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 |
| LIHC | TCGA-ZS-A9CF-01A | TCGA-ZS-A9CF | EFNA1|ADAM15 | EFNA1 | ADAM15 | 1 | 1 | 1 | 1 | 14 | 11 | 11 | 0.7 | 155104110 | 155034936 | tier1 | Out-of-frame | 5351 | NA | 0.37659 |
| SARC | TCGA-IW-A3M6-01A | TCGA-IW-A3M6 | KCNAB1|KHDRBS1 | KCNAB1 | KHDRBS1 | 3 | 1 | 1 | 1 | 2 | 6 | 6 | 1.4 | 156249286 | 32502511 | tier3 | In-frame | 8565 | NA | 0.37952 |
| PCPG | TCGA-QT-A5XO-01A | TCGA-QT-A5XO | KCNAB1|LRTM1 | KCNAB1 | LRTM1 | 3 | 3 | 1 | -1 | 2 | 3 | 2 | 0.72 | 156233009 | 54959242 | tier2 | In-frame | 8566 | NA | 0.3564 |
| BRCA | TCGA-GM-A2DK-01A | TCGA-GM-A2DK | IL1RAPL1|MAGEB10 | IL1RAPL1 | MAGEB10 | X | X | 1 | 1 | 2 | 6 | 6 | 3.1 | 28807542 | 27835671 | tier2 | CDS-5UTR | 8176 | NA | 0.36191 |
| LUAD | TCGA-86-8279-01A | TCGA-86-8279 | PTK2|SLC45A4 | PTK2 | SLC45A4 | 8 | 8 | -1 | -1 | 2 | 2 | 2 | 1.3 | 142011224 | 142231864 | tier4 | 5UTR-CDS | 13782 | NA | 0.38674 |
| LUAD | TCGA-91-6848-01A | TCGA-91-6848 | PTK2|CACNG8 | PTK2 | CACNG8 | 8 | 19 | -1 | 1 | 2 | 6 | 5 | 0.44 | 142010979 | 54481400 | tier2 | NA | 13776 | NA | 0.38643 |
| BRCA | TCGA-BH-A1FE-01A | TCGA-BH-A1FE | PTK2|NCR3 | PTK2 | NCR3 | 8 | 6 | -1 | -1 | 13 | 4 | 4 | 2.3 | 141828376 | 31557676 | tier1 | In-frame | 13779 | NA | 0.38721 |
| BLCA | TCGA-DK-A1AD-01A | TCGA-DK-A1AD | PTK2|UGT2A3 | PTK2 | UGT2A3 | 8 | 4 | -1 | -1 | 13 | 17 | 13 | 1.8 | 142011224 | 69798477 | tier1 | 5UTR-CDS | 13787 | NA | 0.38624 |
| BLCA | TCGA-KQ-A41Q-01A | TCGA-KQ-A41Q | PTK2|VPS13B | PTK2 | VPS13B | 8 | 8 | -1 | 1 | 3 | 7 | 6 | 0.059 | 141753329 | 100673582 | tier1 | In-frame | 13788 | NA | 0.38783 |
| BRCA | TCGA-A8-A06X-01A | TCGA-A8-A06X | PTK2|AC016722.1 | PTK2 | AC016722.1 | 8 | 2 | -1 | 1 | 3 | 10 | 10 | 0.051 | 142011224 | 47049240 | tier1 | 5UTR-CDS | 13773 | NA | 0.38503 |
| BRCA | TCGA-A8-A06X-01A | TCGA-A8-A06X | PTK2|AC016722.2 | PTK2 | AC016722.2 | 8 | 2 | -1 | 1 | 7 | 12 | 11 | 0.85 | 142011224 | 47083062 | tier1 | NA | 13774 | NA | 0.38503 |
| BRCA | TCGA-BH-A0B6-01A | TCGA-BH-A0B6 | PTK2|PPP2R5E | PTK2 | PPP2R5E | 8 | 14 | -1 | -1 | 14 | 14 | 14 | 1.2 | 141900642 | 63920603 | tier1 | Out-of-frame | 13780 | NA | 0.38626 |
| LUAD | TCGA-91-6848-01A | TCGA-91-6848 | PTK2|ANKRD11 | PTK2 | ANKRD11 | 8 | 16 | -1 | -1 | 6 | 4 | 3 | 1.6 | 142011224 | 89484776 | tier1 | 5UTR-5UTR | 13775 | NA | 0.38954 |
| LUAD | TCGA-86-8359-01A | TCGA-86-8359 | PTK2|RNF139 | PTK2 | RNF139 | 8 | 8 | -1 | 1 | 21 | 20 | 19 | 0.003 | 141696731 | 125498072 | tier1 | Out-of-frame | 13781 | NA | 0.38765 |
| LUAD | TCGA-55-8511-01A | TCGA-55-8511 | PTK2|TRAPPC9 | PTK2 | TRAPPC9 | 8 | 8 | -1 | -1 | 261 | 141 | 110 | 0.79 | 142011224 | 140744445 | tier1 | 5UTR-CDS | 13783 | NA | 0.38623 |
| LUSC | TCGA-46-3767-01A | TCGA-46-3767 | PTK2|UBE2H | PTK2 | UBE2H | 8 | 7 | -1 | -1 | 2 | 5 | 4 | 3.2 | 142011224 | 129479175 | tier4 | 5UTR-CDS | 13786 | NA | 0.38739 |
| SKCM | TCGA-FS-A1ZK-06A | TCGA-FS-A1ZK | PTK2|TRAPPC9 | PTK2 | TRAPPC9 | 8 | 8 | -1 | -1 | 72 | 33 | 29 | 0.79 | 141935760 | 140744445 | tier1 | 5UTR-CDS | 13785 | non-validated | 0.38623 |
| STAD | TCGA-CG-4443-01A | TCGA-CG-4443 | PTK2|DENND3 | PTK2 | DENND3 | 8 | 8 | -1 | 1 | 9 | 2 | 2 | 0.08 | 142011224 | 142146608 | tier1 | 5UTR-CDS | 13777 | non-validated | 0.38962 |
| UCEC | TCGA-AX-A2H4-01A | TCGA-AX-A2H4 | PTK2|MKLN1 | PTK2 | MKLN1 | 8 | 7 | -1 | 1 | 4 | 4 | 3 | 0.57 | 141745350 | 131147976 | tier1 | Out-of-frame | 13778 | NA | 0.38596 |
| UCEC | TCGA-AJ-A3I9-01A | TCGA-AJ-A3I9 | PTK2|TRAPPC9 | PTK2 | TRAPPC9 | 8 | 8 | -1 | -1 | 2 | 12 | 10 | 0.79 | 142011224 | 141034176 | tier3 | 5UTR-CDS | 13784 | NA | 0.38623 |
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