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 |
| SKCM | TCGA-D9-A4Z5-01A | TCGA-D9-A4Z5 | IL17D|IFT88 | IL17D | IFT88 | 13 | 13 | 1 | 1 | 6 | 11 | 11 | 0.26 | 21278430 | 21199889 | tier1 | In-frame | 8162 | NA | 0.35165 |
| LUSC | TCGA-98-A53A-01A | TCGA-98-A53A | PPP1CA|PPP2R3C | PPP1CA | PPP2R3C | 11 | 14 | -1 | -1 | 2 | 11 | 10 | 100 | 67165654 | 35585943 | tier3 | 3UTR-CDS | 13333 | NA | 0.37369 |
| BLCA | TCGA-E7-A8O8-01A | TCGA-E7-A8O8 | CTSW|FIBP | CTSW | FIBP | 11 | 11 | 1 | -1 | 178 | 155 | 150 | 0.72 | 65647757 | 65653134 | tier1 | Out-of-frame | 4409 | NA | 0.35884 |
| BRCA | TCGA-D8-A1JK-01A | TCGA-D8-A1JK | MUCL1|CHI3L2 | MUCL1 | CHI3L2 | 12 | 1 | 1 | 1 | 2 | 1385 | 746 | 100 | 55252171 | 111772314 | tier3 | 3UTR-5UTR | 10860 | NA | 0.34157 |
| SARC | TCGA-QQ-A5V9-01A | TCGA-QQ-A5V9 | PDE3A|MUCL1 | PDE3A | MUCL1 | 12 | 12 | 1 | 1 | 5 | 1 | 1 | 0.43 | 20523178 | 55248900 | tier2 | Out-of-frame | 12467 | NA | 0.34473 |
| LUAD | TCGA-67-3774-01A | TCGA-67-3774 | PDE3A|CCT2 | PDE3A | CCT2 | 12 | 12 | 1 | 1 | 2 | 6 | 5 | 2.1 | 20523178 | 69985839 | tier3 | Out-of-frame | 12466 | NA | 0.36875 |
| STAD | TCGA-BR-8590-01A | TCGA-BR-8590 | EFEMP2|C6orf132 | EFEMP2 | C6orf132 | 11 | 6 | -1 | -1 | 5 | 10 | 10 | 5.5 | 65637328 | 42096516 | tier1 | In-frame | 5339 | NA | 0 |
| SKCM | TCGA-WE-AAA3-06A | TCGA-WE-AAA3 | CYP7B1|SULF1 | CYP7B1 | SULF1 | 8 | 8 | -1 | 1 | 30 | 13 | 11 | 0.45 | 65711023 | 70475774 | tier1 | CDS-5UTR | 4509 | NA | 0.34431 |
| SARC | TCGA-PC-A5DO-01A | TCGA-PC-A5DO | CYP7B1|EPS15 | CYP7B1 | EPS15 | 8 | 1 | -1 | -1 | 13 | 6 | 5 | 1.4 | 65517239 | 51946986 | tier1 | In-frame | 4508 | NA | 0.37215 |
| BLCA | TCGA-K4-A3WS-01A | TCGA-K4-A3WS | RARG|BCAS1 | RARG | BCAS1 | 12 | 20 | -1 | -1 | 5 | 2 | 2 | 0.053 | 53621146 | 52675262 | tier1 | CDS-5UTR | 14343 | NA | 0 |
| LIHC | TCGA-2Y-A9GZ-01A | TCGA-2Y-A9GZ | CES4A|PDP2 | CES4A | PDP2 | 16 | 16 | 1 | 1 | 2 | 1 | 1 | 0.31 | 67029732 | 66918134 | tier2 | CDS-5UTR | 3581 | NA | 0.35415 |
| BRCA | TCGA-A7-A13D-01B | TCGA-A7-A13D | SSH3|KDM2A | SSH3 | KDM2A | 11 | 11 | 1 | 1 | 4 | 3 | 1 | 0.016 | 67075929 | 66985202 | tier3 | Out-of-frame | 16915 | validated | 0 |
| LUSC | TCGA-52-7809-01A | TCGA-52-7809 | METAP1D|HAT1 | METAP1D | HAT1 | 2 | 2 | 1 | 1 | 3 | 3 | 3 | 0.2 | 172864916 | 172841096 | tier1 | In-frame | 10261 | NA | 0.33452 |
| BRCA | TCGA-GM-A2DB-01A | TCGA-GM-A2DB | DHCR7|AP000867.1 | DHCR7 | AP000867.1 | 11 | 11 | -1 | -1 | 15 | 10 | 10 | 0.027 | 71155039 | 71293203 | tier1 | CDS-3UTR | 4783 | NA | 0.33993 |
| LUAD | TCGA-91-7771-01A | TCGA-91-7771 | OXSR1|CTDSPL | OXSR1 | CTDSPL | 3 | 3 | 1 | 1 | 4 | 8 | 7 | 0.75 | 38263178 | 37998602 | tier1 | In-frame | 12128 | NA | 0.37175 |
| LUSC | TCGA-52-7809-01A | TCGA-52-7809 | OXSR1|MYD88 | OXSR1 | MYD88 | 3 | 3 | 1 | 1 | 4 | 5 | 5 | 1.6 | 38232330 | 38182248 | tier1 | Out-of-frame | 12130 | NA | 0.37519 |
| SARC | TCGA-LI-A9QH-01A | TCGA-LI-A9QH | OXSR1|PDCD6IP | OXSR1 | PDCD6IP | 3 | 3 | 1 | 1 | 2 | 1 | 1 | 1 | 38271226 | 33870330 | tier2 | In-frame | 12131 | NA | 0.37668 |
| SKCM | TCGA-FS-A1ZZ-06A | TCGA-FS-A1ZZ | OXSR1|ATXN7 | OXSR1 | ATXN7 | 3 | 3 | 1 | 1 | 16 | 9 | 9 | 0.34 | 38232330 | 63938055 | tier1 | In-frame | 12127 | NA | 0.37306 |
| UCEC | TCGA-PG-A914-01A | TCGA-PG-A914 | OXSR1|DLEC1 | OXSR1 | DLEC1 | 3 | 3 | 1 | 1 | 9 | 6 | 5 | 0.3 | 38232330 | 38153168 | tier1 | Out-of-frame | 12129 | NA | 0.36365 |
| UCEC | TCGA-B5-A0JN-01A | TCGA-B5-A0JN | PHF8|FAM120C | PHF8 | FAM120C | X | X | -1 | -1 | 4 | 2 | 2 | 0.5 | 54069064 | 54099720 | tier1 | Out-of-frame | 12741 | non-validated | 0.34431 |
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