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-BC-4072-01B | TCGA-BC-4072 | PKN1|ANXA4 | PKN1 | ANXA4 | 19 | 2 | 1 | 1 | 72 | 36 | 31 | 2.9 | 14574965 | 70015186 | tier1 | In-frame | 12921 | NA | 0.3846 |
| STAD | TCGA-CG-4449-01A | TCGA-CG-4449 | CD97|EPS15L1 | CD97 | EPS15L1 | 19 | 19 | 1 | -1 | 18 | 7 | 6 | 1.2 | 14492357 | 16528448 | tier1 | Out-of-frame | 3311 | NA | 0.3707 |
| PRAD | TCGA-HC-7233-01A | TCGA-HC-7233 | EBPL|MIPEP | EBPL | MIPEP | 13 | 13 | -1 | -1 | 4 | 8 | 7 | 100 | 50265390 | 24334356 | tier1 | In-frame | 5255 | non-validated | 0.3395 |
| HNSC | TCGA-BA-5555-01A | TCGA-BA-5555 | EBPL|LPAR6 | EBPL | LPAR6 | 13 | 13 | -1 | -1 | 2 | 9 | 8 | 1.3 | 50265390 | 48989946 | tier4 | CDS-5UTR | 5254 | NA | 0.3325 |
| LUAD | TCGA-78-7150-01A | TCGA-78-7150 | ATF1|GRIP1 | ATF1 | GRIP1 | 12 | 12 | 1 | -1 | 3 | 2 | 2 | 1.4 | 51174021 | 66990707 | tier1 | Out-of-frame | 1595 | NA | 0.38052 |
| HNSC | TCGA-BA-6871-01A | TCGA-BA-6871 | NR4A1|IL20RB | NR4A1 | IL20RB | 12 | 3 | 1 | 1 | 9 | 10 | 10 | 0.006 | 52435713 | 136699308 | tier1 | In-frame | 11726 | NA | 0.3803 |
| SARC | TCGA-DX-A3LW-01A | TCGA-DX-A3LW | CDK2|PAN2 | CDK2 | PAN2 | 12 | 12 | 1 | -1 | 5 | 8 | 7 | 1.5 | 56363360 | 56719238 | tier1 | In-frame | 3426 | non-validated | 0.38276 |
| SKCM | TCGA-EE-A2ML-06A | TCGA-EE-A2ML | CDK2|UBE3A | CDK2 | UBE3A | 12 | 15 | 1 | -1 | 2 | 4 | 3 | 5.1 | 56366568 | 25657118 | tier4 | 3UTR-5UTR | 3427 | NA | 0.38685 |
| SARC | TCGA-DX-AB2G-01A | TCGA-DX-AB2G | LRP1|ATF1 | LRP1 | ATF1 | 12 | 12 | 1 | 1 | 13 | 2 | 2 | 1.2 | 57539273 | 51189692 | tier1 | Out-of-frame | 9504 | NA | 0.38868 |
| UCS | TCGA-NA-A5I1-01A | TCGA-NA-A5I1 | LRP1|SLC39A5 | LRP1 | SLC39A5 | 12 | 12 | 1 | 1 | 51 | 28 | 26 | 0.31 | 57522814 | 56624988 | tier1 | CDS-5UTR | 9509 | NA | 0.37776 |
| PRAD | TCGA-SU-A7E7-01A | TCGA-SU-A7E7 | LRP1|KLK3 | LRP1 | KLK3 | 12 | 19 | 1 | 1 | 2 | 2 | 1 | 1 | 57548153 | 51358191 | tier4 | CDS-5UTR | 9507 | NA | 0.3794 |
| GBM | TCGA-06-0686-01A | TCGA-06-0686 | LRP1|XPO5 | LRP1 | XPO5 | 12 | 6 | 1 | -1 | 3 | 9 | 8 | 0.82 | 57539273 | 43530083 | tier1 | Out-of-frame | 9511 | validated | 0.37957 |
| SARC | TCGA-DX-A3U6-01A | TCGA-DX-A3U6 | LRP1|CAND1 | LRP1 | CAND1 | 12 | 12 | 1 | 1 | 15 | 29 | 25 | 1.7 | 57596320 | 67686402 | tier2 | Out-of-frame | 9505 | non-validated | 0.3848 |
| SARC | TCGA-3B-A9HS-01A | TCGA-3B-A9HS | LRP1|FAM19A2 | LRP1 | FAM19A2 | 12 | 12 | 1 | -1 | 166 | 95 | 89 | 0.18 | 57569488 | 62104198 | tier1 | Out-of-frame | 9506 | NA | 0.37694 |
| SARC | TCGA-DX-AB2G-01A | TCGA-DX-AB2G | LRP1|MCRS1 | LRP1 | MCRS1 | 12 | 12 | 1 | -1 | 2722 | 1792 | 1698 | 0.29 | 57604662 | 49953604 | tier1 | In-frame | 9508 | NA | 0.38097 |
| SKCM | TCGA-GF-A769-01A | TCGA-GF-A769 | LRP1|TMEM194A | LRP1 | TMEM194A | 12 | 12 | 1 | -1 | 25 | 7 | 6 | 3 | 57537581 | 57466695 | tier1 | In-frame | 9510 | NA | 0.37731 |
| UCS | TCGA-NA-A5I1-01A | TCGA-NA-A5I1 | AMD1|FIG4 | AMD1 | FIG4 | 6 | 6 | 1 | 1 | 195 | 85 | 16 | 4.5 | 111196418 | 110146291 | tier1 | 5UTR-CDS | 871 | NA | 0.34557 |
| LGG | TCGA-HT-7902-01A | TCGA-HT-7902 | PLP1|SGK1 | PLP1 | SGK1 | X | 6 | 1 | -1 | 2 | 1 | 1 | 1.2 | 103047545 | 134639049 | tier3 | NA | 13044 | NA | 0.37969 |
| SARC | TCGA-HB-A3YV-01A | TCGA-HB-A3YV | PLP1|SCAF8 | PLP1 | SCAF8 | X | 6 | 1 | 1 | 17 | 11 | 11 | 0.16 | 103031927 | 155095123 | tier1 | Out-of-frame | 13043 | NA | 0.341 |
| LUSC | TCGA-33-6738-01A | TCGA-33-6738 | RAB9A|EGFL6 | RAB9A | EGFL6 | X | X | 1 | 1 | 16 | 16 | 16 | 0.17 | 13707407 | 13635849 | tier1 | 5UTR-CDS | 14131 | NA | 0 |
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