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 |
| LUSC | TCGA-LA-A446-01A | TCGA-LA-A446 | HCFC1|EPHA5 | HCFC1 | EPHA5 | X | 4 | -1 | -1 | 2 | 2 | 1 | 9.2 | 153236099 | 66189937 | tier2 | Out-of-frame | 7603 | NA | 0.37396 |
| SKCM | TCGA-ER-A2NE-06A | TCGA-ER-A2NE | HOXB6|EPHA5 | HOXB6 | EPHA5 | 17 | 4 | -1 | -1 | 5 | 3 | 3 | 0.29 | 46681842 | 66509145 | tier1 | 5UTR-CDS | 7939 | NA | 0.3767 |
| BLCA | TCGA-K4-A83P-01A | TCGA-K4-A83P | LUC7L|CORIN | LUC7L | CORIN | 16 | 4 | -1 | -1 | 7 | 6 | 6 | 0.03 | 249061 | 47667280 | tier1 | Out-of-frame | 9673 | NA | 0.35965 |
| BRCA | TCGA-AQ-A04L-01B | TCGA-AQ-A04L | OSBPL3|CORIN | OSBPL3 | CORIN | 7 | 4 | -1 | -1 | 6 | 4 | 4 | 0.34 | 24931996 | 47746600 | tier1 | Out-of-frame | 12079 | NA | 0.37058 |
| LIHC | TCGA-CC-A9FU-01A | TCGA-CC-A9FU | RFC1|CORIN | RFC1 | CORIN | 4 | 4 | -1 | -1 | 34 | 23 | 23 | 0.85 | 39343965 | 47680071 | tier1 | In-frame | 14585 | NA | 0 |
| LGG | TCGA-HT-8564-01A | TCGA-HT-8564 | TMEM150C|SCD5 | TMEM150C | SCD5 | 4 | 4 | -1 | -1 | 24 | 28 | 23 | 0.76 | 83483059 | 83626566 | tier1 | 5UTR-CDS | 17978 | NA | 0 |
| PRAD | TCGA-HC-7212-01A | TCGA-HC-7212 | RAP1GDS1|SCD5 | RAP1GDS1 | SCD5 | 4 | 4 | 1 | -1 | 5 | 6 | 5 | 0.12 | 99325753 | 83557976 | tier1 | Out-of-frame | 14284 | NA | 0 |
| SARC | TCGA-3B-A9HS-01A | TCGA-3B-A9HS | AFF1|KLHL8 | AFF1 | KLHL8 | 4 | 4 | 1 | -1 | 4 | 2 | 2 | 1.9 | 88016121 | 88116842 | tier1 | CDS-5UTR | 579 | NA | 0.36317 |
| LIHC | TCGA-BC-A3KG-01A | TCGA-BC-A3KG | FAM160A1|CCNA2 | FAM160A1 | CCNA2 | 4 | 4 | 1 | -1 | 25 | 16 | 10 | 0.46 | 152403800 | 122742246 | tier1 | 5UTR-CDS | 6066 | NA | 0.37031 |
| LIHC | TCGA-CC-5263-01A | TCGA-CC-5263 | KIAA1109|CCNA2 | KIAA1109 | CCNA2 | 4 | 4 | 1 | -1 | 39 | 20 | 12 | 0.45 | 123075267 | 122742246 | tier1 | 5UTR-CDS | 8821 | NA | 0.36776 |
| LIHC | TCGA-DD-A1EK-01A | TCGA-DD-A1EK | KIAA1109|CCNA2 | KIAA1109 | CCNA2 | 4 | 4 | 1 | -1 | 11 | 9 | 6 | 0.45 | 123075267 | 122742246 | tier1 | 5UTR-CDS | 8822 | NA | 0.36776 |
| LIHC | TCGA-PD-A5DF-01A | TCGA-PD-A5DF | KIAA1109|CCNA2 | KIAA1109 | CCNA2 | 4 | 4 | 1 | -1 | 13 | 18 | 18 | 0.45 | 123075267 | 122742246 | tier1 | 5UTR-CDS | 8823 | non-validated | 0.36776 |
| STAD | TCGA-BR-8687-01A | TCGA-BR-8687 | AL139022.1|CCNA2 | AL139022.1 | CCNA2 | 14 | 4 | 1 | -1 | 2 | 3 | 3 | 0.98 | 65453815 | 122743801 | tier3 | In-frame | 773 | NA | 0.36415 |
| SKCM | TCGA-BF-AAP6-01A | TCGA-BF-AAP6 | IRX1|ADAMTS16 | IRX1 | ADAMTS16 | 5 | 5 | 1 | 1 | 8 | 6 | 6 | 4 | 3596495 | 5182157 | tier1 | In-frame | 8348 | NA | 0.34884 |
| SKCM | TCGA-D3-A2JB-06A | TCGA-D3-A2JB | TRIM48|ADAMTS16 | TRIM48 | ADAMTS16 | 11 | 5 | 1 | 1 | 4 | 10 | 9 | 0.021 | 55029787 | 5262770 | tier1 | Out-of-frame | 18653 | NA | 0 |
| BRCA | TCGA-B6-A3ZX-01A | TCGA-B6-A3ZX | PAPD7|SRD5A1 | PAPD7 | SRD5A1 | 5 | 5 | 1 | 1 | 11 | 13 | 12 | 0.091 | 6743953 | 6662929 | tier1 | Out-of-frame | 12251 | NA | 0.33291 |
| ESCA | TCGA-R6-A8W8-01B | TCGA-R6-A8W8 | PAPD7|SRD5A1 | PAPD7 | SRD5A1 | 5 | 5 | 1 | 1 | 2 | 32 | 28 | 0.091 | 6714812 | 6662929 | tier2 | 5UTR-CDS | 12252 | NA | 0.33291 |
| CESC | TCGA-VS-A8EI-01A | TCGA-VS-A8EI | NDUFS4|GZMA | NDUFS4 | GZMA | 5 | 5 | 1 | 1 | 6 | 6 | 4 | 100 | 52954454 | 54401302 | tier1 | In-frame | 11308 | NA | 0.36794 |
| UCEC | TCGA-AP-A5FX-01A | TCGA-AP-A5FX | MARVELD2|PIK3R1 | MARVELD2 | PIK3R1 | 5 | 5 | 1 | 1 | 6 | 13 | 11 | 0.09 | 68720463 | 67589537 | tier1 | In-frame | 10013 | NA | 0.3835 |
| SKCM | TCGA-EB-A5KH-06A | TCGA-EB-A5KH | HMGXB3|PAM | HMGXB3 | PAM | 5 | 5 | 1 | 1 | 12 | 10 | 9 | 0.024 | 149386210 | 102201527 | tier1 | CDS-5UTR | 7872 | NA | 0.3529 |
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