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-22-A5C4-01A | TCGA-22-A5C4 | AAK1|WFDC13 | AAK1 | WFDC13 | 2 | 20 | -1 | 1 | 37 | 45 | 37 | 0.76 | 69732701 | 44333083 | tier1 | In-frame | 13 | NA | 0.35146 |
| OV | TCGA-24-1423-01A | TCGA-24-1423 | AAK1|C2orf42 | AAK1 | C2orf42 | 2 | 2 | -1 | -1 | 50 | 49 | 46 | 0.41 | 69783992 | 70377696 | tier1 | Out-of-frame | 9 | NA | 0 |
| PRAD | TCGA-HC-7744-01A | TCGA-HC-7744 | AAK1|KCMF1 | AAK1 | KCMF1 | 2 | 2 | -1 | 1 | 14 | 13 | 11 | 0.57 | 69870010 | 85255012 | tier1 | In-frame | 10 | non-validated | 0.35628 |
| UCS | TCGA-N5-A59F-01A | TCGA-N5-A59F | AAK1|LHX2 | AAK1 | LHX2 | 2 | 9 | -1 | 1 | 5 | 2 | 2 | 0.11 | 69783992 | 126776240 | tier1 | In-frame | 11 | NA | 0.3711 |
| LIHC | TCGA-XR-A8TG-01A | TCGA-XR-A8TG | EPAS1|SYPL2 | EPAS1 | SYPL2 | 2 | 1 | 1 | 1 | 7 | 5 | 4 | 0.016 | 46525076 | 110009681 | tier1 | Out-of-frame | 5627 | NA | 0.37153 |
| LUSC | TCGA-34-5236-01A | TCGA-34-5236 | EPHA4|COL4A3 | EPHA4 | COL4A3 | 2 | 2 | -1 | 1 | 2 | 1 | 1 | 1.8 | 222428451 | 228102684 | tier3 | Out-of-frame | 5670 | NA | 0.38352 |
| SKCM | TCGA-EE-A29D-06A | TCGA-EE-A29D | MARK1|RHOU | MARK1 | RHOU | 1 | 1 | 1 | 1 | 16 | 16 | 16 | 0.067 | 220831176 | 228873420 | tier1 | Out-of-frame | 9994 | NA | 0.38089 |
| LGG | TCGA-TQ-A7RU-01A | TCGA-TQ-A7RU | TNR|RFWD2 | TNR | RFWD2 | 1 | 1 | -1 | -1 | 3 | 8 | 8 | 0.58 | 175497405 | 175958615 | tier1 | 5UTR-CDS | 18372 | NA | 0 |
| PRAD | TCGA-V1-A9ZG-01A | TCGA-V1-A9ZG | SCP2|NCAM1 | SCP2 | NCAM1 | 1 | 11 | 1 | 1 | 5 | 2 | 2 | 0.22 | 53393137 | 113126599 | tier1 | Out-of-frame | 15435 | NA | 0 |
| BRCA | TCGA-E2-A1IH-01A | TCGA-E2-A1IH | SCP2|ECHDC2 | SCP2 | ECHDC2 | 1 | 1 | 1 | -1 | 5 | 6 | 4 | 0.81 | 53393137 | 53364896 | tier1 | In-frame | 15434 | NA | 0 |
| SKCM | TCGA-EE-A2M8-06A | TCGA-EE-A2M8 | SCP2|STXBP3 | SCP2 | STXBP3 | 1 | 1 | 1 | 1 | 13 | 9 | 9 | 0.35 | 53480715 | 109336204 | tier1 | Out-of-frame | 15436 | NA | 0 |
| LIHC | TCGA-2Y-A9HA-01A | TCGA-2Y-A9HA | PAPPA2|ACBD6 | PAPPA2 | ACBD6 | 1 | 1 | 1 | -1 | 48 | 23 | 21 | 0.047 | 176740316 | 180257652 | tier1 | Out-of-frame | 12258 | NA | 0.37223 |
| LIHC | TCGA-BC-A217-01A | TCGA-BC-A217 | PAPPA2|ASTN1 | PAPPA2 | ASTN1 | 1 | 1 | 1 | -1 | 14 | 5 | 4 | 0.71 | 176640251 | 176863966 | tier1 | In-frame | 12259 | validated | 0.36347 |
| BRCA | TCGA-BH-A0DX-01A | TCGA-BH-A0DX | ICMT|GPR153 | ICMT | GPR153 | 1 | 1 | -1 | -1 | 10 | 7 | 6 | 0.2 | 6293534 | 6315074 | tier1 | CDS-5UTR | 8050 | NA | 0.35641 |
| TGCT | TCGA-2G-AAG8-01A | TCGA-2G-AAG8 | ICMT|ACOT7 | ICMT | ACOT7 | 1 | 1 | -1 | -1 | 47 | 25 | 22 | 0.41 | 6291962 | 6324755 | tier1 | In-frame | 8049 | NA | 0.3502 |
| LIHC | TCGA-DD-AAE2-01A | TCGA-DD-AAE2 | AMPD2|ALB | AMPD2 | ALB | 1 | 4 | 1 | 1 | 3 | 1 | 1 | 1.1 | 110171428 | 74270018 | tier4 | CDS-5UTR | 884 | NA | 0.35997 |
| BRCA | TCGA-AN-A049-01A | TCGA-AN-A049 | MECR|NAALADL2 | MECR | NAALADL2 | 1 | 3 | -1 | 1 | 7 | 1 | 1 | 0.12 | 29557243 | 175473008 | tier2 | Out-of-frame | 10146 | NA | 0.36092 |
| BRCA | TCGA-AN-A0FJ-01A | TCGA-AN-A0FJ | KCNC4|GSTM4 | KCNC4 | GSTM4 | 1 | 1 | 1 | 1 | 10 | 9 | 9 | 1.8 | 110768800 | 110207633 | tier1 | Out-of-frame | 8572 | NA | 0.36168 |
| BLCA | TCGA-GC-A3RD-01A | TCGA-GC-A3RD | HDAC1|PEPD | HDAC1 | PEPD | 1 | 19 | 1 | -1 | 5 | 5 | 5 | 0.53 | 32793278 | 33904549 | tier4 | Out-of-frame | 7614 | NA | 0.37233 |
| BRCA | TCGA-BH-A0B9-01A | TCGA-BH-A0B9 | HDAC1|KPNA6 | HDAC1 | KPNA6 | 1 | 1 | 1 | 1 | 12 | 8 | 8 | 0.56 | 32790154 | 32620189 | tier1 | In-frame | 7612 | validated | 0.37276 |
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