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 |
| LUSC | TCGA-85-A50M-01A | TCGA-85-A50M | NSD1|C11orf58 | NSD1 | C11orf58 | 5 | 11 | 1 | 1 | 23 | 31 | 28 | 0.27 | 176666866 | 16766148 | tier1 | In-frame | 11772 | NA | 0 |
| LUSC | TCGA-NC-A5HL-01A | TCGA-NC-A5HL | NSD1|ZNF346 | NSD1 | ZNF346 | 5 | 5 | 1 | 1 | 23 | 12 | 12 | 0.1 | 176696808 | 176468127 | tier1 | In-frame | 11787 | NA | 0.37242 |
| OV | TCGA-24-1427-01A | TCGA-24-1427 | NSD1|ZNF346 | NSD1 | ZNF346 | 5 | 5 | 1 | 1 | 8 | 4 | 4 | 0.1 | 176678854 | 176468127 | tier2 | In-frame | 11783 | NA | 0.37242 |
| SARC | TCGA-3B-A9HR-01A | TCGA-3B-A9HR | NSD1|ARHGAP26 | NSD1 | ARHGAP26 | 5 | 5 | 1 | 1 | 39 | 33 | 32 | 0.35 | 176639196 | 142287269 | tier1 | In-frame | 11771 | NA | 0.38657 |
| BRCA | TCGA-A8-A08G-01A | TCGA-A8-A08G | ENOX2|OSBPL5 | ENOX2 | OSBPL5 | X | 11 | -1 | -1 | 15 | 10 | 10 | 7.1 | 129761932 | 3150399 | tier1 | CDS-5UTR | 5594 | NA | 0.36417 |
| PRAD | TCGA-HC-7736-01A | TCGA-HC-7736 | ENOX2|SMARCA1 | ENOX2 | SMARCA1 | X | X | -1 | -1 | 2 | 3 | 3 | 0.18 | 129837094 | 128605303 | tier4 | Out-of-frame | 5595 | NA | 0.37031 |
| BLCA | TCGA-BL-A0C8-01B | TCGA-BL-A0C8 | HPRT1|LRRC2 | HPRT1 | LRRC2 | X | 3 | 1 | -1 | 2 | 3 | 2 | 0.25 | 133620560 | 46593100 | tier2 | CDS-5UTR | 7952 | non-validated | 0.35727 |
| BRCA | TCGA-AR-A24W-01A | TCGA-AR-A24W | HPRT1|CTPS2 | HPRT1 | CTPS2 | X | X | 1 | -1 | 483 | 411 | 374 | 2.6 | 133609394 | 16657366 | tier1 | In-frame | 7951 | NA | 0.35342 |
| THCA | TCGA-E8-A44M-01A | TCGA-E8-A44M | RET|ANK3 | RET | ANK3 | 10 | 10 | 1 | -1 | 6 | 5 | 4 | 0.07 | 43604678 | 61789584 | tier1 | CDS-3UTR | 14567 | NA | 0 |
| THCA | TCGA-DJ-A4V5-01A | TCGA-DJ-A4V5 | RET|CCDC6 | RET | CCDC6 | 10 | 10 | 1 | -1 | 3 | 1 | 1 | 0.34 | 43610184 | 61612460 | tier3 | In-frame | 14568 | NA | 0 |
| THCA | TCGA-CE-A482-01A | TCGA-CE-A482 | RET|NCOA4 | RET | NCOA4 | 10 | 10 | 1 | 1 | 9 | 3 | 3 | 0.22 | 43610184 | 51584616 | tier1 | In-frame | 14569 | NA | 0 |
| SKCM | TCGA-EB-A51B-01A | TCGA-EB-A51B | STK32C|PWWP2B | STK32C | PWWP2B | 10 | 10 | -1 | 1 | 2 | 2 | 2 | 0.056 | 134022538 | 134230565 | tier4 | CDS-3UTR | 17078 | NA | 0 |
| SKCM | TCGA-Z2-AA3V-06A | TCGA-Z2-AA3V | STK32C|PWWP2B | STK32C | PWWP2B | 10 | 10 | -1 | 1 | 2 | 2 | 2 | 0.056 | 134059404 | 134230565 | tier4 | 5UTR-3UTR | 17079 | NA | 0 |
| LUAD | TCGA-93-A4JQ-01A | TCGA-93-A4JQ | CASP7|C10orf137 | CASP7 | C10orf137 | 10 | 10 | 1 | 1 | 6 | 3 | 3 | 1.5 | 115457362 | 127426487 | tier1 | Out-of-frame | 3019 | NA | 0 |
| PRAD | TCGA-TP-A8TT-01A | TCGA-TP-A8TT | CASP7|LRRC27 | CASP7 | LRRC27 | 10 | 10 | 1 | 1 | 18 | 31 | 28 | 0.78 | 115439737 | 134165111 | tier1 | 5UTR-CDS | 3020 | NA | 0.37269 |
| LGG | TCGA-P5-A5EU-01A | TCGA-P5-A5EU | VWA2|IDE | VWA2 | IDE | 10 | 10 | 1 | -1 | 2 | 2 | 2 | 2.1 | 116042330 | 94297307 | tier2 | Out-of-frame | 19696 | NA | 0 |
| LIHC | TCGA-DD-AAVR-01A | TCGA-DD-AAVR | CYP2C19|TBC1D12 | CYP2C19 | TBC1D12 | 10 | 10 | 1 | 1 | 2 | 2 | 2 | 1.2 | 96541754 | 96290959 | tier2 | Out-of-frame | 4500 | NA | 0.34865 |
| BRCA | TCGA-D8-A1XZ-01A | TCGA-D8-A1XZ | NELL1|CCDC83 | NELL1 | CCDC83 | 11 | 11 | 1 | 1 | 5 | 5 | 5 | 0.97 | 20982106 | 85576139 | tier1 | CDS-5UTR | 11368 | NA | 0.35839 |
| SKCM | TCGA-ER-A19H-06A | TCGA-ER-A19H | NELL1|C11orf75 | NELL1 | C11orf75 | 11 | 11 | 1 | -1 | 17 | 16 | 16 | 1.6 | 20907086 | 93232514 | tier1 | CDS-5UTR | 11367 | NA | 0 |
| BRCA | TCGA-C8-A12L-01A | TCGA-C8-A12L | HTRA1|TYK2 | HTRA1 | TYK2 | 10 | 19 | 1 | -1 | 2 | 1 | 1 | 0.33 | 124274423 | 10491352 | tier2 | 3UTR-5UTR | 8032 | non-validated | 0.37741 |
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