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 |
| PRAD | TCGA-V1-A9OT-01A | TCGA-V1-A9OT | GRHL2|ERG | GRHL2 | ERG | 8 | 21 | 1 | -1 | 2 | 4 | 4 | 0.27 | 102571040 | 39795483 | tier2 | Out-of-frame | 7427 | NA | 0.36948 |
| LIHC | TCGA-CC-5263-01A | TCGA-CC-5263 | C17orf56|SLC38A10 | C17orf56 | SLC38A10 | 17 | 17 | -1 | -1 | 9 | 4 | 4 | 0.009 | 79207232 | 79246427 | tier1 | Out-of-frame | 2506 | NA | 0 |
| LGG | TCGA-HT-7691-01A | TCGA-HT-7691 | KIAA1549|BRAF | KIAA1549 | BRAF | 7 | 7 | -1 | -1 | 3 | 1 | 1 | 0.31 | 138545885 | 140487384 | tier2 | In-frame | 8887 | NA | 0.38645 |
| PAAD | TCGA-F2-A44H-01A | TCGA-F2-A44H | CUX1|BRAF | CUX1 | BRAF | 7 | 7 | 1 | -1 | 3 | 1 | 1 | 0.35 | 101758553 | 140494267 | tier3 | In-frame | 4446 | NA | 0.39014 |
| PRAD | TCGA-EJ-A8FN-01A | TCGA-EJ-A8FN | C7orf73|BRAF | C7orf73 | BRAF | 7 | 7 | 1 | -1 | 10 | 10 | 10 | 0.39 | 135357554 | 140487384 | tier1 | In-frame | 2801 | NA | 0 |
| SKCM | TCGA-DA-A1IA-06A | TCGA-DA-A1IA | AGK|BRAF | AGK | BRAF | 7 | 7 | 1 | -1 | 3 | 1 | 1 | 1.2 | 141255367 | 140494267 | tier3 | In-frame | 646 | NA | 0.38527 |
| SKCM | TCGA-BF-A5EP-01A | TCGA-BF-A5EP | ATG7|BRAF | ATG7 | BRAF | 3 | 7 | 1 | -1 | 7 | 2 | 2 | 0.44 | 11468400 | 140487384 | tier1 | In-frame | 1640 | NA | 0.38769 |
| SKCM | TCGA-FS-A1ZU-06A | TCGA-FS-A1ZU | CDC27|BRAF | CDC27 | BRAF | 17 | 7 | -1 | -1 | 21 | 20 | 14 | 0.51 | 45206759 | 140487384 | tier1 | In-frame | 3324 | validated | 0.38867 |
| SKCM | TCGA-BF-A5EP-01A | TCGA-BF-A5EP | HIBADH|BRAF | HIBADH | BRAF | 7 | 7 | -1 | -1 | 7 | 6 | 5 | 0.17 | 27668990 | 140501360 | tier1 | Out-of-frame | 7749 | NA | 0.38752 |
| SKCM | TCGA-D3-A2JC-06A | TCGA-D3-A2JC | TAX1BP1|BRAF | TAX1BP1 | BRAF | 7 | 7 | 1 | -1 | 15 | 26 | 22 | 0.89 | 27827222 | 140481493 | tier1 | In-frame | 17432 | NA | 0 |
| THCA | TCGA-DJ-A2PX-01A | TCGA-DJ-A2PX | AGK|BRAF | AGK | BRAF | 7 | 7 | 1 | -1 | 5 | 1 | 1 | 1.2 | 141255367 | 140494267 | tier3 | In-frame | 647 | NA | 0.38527 |
| THCA | TCGA-ET-A2MX-01A | TCGA-ET-A2MX | BCL2L11|BRAF | BCL2L11 | BRAF | 2 | 7 | 1 | -1 | 8 | 12 | 10 | 0.32 | 111881716 | 140482957 | tier1 | In-frame | 2020 | NA | 0.38692 |
| THCA | TCGA-EM-A3AQ-01A | TCGA-EM-A3AQ | CCNY|BRAF | CCNY | BRAF | 10 | 7 | 1 | -1 | 3 | 2 | 2 | 0.35 | 35626135 | 140482957 | tier1 | In-frame | 3235 | validated | 0.38633 |
| THCA | TCGA-ET-A3BN-01A | TCGA-ET-A3BN | FAM114A2|BRAF | FAM114A2 | BRAF | 5 | 7 | -1 | -1 | 6 | 3 | 3 | 0.032 | 153390801 | 140481493 | tier1 | In-frame | 6014 | NA | 0.38568 |
| THCA | TCGA-DE-A0Y2-01A | TCGA-DE-A0Y2 | MACF1|BRAF | MACF1 | BRAF | 1 | 7 | 1 | -1 | 163 | 167 | 154 | 2.1 | 39896580 | 140487384 | tier1 | In-frame | 9726 | NA | 0.39015 |
| THCA | TCGA-J8-A3O1-01A | TCGA-J8-A3O1 | MKRN1|BRAF | MKRN1 | BRAF | 7 | 7 | -1 | -1 | 21 | 35 | 34 | 0.33 | 140158807 | 140487384 | tier1 | In-frame | 10431 | NA | 0.38882 |
| THCA | TCGA-KS-A4ID-01A | TCGA-KS-A4ID | ZC3HAV1|BRAF | ZC3HAV1 | BRAF | 7 | 7 | -1 | -1 | 7 | 7 | 3 | 0.63 | 138758602 | 140481493 | tier1 | In-frame | 20158 | NA | 0 |
| BRCA | TCGA-AC-A8OQ-01A | TCGA-AC-A8OQ | ABHD2|ACAN | ABHD2 | ACAN | 15 | 15 | 1 | 1 | 3 | 7 | 7 | 2.8 | 89698765 | 89398083 | tier1 | In-frame | 92 | NA | 0.36597 |
| STAD | TCGA-IN-8462-01A | TCGA-IN-8462 | MTHFS|ACAN | MTHFS | ACAN | 15 | 15 | -1 | 1 | 2 | 17 | 17 | 3.4 | 80181435 | 89414613 | tier2 | In-frame | 10799 | NA | 0.3655 |
| CESC | TCGA-C5-A1BM-01A | TCGA-C5-A1BM | MICALL2|PSMG3 | MICALL2 | PSMG3 | 7 | 7 | -1 | -1 | 60 | 43 | 37 | 0.54 | 1498820 | 1607486 | tier1 | Out-of-frame | 10352 | NA | 0.35064 |
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