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 |
| BRCA | TCGA-BH-A1FN-01A | TCGA-BH-A1FN | USP42|SLC46A2 | USP42 | SLC46A2 | 7 | 9 | 1 | -1 | 6 | 4 | 2 | 0.13 | 6155154 | 115649693 | tier1 | In-frame | 19390 | NA | 0 |
| MESO | TCGA-TS-A8AY-01A | TCGA-TS-A8AY | TEX10|HSDL2 | TEX10 | HSDL2 | 9 | 9 | -1 | 1 | 29 | 11 | 10 | 0.03 | 103115054 | 115166275 | tier1 | 5UTR-CDS | 17680 | NA | 0 |
| HNSC | TCGA-BA-A4IH-01A | TCGA-BA-A4IH | STX17|NR4A3 | STX17 | NR4A3 | 9 | 9 | 1 | 1 | 49 | 21 | 21 | 1.7 | 102691125 | 102606931 | tier1 | In-frame | 17128 | non-validated | 0 |
| LUSC | TCGA-77-8138-01A | TCGA-77-8138 | STX17|NR4A3 | STX17 | NR4A3 | 9 | 9 | 1 | 1 | 4 | 1 | 1 | 1.7 | 102677644 | 102587941 | tier3 | CDS-5UTR | 17127 | NA | 0 |
| BRCA | TCGA-C8-A8HR-01A | TCGA-C8-A8HR | FBXW2|LTBP2 | FBXW2 | LTBP2 | 9 | 14 | -1 | -1 | 3 | 2 | 2 | 0.048 | 123538371 | 74991928 | tier1 | Out-of-frame | 6368 | NA | 0.36677 |
| LUSC | TCGA-39-5031-01A | TCGA-39-5031 | NUMB|GPR68 | NUMB | GPR68 | 14 | 14 | -1 | -1 | 4 | 1 | 1 | 0.53 | 73822334 | 91701523 | tier3 | CDS-5UTR | 11900 | NA | 0.37092 |
| SKCM | TCGA-EB-A4IQ-01A | TCGA-EB-A4IQ | DPY19L3|GPR68 | DPY19L3 | GPR68 | 19 | 14 | 1 | -1 | 5 | 1 | 1 | 2.1 | 32930816 | 91701523 | tier2 | CDS-5UTR | 5092 | NA | 0.34932 |
| ACC | TCGA-OR-A5KY-01A | TCGA-OR-A5KY | FHOD3|ESRRB | FHOD3 | ESRRB | 18 | 14 | 1 | 1 | 18 | 5 | 5 | 0.48 | 33952707 | 76948359 | tier1 | In-frame | 6528 | NA | 0.36494 |
| PRAD | TCGA-VP-A875-01A | TCGA-VP-A875 | PARVA|ESRRB | PARVA | ESRRB | 11 | 14 | 1 | 1 | 3 | 3 | 2 | 1.5 | 12399330 | 76905684 | tier1 | CDS-5UTR | 12307 | NA | 0.38122 |
| ESCA | TCGA-L5-A8NI-01A | TCGA-L5-A8NI | MSH2|EPCAM | MSH2 | EPCAM | 2 | 2 | 1 | 1 | 21 | 203 | 157 | 0.77 | 47630541 | 47612305 | tier1 | Out-of-frame | 10699 | NA | 0.36209 |
| STAD | TCGA-CD-8533-01A | TCGA-CD-8533 | MSH2|EPCAM | MSH2 | EPCAM | 2 | 2 | 1 | 1 | 10 | 48 | 43 | 0.77 | 47643568 | 47612305 | tier1 | Out-of-frame | 10698 | NA | 0.36209 |
| ESCA | TCGA-L5-A8NE-01A | TCGA-L5-A8NE | KHDC1|SLC17A5 | KHDC1 | SLC17A5 | 6 | 6 | -1 | -1 | 5 | 16 | 16 | 0.004 | 74001721 | 74325170 | tier1 | Out-of-frame | 8717 | validated | 0.33966 |
| GBM | TCGA-06-2563-01A | TCGA-06-2563 | ENTPD7|IDE | ENTPD7 | IDE | 10 | 10 | 1 | -1 | 8 | 6 | 6 | 0.017 | 101439632 | 94250352 | tier1 | In-frame | 5604 | NA | 0.35669 |
| SKCM | TCGA-W3-AA1W-06A | TCGA-W3-AA1W | DNMBP|CPN1 | DNMBP | CPN1 | 10 | 10 | -1 | -1 | 13 | 6 | 6 | 0.43 | 101714971 | 101816909 | tier1 | In-frame | 4998 | NA | 0.37 |
| READ | TCGA-AG-3731-01A | TCGA-AG-3731 | PAPSS2|SFRP5 | PAPSS2 | SFRP5 | 10 | 10 | 1 | -1 | 4 | 3 | 3 | 3.1 | 89504988 | 99529502 | tier1 | Out-of-frame | 12264 | NA | 0.35755 |
| CESC | TCGA-VS-A8EJ-01A | TCGA-VS-A8EJ | KIAA0100|CRHR1 | KIAA0100 | CRHR1 | 17 | 17 | -1 | 1 | 6 | 9 | 8 | 0.058 | 26970628 | 43884376 | tier1 | CDS-5UTR | 8726 | NA | 0.3642 |
| SKCM | TCGA-FS-A1ZJ-06A | TCGA-FS-A1ZJ | CRLF3|CRHR1 | CRLF3 | CRHR1 | 17 | 17 | -1 | 1 | 5 | 6 | 5 | 0.96 | 29151541 | 43893829 | tier1 | CDS-5UTR | 4235 | NA | 0.36769 |
| BLCA | TCGA-XF-A9T4-01A | TCGA-XF-A9T4 | ZCCHC7|TEK | ZCCHC7 | TEK | 9 | 9 | 1 | 1 | 28 | 27 | 24 | 0.44 | 37126939 | 27197313 | tier1 | In-frame | 20172 | NA | 0 |
| LIHC | TCGA-EP-A2KA-01A | TCGA-EP-A2KA | KDM4C|INSL4 | KDM4C | INSL4 | 9 | 9 | 1 | 1 | 15 | 6 | 6 | 3.9 | 6814745 | 5233654 | tier1 | Out-of-frame | 8682 | non-validated | 0.32974 |
| BLCA | TCGA-BL-A0C8-01A | TCGA-BL-A0C8 | SPAG9|PCMT1 | SPAG9 | PCMT1 | 17 | 6 | -1 | 1 | 10 | 4 | 4 | 0.58 | 49124736 | 150092298 | tier1 | Out-of-frame | 16663 | non-validated | 0 |
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