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-AO-A03P-01A | TCGA-AO-A03P | PMEPA1|EMILIN3 | PMEPA1 | EMILIN3 | 20 | 20 | -1 | -1 | 3 | 1 | 1 | 2.3 | 56284530 | 39993797 | tier2 | Out-of-frame | 13086 | NA | 0.35495 |
| BRCA | TCGA-A2-A0SW-01A | TCGA-A2-A0SW | PPFIBP2|OLFML1 | PPFIBP2 | OLFML1 | 11 | 11 | 1 | 1 | 11 | 4 | 4 | 0.35 | 7663657 | 7530629 | tier1 | Out-of-frame | 13288 | NA | 0.36605 |
| STAD | TCGA-CG-4436-01A | TCGA-CG-4436 | ANO10|SCN5A | ANO10 | SCN5A | 3 | 3 | -1 | -1 | 2 | 1 | 1 | 0.023 | 43474103 | 38629064 | tier3 | In-frame | 1027 | NA | 0.36441 |
| UCEC | TCGA-B5-A5OE-01A | TCGA-B5-A5OE | RIMKLB|SETD8 | RIMKLB | SETD8 | 12 | 12 | 1 | 1 | 2 | 3 | 2 | 0.65 | 8906689 | 123873980 | tier3 | In-frame | 14692 | NA | 0 |
| PRAD | TCGA-CH-5766-01A | TCGA-CH-5766 | BRK1|PTP4A2 | BRK1 | PTP4A2 | 3 | 1 | 1 | -1 | 2 | 13 | 6 | 0.6 | 10168601 | 32374561 | tier4 | 3UTR-CDS | 2221 | NA | 0.3535 |
| BRCA | TCGA-B6-A0RH-01A | TCGA-B6-A0RH | ARID2|TMPRSS2 | ARID2 | TMPRSS2 | 12 | 21 | 1 | -1 | 36 | 21 | 20 | 3.5 | 46233279 | 42902145 | tier2 | NA | 1369 | NA | 0.36354 |
| KIRP | TCGA-B9-A5W9-01A | TCGA-B9-A5W9 | NDUFS4|TMPRSS2 | NDUFS4 | TMPRSS2 | 5 | 21 | 1 | -1 | 32 | 11 | 10 | 0.27 | 52954454 | 42838080 | tier1 | Out-of-frame | 11309 | NA | 0.35013 |
| PRAD | TCGA-EJ-7784-01A | TCGA-EJ-7784 | ATF7IP|TMPRSS2 | ATF7IP | TMPRSS2 | 12 | 21 | 1 | -1 | 78 | 81 | 72 | 2 | 14610229 | 42861520 | tier1 | In-frame | 1611 | NA | 0.36975 |
| BLCA | TCGA-CF-A3MG-01A | TCGA-CF-A3MG | SHANK2|LRTOMT | SHANK2 | LRTOMT | 11 | 11 | -1 | 1 | 15 | 17 | 17 | 0.35 | 70644548 | 71804542 | tier1 | In-frame | 15855 | NA | 0 |
| BRCA | TCGA-A1-A0SM-01A | TCGA-A1-A0SM | UVRAG|LRTOMT | UVRAG | LRTOMT | 11 | 11 | 1 | 1 | 7 | 10 | 8 | 0.56 | 75623083 | 71799343 | tier1 | CDS-5UTR | 19476 | non-validated | 0 |
| BLCA | TCGA-BT-A20Q-01A | TCGA-BT-A20Q | EPN2|KCNJ12 | EPN2 | KCNJ12 | 17 | 17 | 1 | 1 | 4 | 83 | 55 | 0.035 | 19140844 | 21311831 | tier1 | 5UTR-5UTR | 5688 | non-validated | 0.36596 |
| LGG | TCGA-E1-5304-01A | TCGA-E1-5304 | FYTTD1|ALDH1A3 | FYTTD1 | ALDH1A3 | 3 | 15 | 1 | 1 | 32 | 21 | 18 | 0.003 | 197505335 | 101427777 | tier1 | In-frame | 6855 | NA | 0.35627 |
| ACC | TCGA-OR-A5J9-01A | TCGA-OR-A5J9 | PPP2R5C|PRKD1 | PPP2R5C | PRKD1 | 14 | 14 | 1 | -1 | 14 | 2 | 2 | 0.049 | 102276373 | 30069023 | tier1 | Out-of-frame | 13412 | NA | 0.3875 |
| LGG | TCGA-TQ-A7RW-01A | TCGA-TQ-A7RW | GPHN|PRKD1 | GPHN | PRKD1 | 14 | 14 | 1 | -1 | 2 | 1 | 1 | 2 | 67147903 | 30135414 | tier3 | Out-of-frame | 7339 | NA | 0.38645 |
| LUAD | TCGA-44-3918-01A | TCGA-44-3918 | STRN3|PRKD1 | STRN3 | PRKD1 | 14 | 14 | -1 | -1 | 2 | 4 | 4 | 0.53 | 31495110 | 30194880 | tier2 | In-frame | 17119 | non-validated | 0 |
| SKCM | TCGA-EE-A181-06A | TCGA-EE-A181 | AKAP6|PRKD1 | AKAP6 | PRKD1 | 14 | 14 | 1 | -1 | 214 | 160 | 155 | 0.027 | 33069998 | 30095762 | tier1 | In-frame | 739 | NA | 0.38568 |
| SARC | TCGA-DX-A1KZ-01A | TCGA-DX-A1KZ | KCNMB4|GDF3 | KCNMB4 | GDF3 | 12 | 12 | 1 | -1 | 11 | 2 | 2 | 2.5 | 70794116 | 7843300 | tier1 | Out-of-frame | 8591 | NA | 0.34159 |
| LUAD | TCGA-49-4505-01A | TCGA-49-4505 | C5orf41|SLIT3 | C5orf41 | SLIT3 | 5 | 5 | 1 | -1 | 4 | 1 | 1 | 0.22 | 172483482 | 168271660 | tier2 | 5UTR-CDS | 2734 | NA | 0 |
| BRCA | TCGA-D8-A1XZ-01A | TCGA-D8-A1XZ | FAM172A|EFNA5 | FAM172A | EFNA5 | 5 | 5 | -1 | -1 | 29 | 20 | 16 | 0.82 | 93447216 | 106763210 | tier1 | 5UTR-CDS | 6099 | NA | 0.36594 |
| SKCM | TCGA-D9-A6EA-06A | TCGA-D9-A6EA | HS6ST3|EFNA5 | HS6ST3 | EFNA5 | 13 | 5 | 1 | -1 | 6 | 2 | 2 | 3.8 | 96743823 | 106763210 | tier1 | In-frame | 7969 | NA | 0.35898 |
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