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 |
| LUAD | TCGA-50-5941-01A | TCGA-50-5941 | LCOR|PNLIPRP3 | LCOR | PNLIPRP3 | 10 | 10 | 1 | 1 | 3 | 3 | 3 | 0.071 | 98593236 | 118202567 | tier1 | 5UTR-CDS | 9258 | NA | 0.33495 |
| OV | TCGA-13-0916-01A | TCGA-13-0916 | AUTS2|PNLIPRP3 | AUTS2 | PNLIPRP3 | 7 | 10 | 1 | 1 | 2 | 3 | 3 | 1.8 | 69364484 | 118215234 | tier2 | In-frame | 1825 | NA | 0.33329 |
| BRCA | TCGA-GI-A2C9-01A | TCGA-GI-A2C9 | NF2|HSD3B2 | NF2 | HSD3B2 | 22 | 1 | 1 | 1 | 8 | 5 | 5 | 1.3 | 30000101 | 119957954 | tier1 | CDS-5UTR | 11422 | non-validated | 0.38114 |
| BRCA | TCGA-A2-A3KC-01A | TCGA-A2-A3KC | PPFIA1|HSD3B2 | PPFIA1 | HSD3B2 | 11 | 1 | 1 | 1 | 39 | 19 | 16 | 0.33 | 70194526 | 119957954 | tier1 | CDS-5UTR | 13252 | non-validated | 0.36746 |
| SARC | TCGA-DX-A3LS-01A | TCGA-DX-A3LS | CAMSAP1|LCN8 | CAMSAP1 | LCN8 | 9 | 9 | -1 | -1 | 4 | 7 | 7 | 0.067 | 138773479 | 139651620 | tier1 | In-frame | 2937 | validated | 0.34823 |
| LIHC | TCGA-BC-A112-01A | TCGA-BC-A112 | KIF20B|LIPJ | KIF20B | LIPJ | 10 | 10 | 1 | 1 | 5 | 11 | 8 | 0.098 | 91505716 | 90362333 | tier1 | Out-of-frame | 8969 | NA | 0.35548 |
| PRAD | TCGA-J4-AATZ-01A | TCGA-J4-AATZ | LPP|LIPJ | LPP | LIPJ | 3 | 10 | 1 | 1 | 5 | 1 | 1 | 0.96 | 188426181 | 90347023 | tier2 | CDS-5UTR | 9465 | NA | 0.36737 |
| LUSC | TCGA-33-4587-01A | TCGA-33-4587 | MACF1|INPP5B | MACF1 | INPP5B | 1 | 1 | 1 | -1 | 77 | 44 | 36 | 1.1 | 39920769 | 38352676 | tier1 | In-frame | 9732 | NA | 0.36947 |
| PAAD | TCGA-IB-AAUN-01A | TCGA-IB-AAUN | SYNGAP1|COL11A2 | SYNGAP1 | COL11A2 | 6 | 6 | 1 | -1 | 2 | 6 | 6 | 0.009 | 33393680 | 33133983 | tier2 | Out-of-frame | 17250 | NA | 0 |
| HNSC | TCGA-DQ-7590-01A | TCGA-DQ-7590 | KRT5|HLA-DRA | KRT5 | HLA-DRA | 12 | 6 | -1 | 1 | 4 | 1 | 1 | 0.11 | 52908359 | 32407655 | tier3 | 3UTR-5UTR | 9153 | NA | 0.36275 |
| LGG | TCGA-IK-7675-01A | TCGA-IK-7675 | CTDSP2|COL15A1 | CTDSP2 | COL15A1 | 12 | 9 | -1 | 1 | 34 | 49 | 45 | 0.27 | 58240155 | 101759216 | tier1 | Out-of-frame | 4327 | non-validated | 0.35428 |
| BRCA | TCGA-C8-A12Q-01A | TCGA-C8-A12Q | CNNM2|NOTCH4 | CNNM2 | NOTCH4 | 10 | 6 | 1 | -1 | 2 | 2 | 2 | 0.29 | 104679858 | 32172166 | tier2 | Out-of-frame | 3919 | validated | 0.37658 |
| SARC | TCGA-DX-A23Z-01A | TCGA-DX-A23Z | RSPH3|NOTCH4 | RSPH3 | NOTCH4 | 6 | 6 | -1 | -1 | 6 | 12 | 10 | 0.22 | 159420467 | 32171659 | tier1 | Out-of-frame | 15156 | NA | 0 |
| BLCA | TCGA-KQ-A41Q-01A | TCGA-KQ-A41Q | STXBP6|SLC44A4 | STXBP6 | SLC44A4 | 14 | 6 | -1 | -1 | 5 | 9 | 9 | 0.11 | 25443871 | 31844859 | tier1 | In-frame | 17153 | NA | 0 |
| ESCA | TCGA-2H-A9GJ-01A | TCGA-2H-A9GJ | DDAH2|SLC44A4 | DDAH2 | SLC44A4 | 6 | 6 | -1 | -1 | 17 | 56 | 51 | 1.9 | 31697828 | 31833561 | tier1 | 5UTR-CDS | 4629 | NA | 0.34346 |
| OV | TCGA-61-1728-01A | TCGA-61-1728 | DAB2IP|SLC44A4 | DAB2IP | SLC44A4 | 9 | 6 | 1 | -1 | 2 | 19 | 16 | 0.18 | 124533003 | 31837414 | tier2 | In-frame | 4534 | NA | 0.3737 |
| BRCA | TCGA-A8-A07L-01A | TCGA-A8-A07L | LRBA|CASP12 | LRBA | CASP12 | 4 | 11 | -1 | -1 | 17 | 4 | 4 | 0.044 | 151604703 | 104768195 | tier1 | Out-of-frame | 9472 | NA | 0.3528 |
| BRCA | TCGA-A8-A08F-01A | TCGA-A8-A08F | EPC2|MBD5 | EPC2 | MBD5 | 2 | 2 | 1 | 1 | 3 | 1 | 1 | 0.026 | 149528956 | 149215772 | tier2 | CDS-5UTR | 5663 | NA | 0.3459 |
| LUSC | TCGA-92-8064-01A | TCGA-92-8064 | LYPD6B|MBD5 | LYPD6B | MBD5 | 2 | 2 | 1 | 1 | 2 | 6 | 6 | 0.14 | 149895315 | 149225910 | tier2 | 5UTR-CDS | 9701 | non-validated | 0.34619 |
| STAD | TCGA-CG-4466-01A | TCGA-CG-4466 | MGAT5|MBD5 | MGAT5 | MBD5 | 2 | 2 | 1 | 1 | 9 | 10 | 10 | 0.017 | 135028121 | 149215772 | tier2 | CDS-5UTR | 10318 | NA | 0.3441 |
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