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 |
| BRCA | TCGA-BH-A6R9-01A | TCGA-BH-A6R9 | B3GNTL1|CLCN4 | B3GNTL1 | CLCN4 | 17 | X | -1 | 1 | 2 | 3 | 3 | 0.33 | 81006347 | 10153062 | tier4 | CDS-5UTR | 1859 | NA | 0.34091 |
| LUSC | TCGA-56-8307-01A | TCGA-56-8307 | CDKAL1|CLCN4 | CDKAL1 | CLCN4 | 6 | X | 1 | 1 | 4 | 4 | 3 | 2.7 | 20535625 | 10153062 | tier1 | 5UTR-5UTR | 3447 | NA | 0.33816 |
| STAD | TCGA-BR-8486-01A | TCGA-BR-8486 | CERS6|ABCB11 | CERS6 | ABCB11 | 2 | 2 | 1 | -1 | 8 | 17 | 15 | 0.33 | 169487552 | 169801471 | tier1 | In-frame | 3576 | non-validated | 0.3459 |
| LUSC | TCGA-63-A5MV-01A | TCGA-63-A5MV | AC113191.1|ST6GAL1 | AC113191.1 | ST6GAL1 | 8 | 3 | 1 | 1 | 6 | 8 | 8 | 0.31 | 42958973 | 186681573 | tier1 | CDS-5UTR | 218 | NA | 0.33262 |
| LUSC | TCGA-66-2756-01A | TCGA-66-2756 | LPP|ST6GAL1 | LPP | ST6GAL1 | 3 | 3 | 1 | 1 | 7 | 9 | 9 | 0.87 | 187871809 | 186790637 | tier1 | 5UTR-CDS | 9467 | non-validated | 0.36661 |
| LUSC | TCGA-79-5596-01A | TCGA-79-5596 | SREK1|ST6GAL1 | SREK1 | ST6GAL1 | 5 | 3 | 1 | 1 | 13 | 7 | 7 | 0.092 | 65449424 | 186756530 | tier1 | CDS-5UTR | 16836 | NA | 0 |
| LUAD | TCGA-05-4427-01A | TCGA-05-4427 | KIAA0182|NOTCH3 | KIAA0182 | NOTCH3 | 16 | 19 | 1 | -1 | 30 | 12 | 12 | 0.051 | 85647004 | 15276902 | tier1 | In-frame | 8746 | NA | 0.37392 |
| BRCA | TCGA-AC-A8OQ-01A | TCGA-AC-A8OQ | SHPK|ATP2A3 | SHPK | ATP2A3 | 17 | 17 | -1 | -1 | 7 | 3 | 3 | 0.17 | 3527342 | 3857004 | tier1 | Out-of-frame | 15890 | NA | 0 |
| PRAD | TCGA-HC-A6AN-01A | TCGA-HC-A6AN | USP22|ATP2A3 | USP22 | ATP2A3 | 17 | 17 | -1 | -1 | 2 | 2 | 2 | 0.91 | 20945978 | 3848442 | tier3 | In-frame | 19324 | NA | 0 |
| SKCM | TCGA-D9-A6E9-06A | TCGA-D9-A6E9 | C17orf85|ATP2A3 | C17orf85 | ATP2A3 | 17 | 17 | -1 | -1 | 5 | 5 | 5 | 0.19 | 3717616 | 3857004 | tier1 | In-frame | 2533 | NA | 0 |
| STAD | TCGA-BR-7901-01A | TCGA-BR-7901 | NBEAL2|ATP2A3 | NBEAL2 | ATP2A3 | 3 | 17 | 1 | -1 | 4 | 20 | 17 | 0.01 | 47021402 | 3848442 | tier1 | In-frame | 11127 | NA | 0.36534 |
| ACC | TCGA-OR-A5JA-01A | TCGA-OR-A5JA | FRS2|NTN4 | FRS2 | NTN4 | 12 | 12 | 1 | -1 | 2 | 2 | 1 | 0.25 | 69864310 | 96063922 | tier3 | 5UTR-CDS | 6768 | NA | 0.37869 |
| BRCA | TCGA-AR-A1AV-01A | TCGA-AR-A1AV | DNAJC22|NTN4 | DNAJC22 | NTN4 | 12 | 12 | 1 | -1 | 6 | 3 | 3 | 0.34 | 49741334 | 96131922 | tier1 | 5UTR-CDS | 4944 | NA | 0.35494 |
| SARC | TCGA-DX-A23V-01A | TCGA-DX-A23V | DRAM1|NTN4 | DRAM1 | NTN4 | 12 | 12 | 1 | -1 | 66 | 58 | 50 | 0.037 | 102271698 | 96063922 | tier1 | Out-of-frame | 5106 | NA | 0.34723 |
| SARC | TCGA-X6-A8C6-01A | TCGA-X6-A8C6 | R3HDM2|NTN4 | R3HDM2 | NTN4 | 12 | 12 | -1 | -1 | 5 | 10 | 9 | 0.16 | 57789532 | 96077487 | tier1 | 5UTR-CDS | 14026 | NA | 0 |
| SARC | TCGA-PC-A5DN-01A | TCGA-PC-A5DN | GTF2H3|NUAK1 | GTF2H3 | NUAK1 | 12 | 12 | 1 | -1 | 3 | 7 | 7 | 0.053 | 124118419 | 106466621 | tier1 | Out-of-frame | 7535 | NA | 0.37497 |
| BLCA | TCGA-DK-AA6W-01A | TCGA-DK-AA6W | C15orf44|SLC24A1 | C15orf44 | SLC24A1 | 15 | 15 | -1 | 1 | 8 | 4 | 1 | 1.9 | 65903134 | 65911218 | tier2 | 5UTR-5UTR | 2477 | NA | 0 |
| HNSC | TCGA-P3-A6T6-01A | TCGA-P3-A6T6 | DENND4A|SLC24A1 | DENND4A | SLC24A1 | 15 | 15 | -1 | 1 | 7 | 8 | 6 | 0.43 | 65982753 | 65947068 | tier1 | NA | 4711 | NA | 0.35539 |
| SARC | TCGA-DX-A1L3-01A | TCGA-DX-A1L3 | ATXN1|SLC24A1 | ATXN1 | SLC24A1 | 6 | 15 | -1 | 1 | 72 | 49 | 41 | 0.18 | 16486203 | 65911218 | tier1 | 5UTR-5UTR | 1806 | non-validated | 0.36294 |
| BRCA | TCGA-B6-A0I9-01A | TCGA-B6-A0I9 | TRADD|SLC12A1 | TRADD | SLC12A1 | 16 | 15 | -1 | 1 | 23 | 102 | 97 | 0.24 | 67193741 | 48548008 | tier1 | 5UTR-CDS | 18541 | NA | 0 |
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