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-E2-A1L8-01A | TCGA-E2-A1L8 | NELL2|ATF7 | NELL2 | ATF7 | 12 | 12 | -1 | -1 | 5 | 8 | 8 | 0.86 | 45315573 | 53946421 | tier1 | NA | 11369 | NA | 0.38088 |
| SARC | TCGA-3B-A9HL-01A | TCGA-3B-A9HL | NELL2|MUC21 | NELL2 | MUC21 | 12 | 6 | -1 | 1 | 17 | 6 | 5 | 0.47 | 45059267 | 30954014 | tier1 | In-frame | 11370 | NA | 0.35453 |
| ESCA | TCGA-JY-A938-01A | TCGA-JY-A938 | IMMP2L|DOCK4 | IMMP2L | DOCK4 | 7 | 7 | -1 | -1 | 2 | 6 | 5 | 0.12 | 111127294 | 111452005 | tier2 | In-frame | 8214 | NA | 0.35724 |
| GBM | TCGA-06-0184-01A | TCGA-06-0184 | IMMP2L|DYNC1I1 | IMMP2L | DYNC1I1 | 7 | 7 | -1 | 1 | 5 | 10 | 10 | 1.9 | 110526649 | 95657487 | tier1 | In-frame | 8216 | NA | 0.36282 |
| PRAD | TCGA-YJ-A8SW-01A | TCGA-YJ-A8SW | IMMP2L|DOCK4 | IMMP2L | DOCK4 | 7 | 7 | -1 | -1 | 2 | 2 | 2 | 0.12 | 111161369 | 111409733 | tier2 | Out-of-frame | 8215 | NA | 0.35724 |
| STAD | TCGA-D7-A4YU-01A | TCGA-D7-A4YU | IMMP2L|DOCK4 | IMMP2L | DOCK4 | 7 | 7 | -1 | -1 | 3 | 10 | 8 | 0.12 | 111201907 | 111644186 | tier1 | 5UTR-CDS | 8213 | NA | 0.35724 |
| BRCA | TCGA-BH-A0AV-01A | TCGA-BH-A0AV | CA13|RBKS | CA13 | RBKS | 8 | 2 | 1 | -1 | 7 | 6 | 4 | 3.3 | 86180856 | 28055644 | tier1 | Out-of-frame | 2834 | non-validated | 0.33594 |
| HNSC | TCGA-P3-A6T4-01A | TCGA-P3-A6T4 | CA13|E2F5 | CA13 | E2F5 | 8 | 8 | 1 | 1 | 3 | 1 | 1 | 0.89 | 86163166 | 86114382 | tier2 | Out-of-frame | 2833 | NA | 0.3653 |
| KIRC | TCGA-B0-4690-01A | TCGA-B0-4690 | SEMA4B|WDR93 | SEMA4B | WDR93 | 15 | 15 | 1 | 1 | 3 | 1 | 1 | 0.33 | 90728313 | 90255257 | tier2 | 5UTR-CDS | 15556 | NA | 0 |
| LIHC | TCGA-WJ-A86L-01A | TCGA-WJ-A86L | SEMA4B|ZNF710 | SEMA4B | ZNF710 | 15 | 15 | 1 | 1 | 20 | 11 | 10 | 0.18 | 90764997 | 90610342 | tier1 | CDS-5UTR | 15559 | NA | 0 |
| LUAD | TCGA-J2-A4AD-01A | TCGA-J2-A4AD | SEMA4B|CERS3 | SEMA4B | CERS3 | 15 | 15 | 1 | -1 | 13 | 6 | 6 | 1.8 | 90761061 | 100943070 | tier4 | In-frame | 15553 | NA | 0 |
| LUAD | TCGA-99-8033-01A | TCGA-99-8033 | SEMA4B|ZNF710 | SEMA4B | ZNF710 | 15 | 15 | 1 | 1 | 3 | 2 | 2 | 0.18 | 90728313 | 90610342 | tier1 | 5UTR-5UTR | 15557 | NA | 0 |
| PRAD | TCGA-ZG-A9KY-01A | TCGA-ZG-A9KY | SEMA4B|PIAS1 | SEMA4B | PIAS1 | 15 | 15 | 1 | 1 | 3 | 1 | 1 | 0.033 | 90728313 | 68479880 | tier3 | 5UTR-CDS | 15555 | NA | 0 |
| STAD | TCGA-VQ-AA6D-01A | TCGA-VQ-AA6D | SEMA4B|CIB2 | SEMA4B | CIB2 | 15 | 15 | 1 | -1 | 21 | 343 | 287 | 0.062 | 90728313 | 78403618 | tier1 | 5UTR-CDS | 15554 | NA | 0 |
| STAD | TCGA-BR-7901-01A | TCGA-BR-7901 | SEMA4B|ZNF710 | SEMA4B | ZNF710 | 15 | 15 | 1 | 1 | 4 | 6 | 6 | 0.18 | 90728313 | 90622892 | tier1 | 5UTR-CDS | 15558 | NA | 0 |
| BRCA | TCGA-B6-A0WX-01A | TCGA-B6-A0WX | SLC24A3|PLCB4 | SLC24A3 | PLCB4 | 20 | 20 | 1 | 1 | 2 | 4 | 4 | 0.81 | 19566188 | 9343543 | tier2 | In-frame | 16082 | non-validated | 0 |
| LUSC | TCGA-98-8021-01A | TCGA-98-8021 | SLC24A3|MACROD2 | SLC24A3 | MACROD2 | 20 | 20 | 1 | 1 | 5 | 6 | 5 | 0.69 | 19566188 | 15843390 | tier1 | In-frame | 16081 | NA | 0 |
| SKCM | TCGA-FS-A4F4-06A | TCGA-FS-A4F4 | PRMT3|C10orf112 | PRMT3 | C10orf112 | 11 | 10 | 1 | 1 | 5 | 2 | 2 | 0.44 | 20515800 | 19676457 | tier1 | In-frame | 13586 | NA | 0 |
| LUAD | TCGA-55-A48Y-01A | TCGA-55-A48Y | CDK10|SPG7 | CDK10 | SPG7 | 16 | 16 | 1 | 1 | 8 | 5 | 5 | 0.37 | 89753167 | 89611056 | tier1 | 5UTR-CDS | 3399 | NA | 0.38251 |
| LUAD | TCGA-78-7150-01A | TCGA-78-7150 | CDK10|C16orf55 | CDK10 | C16orf55 | 16 | 16 | 1 | 1 | 39 | 32 | 21 | 3.2 | 89758924 | 89735694 | tier4 | Out-of-frame | 3398 | NA | 0 |
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