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 |
| LUAD | TCGA-75-5146-01A | TCGA-75-5146 | PMS2|AIMP2 | PMS2 | AIMP2 | 7 | 7 | -1 | 1 | 3 | 2 | 1 | 0.43 | 6048628 | 6054777 | tier2 | Out-of-frame | 13115 | NA | 0.35847 |
| MESO | TCGA-LK-A4O2-01A | TCGA-LK-A4O2 | PMS2|USP42 | PMS2 | USP42 | 7 | 7 | -1 | 1 | 2 | 1 | 1 | 0.52 | 6048628 | 6150756 | tier3 | CDS-5UTR | 13117 | NA | 0.36275 |
| GBM | TCGA-14-0736-02A | TCGA-14-0736 | KLHL7|TMEM106B | KLHL7 | TMEM106B | 7 | 7 | 1 | 1 | 3 | 4 | 4 | 0.76 | 23191828 | 12254435 | tier1 | CDS-5UTR | 9076 | NA | 0.34937 |
| LUAD | TCGA-55-8089-01A | TCGA-55-8089 | KLHL7|DNAH11 | KLHL7 | DNAH11 | 7 | 7 | 1 | 1 | 49 | 49 | 41 | 1.7 | 23145765 | 21584624 | tier1 | In-frame | 9075 | NA | 0.35288 |
| BLCA | TCGA-ZF-AA5H-01A | TCGA-ZF-AA5H | CBX3|CDK14 | CBX3 | CDK14 | 7 | 7 | 1 | 1 | 8 | 53 | 50 | 0.032 | 26251376 | 90836480 | tier1 | CDS-3UTR | 3085 | NA | 0.36803 |
| BRCA | TCGA-A2-A0CW-01A | TCGA-A2-A0CW | CBX3|GARS | CBX3 | GARS | 7 | 7 | 1 | 1 | 267 | 526 | 490 | 0.2 | 26241446 | 30665850 | tier1 | 5UTR-CDS | 3086 | NA | 0.37093 |
| PRAD | TCGA-G9-6333-01A | TCGA-G9-6333 | NPY|DDX21 | NPY | DDX21 | 7 | 10 | 1 | 1 | 2 | 326 | 295 | 0.41 | 24331484 | 70723858 | tier3 | NA | 11709 | NA | 0.37737 |
| PRAD | TCGA-G9-6354-01A | TCGA-G9-6354 | NPY|FOXP1 | NPY | FOXP1 | 7 | 3 | 1 | -1 | 2 | 221 | 157 | 100 | 24331484 | 71007472 | tier3 | NA | 11710 | NA | 0.36949 |
| BRCA | TCGA-A8-A08I-01A | TCGA-A8-A08I | MCART1|GLIPR2 | MCART1 | GLIPR2 | 9 | 9 | -1 | 1 | 12 | 8 | 7 | 1.7 | 37903528 | 36162359 | tier1 | 5UTR-CDS | 10074 | NA | 0.34319 |
| SARC | TCGA-DX-AB2Q-01A | TCGA-DX-AB2Q | MCART1|UBAP2 | MCART1 | UBAP2 | 9 | 9 | -1 | -1 | 2 | 2 | 2 | 0.074 | 37904065 | 33998862 | tier4 | 5UTR-CDS | 10075 | NA | 0.35443 |
| BRCA | TCGA-A7-A4SD-01A | TCGA-A7-A4SD | RECK|TMEM8B | RECK | TMEM8B | 9 | 9 | 1 | 1 | 2 | 2 | 1 | 0.65 | 36037095 | 35845972 | tier3 | Out-of-frame | 14528 | NA | 0 |
| SKCM | TCGA-DA-A3F3-06A | TCGA-DA-A3F3 | RECK|ACER3 | RECK | ACER3 | 9 | 11 | 1 | 1 | 50 | 37 | 32 | 0.03 | 36052320 | 76687333 | tier1 | In-frame | 14527 | non-validated | 0 |
| PAAD | TCGA-HZ-7289-01A | TCGA-HZ-7289 | SPINK4|SQSTM1 | SPINK4 | SQSTM1 | 9 | 5 | 1 | 1 | 3 | 227 | 1 | 0.67 | 33248564 | 179250858 | tier3 | 3UTR-CDS | 16728 | NA | 0 |
| CESC | TCGA-C5-A902-01A | TCGA-C5-A902 | CNTFR|C6orf211 | CNTFR | C6orf211 | 9 | 6 | -1 | 1 | 2 | 2 | 2 | 0.65 | 34589553 | 151775683 | tier3 | 5UTR-CDS | 3948 | NA | 0 |
| LUAD | TCGA-55-8091-01A | TCGA-55-8091 | TRIM24|NTRK2 | TRIM24 | NTRK2 | 7 | 9 | 1 | 1 | 13 | 11 | 9 | 0.71 | 138258387 | 87482158 | tier1 | In-frame | 18618 | NA | 0 |
| BRCA | TCGA-C8-A1HM-01A | TCGA-C8-A1HM | TRIM24|SVOPL | TRIM24 | SVOPL | 7 | 7 | 1 | -1 | 113 | 67 | 62 | 6 | 138258387 | 138281275 | tier1 | Out-of-frame | 18619 | NA | 0 |
| LIHC | TCGA-DD-AACL-01A | TCGA-DD-AACL | TRIM24|BRAF | TRIM24 | BRAF | 7 | 7 | 1 | -1 | 9 | 2 | 2 | 0.74 | 138239609 | 140550012 | tier1 | In-frame | 18616 | NA | 0 |
| READ | TCGA-F5-6464-01A | TCGA-F5-6464 | TRIM24|BRAF | TRIM24 | BRAF | 7 | 7 | 1 | -1 | 7 | 4 | 4 | 0.74 | 138255748 | 140550012 | tier1 | In-frame | 18617 | NA | 0 |
| BRCA | TCGA-A8-A08R-01A | TCGA-A8-A08R | TRIM24|ULK4 | TRIM24 | ULK4 | 7 | 3 | 1 | -1 | 5 | 2 | 2 | 0.4 | 138189153 | 41497086 | tier1 | In-frame | 18620 | NA | 0 |
| SKCM | TCGA-EE-A2M5-06A | TCGA-EE-A2M5 | PLAU|ZMAT2 | PLAU | ZMAT2 | 10 | 5 | 1 | 1 | 2 | 9 | 9 | 100 | 75677254 | 140080404 | tier3 | 3UTR-CDS | 12948 | non-validated | 0.37197 |
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