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 |
| STAD | TCGA-IP-7968-01A | TCGA-IP-7968 | RPS6KB1|VMP1 | RPS6KB1 | VMP1 | 17 | 17 | 1 | 1 | 35 | 277 | 234 | 1.4 | 57970686 | 57886157 | tier1 | In-frame | 15087 | NA | 0 |
| BRCA | TCGA-D8-A1XZ-01A | TCGA-D8-A1XZ | CBX1|SSH2 | CBX1 | SSH2 | 17 | 17 | -1 | -1 | 5 | 5 | 5 | 0.005 | 46178630 | 28022541 | tier1 | 5UTR-CDS | 3084 | NA | 0.37088 |
| SKCM | TCGA-EE-A17Y-06A | TCGA-EE-A17Y | RAI1|NOS2 | RAI1 | NOS2 | 17 | 17 | 1 | -1 | 2 | 2 | 1 | 0.33 | 17627473 | 26094863 | tier3 | 5UTR-CDS | 14203 | NA | 0 |
| HNSC | TCGA-P3-A6T6-01A | TCGA-P3-A6T6 | RAI1|LRRC4C | RAI1 | LRRC4C | 17 | 11 | 1 | -1 | 2 | 1 | 1 | 0.091 | 17707163 | 40669828 | tier3 | CDS-5UTR | 14200 | NA | 0 |
| LUAD | TCGA-93-8067-01A | TCGA-93-8067 | RAI1|MRGPRF | RAI1 | MRGPRF | 17 | 11 | 1 | -1 | 2 | 13 | 11 | 0.051 | 17585107 | 68773729 | tier3 | 5UTR-CDS | 14202 | NA | 0 |
| BRCA | TCGA-AC-A8OQ-01A | TCGA-AC-A8OQ | RAI1|SPNS2 | RAI1 | SPNS2 | 17 | 17 | 1 | 1 | 17 | 12 | 12 | 0.34 | 17707163 | 4428352 | tier1 | In-frame | 14206 | NA | 0 |
| BRCA | TCGA-A8-A09Q-01A | TCGA-A8-A09Q | RAI1|IGF2BP1 | RAI1 | IGF2BP1 | 17 | 17 | 1 | 1 | 56 | 60 | 53 | 0.19 | 17627473 | 47076471 | tier1 | 5UTR-CDS | 14199 | NA | 0 |
| HNSC | TCGA-BA-6869-01A | TCGA-BA-6869 | RAI1|PEMT | RAI1 | PEMT | 17 | 17 | 1 | -1 | 16 | 10 | 10 | 0.081 | 17627473 | 17480341 | tier1 | 5UTR-CDS | 14204 | non-validated | 0 |
| LIHC | TCGA-CC-5260-01A | TCGA-CC-5260 | RAI1|MAN1A2 | RAI1 | MAN1A2 | 17 | 1 | 1 | 1 | 5 | 9 | 9 | 2.4 | 17585107 | 117944808 | tier1 | 5UTR-CDS | 14201 | validated | 0 |
| LUSC | TCGA-33-4533-01A | TCGA-33-4533 | RAI1|IFT20 | RAI1 | IFT20 | 17 | 17 | 1 | -1 | 201 | 91 | 70 | 0.92 | 17627473 | 26659013 | tier1 | 5UTR-CDS | 14198 | NA | 0 |
| PRAD | TCGA-HC-A8CY-01A | TCGA-HC-A8CY | RAI1|PEX1 | RAI1 | PEX1 | 17 | 7 | 1 | -1 | 22 | 3 | 3 | 4.2 | 17707163 | 92147569 | tier1 | Out-of-frame | 14205 | NA | 0 |
| SKCM | TCGA-XV-AAZY-01A | TCGA-XV-AAZY | RAI1|C5orf25 | RAI1 | C5orf25 | 17 | 5 | 1 | 1 | 68 | 43 | 36 | 0.98 | 17627473 | 175763723 | tier1 | 5UTR-CDS | 14197 | NA | 0 |
| THYM | TCGA-ZB-A961-01A | TCGA-ZB-A961 | RAI1|ATP5G1 | RAI1 | ATP5G1 | 17 | 17 | 1 | 1 | 8 | 10 | 10 | 0.013 | 17627473 | 46971734 | tier1 | 5UTR-CDS | 14196 | NA | 0 |
| SARC | TCGA-QQ-A5VA-01A | TCGA-QQ-A5VA | BLMH|ABCA9 | BLMH | ABCA9 | 17 | 17 | -1 | -1 | 3 | 4 | 3 | 0.55 | 28612406 | 66992155 | tier1 | In-frame | 2120 | NA | 0.35827 |
| PRAD | TCGA-J4-A67T-01A | TCGA-J4-A67T | CPD|HDAC5 | CPD | HDAC5 | 17 | 17 | 1 | -1 | 87 | 131 | 114 | 0.5 | 28712254 | 42171202 | tier2 | In-frame | 4108 | NA | 0.37379 |
| BLCA | TCGA-XF-AAMX-01A | TCGA-XF-AAMX | CPD|PDE4D | CPD | PDE4D | 17 | 5 | 1 | -1 | 6 | 6 | 5 | 0.22 | 28770989 | 58511794 | tier1 | In-frame | 4110 | NA | 0.36934 |
| BRCA | TCGA-A2-A1FW-01A | TCGA-A2-A1FW | CPD|AATF | CPD | AATF | 17 | 17 | 1 | 1 | 400 | 299 | 280 | 0.2 | 28748001 | 35376304 | tier1 | In-frame | 4107 | NA | 0.36397 |
| BRCA | TCGA-C8-A273-01A | TCGA-C8-A273 | CPD|SKAP1 | CPD | SKAP1 | 17 | 17 | 1 | -1 | 4 | 5 | 4 | 1.8 | 28712254 | 46474147 | tier1 | In-frame | 4112 | NA | 0.37572 |
| BRCA | TCGA-OL-A5D8-01A | TCGA-OL-A5D8 | CPD|TBX2 | CPD | TBX2 | 17 | 17 | 1 | 1 | 8 | 7 | 7 | 0.089 | 28748001 | 59485415 | tier1 | In-frame | 4113 | NA | 0.34645 |
| LUAD | TCGA-69-7761-01A | TCGA-69-7761 | CPD|ORMDL3 | CPD | ORMDL3 | 17 | 17 | 1 | -1 | 30 | 14 | 11 | 0.72 | 28712254 | 38080478 | tier1 | CDS-5UTR | 4109 | NA | 0.35438 |
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