Transcript Fusion
The transcript fusion data of TCGA were retrieved from the TumorFusions database.
List of the transcript fusions of the HAMPs 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-D8-A27N-01A | TCGA-D8-A27N | BPTF|ABCC3 | BPTF | ABCC3 | 17 | 17 | 1 | 1 | 8 | 6 | 6 | 2.1 | 65850878 | 48733193 | tier1 | Out-of-frame | 2157 | NA | 0.36311 |
| BRCA | TCGA-E2-A15H-01A | TCGA-E2-A15H | BPTF|CCDC40 | BPTF | CCDC40 | 17 | 17 | 1 | 1 | 23 | 7 | 5 | 1.7 | 65928135 | 78021078 | tier1 | Out-of-frame | 2159 | non-validated | 0.36117 |
| BRCA | TCGA-E2-A14V-01A | TCGA-E2-A14V | BPTF|FAM117A | BPTF | FAM117A | 17 | 17 | 1 | -1 | 55 | 71 | 60 | 0.95 | 65962772 | 47797798 | tier1 | Out-of-frame | 2160 | NA | 0.35992 |
| BRCA | TCGA-C8-A12P-01A | TCGA-C8-A12P | BPTF|PIP4K2B | BPTF | PIP4K2B | 17 | 17 | 1 | -1 | 58 | 26 | 24 | 0.19 | 65822453 | 36943173 | tier1 | Out-of-frame | 2164 | NA | 0.37353 |
| BRCA | TCGA-B6-A0I9-01A | TCGA-B6-A0I9 | BPTF|PITPNC1 | BPTF | PITPNC1 | 17 | 17 | 1 | 1 | 11 | 6 | 5 | 0.85 | 65850878 | 65665624 | tier1 | Out-of-frame | 2165 | NA | 0.36324 |
| BRCA | TCGA-BH-A1F6-01A | TCGA-BH-A1F6 | BPTF|PITPNC1 | BPTF | PITPNC1 | 17 | 17 | 1 | 1 | 142 | 71 | 65 | 0.85 | 65936772 | 65665624 | tier1 | In-frame | 2166 | NA | 0.36324 |
| BRCA | TCGA-GI-A2C9-01A | TCGA-GI-A2C9 | BPTF|PITPNC1 | BPTF | PITPNC1 | 17 | 17 | 1 | 1 | 36 | 12 | 12 | 0.85 | 65944422 | 65665624 | tier1 | In-frame | 2168 | non-validated | 0.36324 |
| BRCA | TCGA-3C-AALI-01A | TCGA-3C-AALI | BPTF|PLXDC1 | BPTF | PLXDC1 | 17 | 17 | 1 | -1 | 7 | 10 | 7 | 0.059 | 65962772 | 37243955 | tier1 | In-frame | 2170 | NA | 0.36106 |
| BRCA | TCGA-E9-A22D-01A | TCGA-E9-A22D | BPTF|RGS9 | BPTF | RGS9 | 17 | 17 | 1 | 1 | 241 | 244 | 176 | 0.083 | 65850878 | 63164318 | tier1 | In-frame | 2172 | NA | 0.36276 |
| ESCA | TCGA-R6-A6Y0-01B | TCGA-R6-A6Y0 | BPTF|RP11-113D6.10 | BPTF | RP11-113D6.10 | 17 | 11 | 1 | 1 | 3 | 4 | 3 | 0.34 | 65822453 | 18234628 | tier1 | CDS-3UTR | 2173 | NA | 0.35592 |
| LUAD | TCGA-67-6217-01A | TCGA-67-6217 | BPTF|BCAS3 | BPTF | BCAS3 | 17 | 17 | 1 | 1 | 6 | 3 | 2 | 0.034 | 65936772 | 59445688 | tier1 | Out-of-frame | 2158 | NA | 0.35832 |
| MESO | TCGA-NQ-A57I-01A | TCGA-NQ-A57I | BPTF|PITPNC1 | BPTF | PITPNC1 | 17 | 17 | 1 | 1 | 3 | 2 | 2 | 0.85 | 65871136 | 65671595 | tier1 | Out-of-frame | 2169 | NA | 0.36324 |
| SKCM | TCGA-ER-A19W-06A | TCGA-ER-A19W | BPTF|NOL11 | BPTF | NOL11 | 17 | 17 | 1 | 1 | 25 | 4 | 3 | 0.29 | 65822453 | 65739595 | tier1 | Out-of-frame | 2162 | NA | 0.36094 |
| STAD | TCGA-BR-4357-01A | TCGA-BR-4357 | BPTF|PITPNC1 | BPTF | PITPNC1 | 17 | 17 | 1 | 1 | 3 | 5 | 5 | 0.85 | 65871136 | 65628259 | tier1 | Out-of-frame | 2167 | NA | 0.36324 |
| TGCT | TCGA-2G-AAKL-01A | TCGA-2G-AAKL | BPTF|NOL11 | BPTF | NOL11 | 17 | 17 | 1 | 1 | 11 | 18 | 18 | 0.29 | 65944422 | 65715790 | tier1 | In-frame | 2161 | NA | 0.36094 |
| UCEC | TCGA-D1-A3JP-01A | TCGA-D1-A3JP | BPTF|RAD17 | BPTF | RAD17 | 17 | 5 | 1 | 1 | 17 | 14 | 14 | 0.37 | 65871860 | 68692224 | tier1 | Out-of-frame | 2171 | NA | 0.37185 |
| UCS | TCGA-N8-A56S-01A | TCGA-N8-A56S | BPTF|NOL11 | BPTF | NOL11 | 17 | 17 | 1 | 1 | 15 | 7 | 5 | 0.29 | 65862803 | 65739859 | tier1 | Out-of-frame | 2163 | NA | 0.36094 |
| LGG | TCGA-DU-7014-01A | TCGA-DU-7014 | KIAA2026|CMTM7 | KIAA2026 | CMTM7 | 9 | 3 | -1 | 1 | 12 | 9 | 8 | 0.51 | 6007195 | 32483332 | tier1 | Out-of-frame | 8920 | NA | 0.34888 |
| LUSC | TCGA-56-8082-01A | TCGA-56-8082 | KIAA2026|PHF20 | KIAA2026 | PHF20 | 9 | 20 | -1 | 1 | 25 | 3 | 3 | 1.5 | 5988345 | 34487292 | tier1 | Out-of-frame | 8921 | NA | 0.35829 |
| HNSC | TCGA-QK-A8Z9-01B | TCGA-QK-A8Z9 | SP140L|PDE6D | SP140L | PDE6D | 2 | 2 | 1 | -1 | 12 | 23 | 22 | 0.15 | 231256944 | 232603912 | tier1 | NA | 16636 | NA | 0 |
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