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 |
| GBM | TCGA-06-1804-01A | TCGA-06-1804 | TDRD3|ESD | TDRD3 | ESD | 13 | 13 | 1 | -1 | 5 | 11 | 9 | 0.44 | 61109367 | 47345631 | tier1 | In-frame | 17623 | NA | 0 |
| SKCM | TCGA-D3-A5GR-06A | TCGA-D3-A5GR | TDRD3|CUL4A | TDRD3 | CUL4A | 13 | 13 | 1 | 1 | 462 | 880 | 650 | 1.4 | 60971539 | 113907396 | tier1 | Out-of-frame | 17621 | NA | 0 |
| PRAD | TCGA-VP-A87D-01A | TCGA-VP-A87D | CYLD|FAM49B | CYLD | FAM49B | 16 | 8 | 1 | -1 | 5 | 3 | 2 | 0.19 | 50776752 | 130983241 | tier1 | 5UTR-5UTR | 4495 | NA | 0.36972 |
| CESC | TCGA-HM-A3JK-01A | TCGA-HM-A3JK | FAT1|NTRK3 | FAT1 | NTRK3 | 4 | 15 | -1 | -1 | 5 | 7 | 7 | 0.87 | 187627717 | 88680792 | tier1 | Out-of-frame | 6271 | NA | 0.38927 |
| COAD | TCGA-D5-5538-01A | TCGA-D5-5538 | FAT1|NPY1R | FAT1 | NPY1R | 4 | 4 | -1 | -1 | 3 | 1 | 1 | 1.6 | 187647508 | 164247857 | tier2 | 5UTR-5UTR | 6270 | NA | 0.37038 |
| STAD | TCGA-BR-8680-01A | TCGA-BR-8680 | FAT1|STAT6 | FAT1 | STAT6 | 4 | 12 | -1 | -1 | 2 | 9 | 5 | 2.1 | 187508949 | 57496773 | tier4 | NA | 6272 | NA | 0.37862 |
| HNSC | TCGA-CN-4722-01A | TCGA-CN-4722 | FAT1|ACSL1 | FAT1 | ACSL1 | 4 | 4 | -1 | -1 | 444 | 335 | 315 | 2.1 | 187627717 | 185724700 | tier2 | CDS-5UTR | 6267 | NA | 0.36504 |
| HNSC | TCGA-DQ-7588-01A | TCGA-DQ-7588 | FAT1|KIAA1430 | FAT1 | KIAA1430 | 4 | 4 | -1 | -1 | 498 | 380 | 348 | 0.21 | 187554838 | 186085333 | tier1 | In-frame | 6269 | NA | 0.36451 |
| LUSC | TCGA-63-A5MJ-01A | TCGA-63-A5MJ | FAT1|IRF2 | FAT1 | IRF2 | 4 | 4 | -1 | -1 | 92 | 84 | 72 | 0.35 | 187530337 | 185350224 | tier1 | CDS-5UTR | 6268 | NA | 0.37473 |
| COAD | TCGA-A6-5660-01A | TCGA-A6-5660 | ZMPSTE24|TMCO2 | ZMPSTE24 | TMCO2 | 1 | 1 | 1 | 1 | 150 | 113 | 77 | 0.98 | 40734207 | 40716955 | tier1 | In-frame | 20327 | NA | 0 |
| UCEC | TCGA-AJ-A3BD-01A | TCGA-AJ-A3BD | ZMPSTE24|TMCO2 | ZMPSTE24 | TMCO2 | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 0.98 | 40733544 | 40716955 | tier3 | In-frame | 20328 | NA | 0 |
| BLCA | TCGA-2F-A9KT-01A | TCGA-2F-A9KT | GSTP1|ELP4 | GSTP1 | ELP4 | 11 | 11 | 1 | 1 | 9 | 12 | 2 | 100 | 67354121 | 31653764 | tier4 | 3UTR-CDS | 7509 | NA | 0.36639 |
| HNSC | TCGA-D6-6517-01A | TCGA-D6-6517 | GSTP1|ATP5G3 | GSTP1 | ATP5G3 | 11 | 2 | 1 | -1 | 2 | 42 | 20 | 2.3 | 67354121 | 176049335 | tier3 | 3UTR-5UTR | 7508 | NA | 0.36696 |
| SKCM | TCGA-EE-A2GM-06B | TCGA-EE-A2GM | GSTP1|ARFGEF2 | GSTP1 | ARFGEF2 | 11 | 20 | 1 | 1 | 2 | 20 | 18 | 1.1 | 67354121 | 47615777 | tier3 | 3UTR-CDS | 7507 | NA | 0.37142 |
| SKCM | TCGA-EB-A1NK-01A | TCGA-EB-A1NK | GSTP1|SF3B2 | GSTP1 | SF3B2 | 11 | 11 | 1 | 1 | 2 | 95 | 7 | 1.3 | 67354121 | 65836145 | tier4 | 3UTR-CDS | 7510 | NA | 0.37045 |
| BLCA | TCGA-FD-A3SR-01A | TCGA-FD-A3SR | APLP2|EIF2AK2 | APLP2 | EIF2AK2 | 11 | 2 | 1 | -1 | 2 | 27 | 22 | 0.11 | 130014699 | 37342384 | tier4 | NA | 1127 | NA | 0.38682 |
| LUAD | TCGA-75-7025-01A | TCGA-75-7025 | APLP2|EIF2AK2 | APLP2 | EIF2AK2 | 11 | 2 | 1 | -1 | 2 | 167 | 126 | 0.11 | 130014699 | 37342384 | tier4 | NA | 1126 | NA | 0.38682 |
| THCA | TCGA-EL-A3TB-01A | TCGA-EL-A3TB | APLP2|CD40 | APLP2 | CD40 | 11 | 20 | 1 | 1 | 2 | 42 | 31 | 2.7 | 130014699 | 44754189 | tier2 | NA | 1124 | non-validated | 0.38169 |
| PRAD | TCGA-HC-7213-01A | TCGA-HC-7213 | APLP2|PLAT | APLP2 | PLAT | 11 | 8 | 1 | -1 | 2 | 61 | 53 | 0.36 | 130014699 | 42051245 | tier3 | NA | 1129 | NA | 0.3802 |
| THYM | TCGA-ZL-A9V6-01A | TCGA-ZL-A9V6 | APLP2|TYK2 | APLP2 | TYK2 | 11 | 19 | 1 | -1 | 2 | 10 | 6 | 0.16 | 130014699 | 10491352 | tier3 | 3UTR-5UTR | 1131 | NA | 0.37895 |
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