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-A18T-01A | TCGA-BH-A18T | HUWE1|PHF8 | HUWE1 | PHF8 | X | X | -1 | -1 | 44 | 48 | 42 | 0.075 | 53634484 | 53970676 | tier1 | Out-of-frame | 8042 | NA | 0.37261 |
| UCEC | TCGA-AJ-A6NU-01A | TCGA-AJ-A6NU | HUWE1|PHF8 | HUWE1 | PHF8 | X | X | -1 | -1 | 3 | 2 | 2 | 0.075 | 53635813 | 54049276 | tier1 | Out-of-frame | 8041 | NA | 0.37261 |
| PRAD | TCGA-EJ-5527-01A | TCGA-EJ-5527 | CRY1|HPSE2 | CRY1 | HPSE2 | 12 | 10 | -1 | -1 | 4 | 4 | 2 | 0.27 | 107486582 | 100249953 | tier1 | Out-of-frame | 4249 | NA | 0.36705 |
| PRAD | TCGA-YL-A9WJ-01A | TCGA-YL-A9WJ | ERLIN1|HPSE2 | ERLIN1 | HPSE2 | 10 | 10 | -1 | -1 | 2 | 1 | 1 | 1.6 | 101923761 | 100219496 | tier3 | Out-of-frame | 5784 | NA | 0.34522 |
| SKCM | TCGA-D3-A8GB-06A | TCGA-D3-A8GB | LSM4|ADRBK1 | LSM4 | ADRBK1 | 19 | 11 | -1 | 1 | 7 | 61 | 56 | 0.14 | 18433828 | 67046671 | tier1 | Out-of-frame | 9634 | NA | 0.38715 |
| BRCA | TCGA-BH-A0W3-01A | TCGA-BH-A0W3 | IGSF3|KDM2A | IGSF3 | KDM2A | 1 | 11 | -1 | 1 | 27 | 27 | 22 | 0.003 | 117208906 | 66947550 | tier2 | Out-of-frame | 8130 | NA | 0.34214 |
| BRCA | TCGA-BH-A201-01A | TCGA-BH-A201 | PCF11|KDM2A | PCF11 | KDM2A | 11 | 11 | 1 | 1 | 98 | 65 | 62 | 0.15 | 82868673 | 66974981 | tier1 | Out-of-frame | 12393 | NA | 0.34404 |
| BRCA | TCGA-E2-A1IU-01A | TCGA-E2-A1IU | PPP2R5B|KDM2A | PPP2R5B | KDM2A | 11 | 11 | 1 | 1 | 5 | 4 | 4 | 0.64 | 64685112 | 66982811 | tier1 | NA | 13409 | NA | 0.35411 |
| LUSC | TCGA-85-8584-01A | TCGA-85-8584 | PC|KDM2A | PC | KDM2A | 11 | 11 | -1 | 1 | 24 | 5 | 5 | 0.28 | 66719901 | 67012660 | tier1 | 5UTR-CDS | 12358 | NA | 0.33503 |
| BRCA | TCGA-B6-A0I6-01A | TCGA-B6-A0I6 | PPP1R16A|ADCK5 | PPP1R16A | ADCK5 | 8 | 8 | 1 | 1 | 15 | 12 | 12 | 0.054 | 145715595 | 145615871 | tier1 | 5UTR-CDS | 13374 | validated | 0.36126 |
| LUSC | TCGA-85-6175-01A | TCGA-85-6175 | TSC22D2|ADCY5 | TSC22D2 | ADCY5 | 3 | 3 | 1 | -1 | 6 | 3 | 2 | 0.36 | 150129095 | 123071428 | tier1 | Out-of-frame | 18756 | NA | 0 |
| GBM | TCGA-06-0238-01A | TCGA-06-0238 | FOXM1|SLC2A14 | FOXM1 | SLC2A14 | 12 | 12 | -1 | -1 | 2 | 1 | 1 | 0.51 | 2977729 | 7970630 | tier3 | In-frame | 6669 | NA | 0.36975 |
| LIHC | TCGA-DD-A39X-01A | TCGA-DD-A39X | WAPAL|MMRN2 | WAPAL | MMRN2 | 10 | 10 | -1 | -1 | 17 | 12 | 12 | 0.076 | 88277328 | 88696882 | tier1 | In-frame | 19703 | NA | 0 |
| BRCA | TCGA-A2-A1FW-01A | TCGA-A2-A1FW | CDC42SE1|TNKS | CDC42SE1 | TNKS | 1 | 8 | -1 | 1 | 77 | 38 | 36 | 0.31 | 151031955 | 9619026 | tier1 | 5UTR-CDS | 3357 | NA | 0.37431 |
| LGG | TCGA-VM-A8CD-01A | TCGA-VM-A8CD | SEC24A|KCNK7 | SEC24A | KCNK7 | 5 | 11 | 1 | -1 | 118 | 74 | 66 | 0.1 | 133984863 | 65361345 | tier1 | In-frame | 15514 | NA | 0 |
| BRCA | TCGA-A2-A0ES-01A | TCGA-A2-A0ES | RAP1B|GLIPR1L1 | RAP1B | GLIPR1L1 | 12 | 12 | 1 | 1 | 2 | 6 | 6 | 100 | 69004823 | 75737473 | tier2 | 5UTR-CDS | 14273 | NA | 0 |
| SKCM | TCGA-EE-A2MS-06A | TCGA-EE-A2MS | ZDHHC17|GLIPR1L1 | ZDHHC17 | GLIPR1L1 | 12 | 12 | 1 | 1 | 60 | 54 | 53 | 0.21 | 77158109 | 75756882 | tier1 | Out-of-frame | 20203 | NA | 0 |
| SARC | TCGA-HS-A5N9-01A | TCGA-HS-A5N9 | XPC|DAG1 | XPC | DAG1 | 3 | 3 | -1 | 1 | 37 | 15 | 14 | 2.8 | 14219966 | 49547852 | tier1 | CDS-5UTR | 19954 | NA | 0 |
| SKCM | TCGA-GN-A8LL-06A | TCGA-GN-A8LL | CENPM|AGR3 | CENPM | AGR3 | 22 | 7 | -1 | -1 | 3 | 1 | 1 | 0.32 | 42341229 | 16901684 | tier2 | In-frame | 3523 | NA | 0.34363 |
| HNSC | TCGA-CV-6962-01A | TCGA-CV-6962 | SCAP|SMARCC1 | SCAP | SMARCC1 | 3 | 3 | -1 | -1 | 7 | 68 | 55 | 1 | 47517289 | 47712207 | tier1 | 5UTR-CDS | 15380 | NA | 0 |
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