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 |
| LIHC | TCGA-EP-A2KA-01A | TCGA-EP-A2KA | ST3GAL4|HYLS1 | ST3GAL4 | HYLS1 | 11 | 11 | 1 | 1 | 3 | 1 | 1 | 1.7 | 126226197 | 125768999 | tier3 | 5UTR-5UTR | 16942 | validated | 0 |
| SARC | TCGA-3B-A9HL-01A | TCGA-3B-A9HL | ST3GAL4|ZW10 | ST3GAL4 | ZW10 | 11 | 11 | 1 | -1 | 19 | 32 | 29 | 2.5 | 126225737 | 113619142 | tier1 | 5UTR-CDS | 16943 | NA | 0 |
| BRCA | TCGA-EW-A2FW-01A | TCGA-EW-A2FW | CPT1A|KCNG1 | CPT1A | KCNG1 | 11 | 20 | -1 | -1 | 24 | 23 | 21 | 5 | 68548108 | 49628953 | tier1 | CDS-5UTR | 4169 | NA | 0.35336 |
| BRCA | TCGA-E2-A15R-01A | TCGA-E2-A15R | CPT1A|ADAM2 | CPT1A | ADAM2 | 11 | 8 | -1 | -1 | 70 | 51 | 40 | 0.5 | 68540733 | 39607263 | tier1 | In-frame | 4165 | NA | 0.35974 |
| KIRC | TCGA-AS-3777-01A | TCGA-AS-3777 | CPT1A|ANPEP | CPT1A | ANPEP | 11 | 15 | -1 | -1 | 3 | 26 | 25 | 0.2 | 68609243 | 90328732 | tier1 | 5UTR-CDS | 4166 | NA | 0.35652 |
| LIHC | TCGA-DD-A115-01A | TCGA-DD-A115 | CPT1A|ANPEP | CPT1A | ANPEP | 11 | 15 | -1 | -1 | 46 | 53 | 53 | 0.2 | 68609243 | 90328732 | tier1 | 5UTR-CDS | 4167 | NA | 0.35652 |
| HNSC | TCGA-CQ-5323-01A | TCGA-CQ-5323 | CPT1A|FGF3 | CPT1A | FGF3 | 11 | 11 | -1 | -1 | 8 | 4 | 4 | 0.16 | 68609243 | 69631191 | tier1 | 5UTR-CDS | 4168 | NA | 0.36463 |
| BRCA | TCGA-E2-A572-01A | TCGA-E2-A572 | CPT1A|MS4A18 | CPT1A | MS4A18 | 11 | 11 | -1 | 1 | 13 | 28 | 26 | 0.63 | 68579905 | 60508503 | tier1 | NA | 4172 | NA | 0.34495 |
| ESCA | TCGA-L5-A8NH-01A | TCGA-L5-A8NH | CPT1A|RNFT1 | CPT1A | RNFT1 | 11 | 17 | -1 | -1 | 14 | 183 | 171 | 0.39 | 68527037 | 58031507 | tier1 | In-frame | 4175 | NA | 0.35039 |
| HNSC | TCGA-CN-A49C-01A | TCGA-CN-A49C | CPT1A|P4HA3 | CPT1A | P4HA3 | 11 | 11 | -1 | -1 | 5 | 5 | 4 | 0.42 | 68549239 | 74000175 | tier1 | Out-of-frame | 4173 | NA | 0.35531 |
| HNSC | TCGA-CQ-5323-01A | TCGA-CQ-5323 | CPT1A|SHANK2 | CPT1A | SHANK2 | 11 | 11 | -1 | -1 | 28 | 23 | 23 | 0.48 | 68609243 | 70653276 | tier1 | 5UTR-CDS | 4176 | NA | 0.37012 |
| LIHC | TCGA-DD-A4ND-01A | TCGA-DD-A4ND | CPT1A|PPFIA1 | CPT1A | PPFIA1 | 11 | 11 | -1 | 1 | 6 | 10 | 8 | 0.28 | 68609243 | 70170508 | tier1 | 5UTR-CDS | 4174 | non-validated | 0.36647 |
| LUSC | TCGA-94-A5I6-01A | TCGA-94-A5I6 | CPT1A|LPXN | CPT1A | LPXN | 11 | 11 | -1 | -1 | 4 | 4 | 3 | 4.3 | 68566686 | 58338186 | tier1 | Out-of-frame | 4170 | NA | 0.37485 |
| PAAD | TCGA-OE-A75W-01A | TCGA-OE-A75W | CPT1A|MAPK8IP3 | CPT1A | MAPK8IP3 | 11 | 16 | -1 | 1 | 2 | 1 | 1 | 0.002 | 68579905 | 1779139 | tier2 | Out-of-frame | 4171 | NA | 0.36803 |
| CESC | TCGA-DS-A0VL-01A | TCGA-DS-A0VL | BIRC2|TMEM123 | BIRC2 | TMEM123 | 11 | 11 | 1 | -1 | 77 | 63 | 58 | 0.48 | 102239279 | 102272937 | tier1 | In-frame | 2103 | validated | 0.37124 |
| STAD | TCGA-CG-4443-01A | TCGA-CG-4443 | BIRC2|YAP1 | BIRC2 | YAP1 | 11 | 11 | 1 | 1 | 48 | 28 | 27 | 0.21 | 102221674 | 102033187 | tier1 | In-frame | 2104 | validated | 0.37724 |
| LUAD | TCGA-55-8510-01A | TCGA-55-8510 | HIPK3|CAT | HIPK3 | CAT | 11 | 11 | 1 | 1 | 5 | 4 | 3 | 0.05 | 33373811 | 34470739 | tier1 | In-frame | 7778 | NA | 0.38296 |
| BRCA | TCGA-BH-A0DD-01A | TCGA-BH-A0DD | HIPK3|TOLLIP | HIPK3 | TOLLIP | 11 | 11 | 1 | -1 | 7 | 3 | 3 | 0.97 | 33279435 | 1317024 | tier1 | 5UTR-CDS | 7781 | NA | 0.38434 |
| LUSC | TCGA-43-6771-01A | TCGA-43-6771 | HIPK3|GYLTL1B | HIPK3 | GYLTL1B | 11 | 11 | 1 | 1 | 331 | 221 | 203 | 0.67 | 33279435 | 45947773 | tier1 | 5UTR-CDS | 7780 | NA | 0.37915 |
| MESO | TCGA-TS-A8AY-01A | TCGA-TS-A8AY | HIPK3|DPAGT1 | HIPK3 | DPAGT1 | 11 | 11 | 1 | -1 | 15 | 3 | 2 | 0.071 | 33279435 | 118971118 | tier1 | 5UTR-CDS | 7779 | NA | 0.37979 |
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