 | 4 | 4 | 3.8 | 139014175 | 139040376 | tier1 | Out-of-frame | 1685 | NA | 0 |
| UCEC | TCGA-PG-A915-01A | TCGA-PG-A915 | SLC25A14|BCORL1 | SLC25A14 | BCORL1 | X | X | 1 | 1 | 12 | 6 | 6 | 0.41 | 129484705 | 129184692 | tier1 | Out-of-frame | 16092 | NA | 0 |
| BRCA | TCGA-AN-A0AM-01A | TCGA-AN-A0AM | SCML2|MAP7D2 | SCML2 | MAP7D2 | X | X | -1 | -1 | 23 | 23 | 20 | 0.59 | 18323092 | 20082923 | tier1 | In-frame | 15424 | NA | 0 |
| SKCM | TCGA-EE-A2MK-06A | TCGA-EE-A2MK | TIMP1|EIF2AK2 | TIMP1 | EIF2AK2 | X | 2 | 1 | -1 | 2 | 37 | 14 | 0.5 | 47446188 | 37342384 | tier4 | NA | 17831 | NA | 0 |
| BRCA | TCGA-S3-A6ZF-01A | TCGA-S3-A6ZF | GLA|HNRNPH2 | GLA | HNRNPH2 | X | X | -1 | 1 | 146 | 116 | 103 | 0.36 | 100662698 | 100666924 | tier2 | CDS-5UTR | 7083 | NA | 0.35365 |
| COAD | TCGA-DM-A1D7-01A | TCGA-DM-A1D7 | TNFSF13B|RAB20 | TNFSF13B | RAB20 | 13 | 13 | 1 | -1 | 8 | 5 | 3 | 0.74 | 108922772 | 111176544 | tier2 | In-frame | 18344 | NA | 0 |
| BLCA | TCGA-E7-A5KF-01A | TCGA-E7-A5KF | KLF5|SUPT16H | KLF5 | SUPT16H | 13 | 14 | 1 | -1 | 2 | 16 | 13 | 0.59 | 73651676 | 21829491 | tier3 | 3UTR-CDS | 9045 | NA | 0.38229 |
| CESC | TCGA-EK-A3GN-01A | TCGA-EK-A3GN | KLF5|PIBF1 | KLF5 | PIBF1 | 13 | 13 | 1 | 1 | 2 | 8 | 2 | 0.11 | 73651676 | 73410241 | tier4 | NA | 9042 | NA | 0.37945 |
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