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-DD-A73G-01A | TCGA-DD-A73G | YARS|IMPA2 | YARS | IMPA2 | 1 | 18 | -1 | 1 | 2 | 1 | 1 | 0.015 | 33251963 | 12009882 | tier2 | Out-of-frame | 20021 | NA | 0 |
| BRCA | TCGA-BH-A0B9-01A | TCGA-BH-A0B9 | YARS|C19orf76 | YARS | C19orf76 | 1 | 19 | -1 | 1 | 85 | 5 | 5 | 0.18 | 33246649 | 50193363 | tier1 | Out-of-frame | 20020 | non-validated | 0 |
| GBM | TCGA-27-1835-01A | TCGA-27-1835 | YARS|RNF19B | YARS | RNF19B | 1 | 1 | -1 | -1 | 3 | 7 | 6 | 1 | 33276192 | 33415375 | tier1 | In-frame | 20022 | NA | 0 |
| SARC | TCGA-DX-A48P-01A | TCGA-DX-A48P | YARS|ANKRD17 | YARS | ANKRD17 | 1 | 4 | -1 | -1 | 3 | 2 | 2 | 0.36 | 33263364 | 73944607 | tier1 | Out-of-frame | 20019 | NA | 0 |
| BRCA | TCGA-OL-A66I-01A | TCGA-OL-A66I | DAGLA|C11orf66 | DAGLA | C11orf66 | 11 | 11 | 1 | 1 | 9 | 2 | 2 | 0.002 | 61487722 | 61249254 | tier1 | CDS-5UTR | 4539 | NA | 0 |
| HNSC | TCGA-QK-A6VB-01A | TCGA-QK-A6VB | DAGLA|MS4A10 | DAGLA | MS4A10 | 11 | 11 | 1 | 1 | 4 | 1 | 1 | 0.011 | 61502474 | 60561445 | tier2 | In-frame | 4540 | NA | 0.33665 |
| LUAD | TCGA-55-6969-01A | TCGA-55-6969 | CLOCK|NMU | CLOCK | NMU | 4 | 4 | -1 | -1 | 5 | 2 | 2 | 0.004 | 56322064 | 56461578 | tier1 | CDS-3UTR | 3825 | NA | 0.37457 |
| LUSC | TCGA-22-5478-01A | TCGA-22-5478 | CLOCK|SRD5A3 | CLOCK | SRD5A3 | 4 | 4 | -1 | 1 | 9 | 6 | 6 | 0.02 | 56308599 | 56225513 | tier4 | In-frame | 3828 | NA | 0.36671 |
| LUAD | TCGA-69-7979-01A | TCGA-69-7979 | CLOCK|PDGFRA | CLOCK | PDGFRA | 4 | 4 | -1 | 1 | 4 | 2 | 2 | 1.3 | 56376079 | 55153597 | tier1 | 5UTR-CDS | 3826 | NA | 0.38296 |
| LUAD | TCGA-38-4631-01A | TCGA-38-4631 | CLOCK|PHF21A | CLOCK | PHF21A | 4 | 11 | -1 | -1 | 4 | 3 | 2 | 0.43 | 56319221 | 46001517 | tier1 | In-frame | 3827 | NA | 0.37256 |
| BLCA | TCGA-GV-A3QH-01A | TCGA-GV-A3QH | CLOCK|UGT2A3 | CLOCK | UGT2A3 | 4 | 4 | -1 | -1 | 26 | 34 | 33 | 0.6 | 56412949 | 69798477 | tier1 | 5UTR-CDS | 3829 | NA | 0.36633 |
| SARC | TCGA-Z4-AAPG-01A | TCGA-Z4-AAPG | PDGFRA|USP8 | PDGFRA | USP8 | 4 | 15 | 1 | 1 | 51 | 12 | 11 | 1.4 | 55156721 | 50751197 | tier2 | In-frame | 12528 | NA | 0.38176 |
| BLCA | TCGA-FD-A3SL-01A | TCGA-FD-A3SL | COL4A2|ELK3 | COL4A2 | ELK3 | 13 | 12 | 1 | 1 | 2 | 4 | 4 | 0.94 | 111165374 | 96588323 | tier3 | 3UTR-5UTR | 4029 | NA | 0.37706 |
| HNSC | TCGA-HD-8224-01A | TCGA-HD-8224 | COL4A2|NRAP | COL4A2 | NRAP | 13 | 10 | 1 | -1 | 2 | 10 | 1 | 1.3 | 111144524 | 115348838 | tier4 | Out-of-frame | 4030 | NA | 0.36566 |
| KIRC | TCGA-BP-4998-01A | TCGA-BP-4998 | COL4A2|EEA1 | COL4A2 | EEA1 | 13 | 12 | 1 | -1 | 2 | 4 | 4 | 0.18 | 111165374 | 93229203 | tier3 | NA | 4028 | NA | 0.37534 |
| READ | TCGA-DY-A1DD-01A | TCGA-DY-A1DD | COL4A2|CCT5 | COL4A2 | CCT5 | 13 | 5 | 1 | 1 | 2 | 21 | 14 | 0.82 | 111165374 | 10250033 | tier3 | 3UTR-5UTR | 4027 | NA | 0.37151 |
| SARC | TCGA-FX-A48G-01A | TCGA-FX-A48G | COL4A2|NUBPL | COL4A2 | NUBPL | 13 | 14 | 1 | 1 | 2 | 2 | 1 | 8.3 | 110960470 | 32068495 | tier2 | In-frame | 4031 | non-validated | 0.36114 |
| HNSC | TCGA-MT-A51X-01A | TCGA-MT-A51X | ANXA1|TLN1 | ANXA1 | TLN1 | 9 | 9 | 1 | -1 | 2 | 1 | 1 | 0.69 | 75785309 | 35720506 | tier3 | 3UTR-CDS | 1043 | NA | 0.38269 |
| SARC | TCGA-K1-A6RU-01A | TCGA-K1-A6RU | AGTPBP1|DAPK1 | AGTPBP1 | DAPK1 | 9 | 9 | -1 | 1 | 2 | 3 | 3 | 0.077 | 88356690 | 90252858 | tier2 | 5UTR-CDS | 675 | NA | 0.38413 |
| PRAD | TCGA-CH-5794-01A | TCGA-CH-5794 | TAOK3|AGTPBP1 | TAOK3 | AGTPBP1 | 12 | 9 | -1 | -1 | 3 | 2 | 2 | 0.016 | 118810453 | 88327481 | tier1 | 5UTR-5UTR | 17409 | NA | 0 |
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