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 |
| SKCM | TCGA-WE-A8ZR-06A | TCGA-WE-A8ZR | FRMD4B|ABCA5 | FRMD4B | ABCA5 | 3 | 17 | -1 | -1 | 13 | 4 | 3 | 0.012 | 69336903 | 67252424 | tier1 | Out-of-frame | 6724 | NA | 0.3514 |
| BRCA | TCGA-OL-A6VO-01A | TCGA-OL-A6VO | RP4-761I2.2|ENPP3 | RP4-761I2.2 | ENPP3 | 6 | 6 | 1 | 1 | 3 | 2 | 2 | 0.047 | 11094622 | 131958375 | tier1 | CDS-5UTR | 14959 | NA | 0 |
| BLCA | TCGA-2F-A9KW-01A | TCGA-2F-A9KW | LIMCH1|UCHL1 | LIMCH1 | UCHL1 | 4 | 4 | 1 | 1 | 257 | 224 | 189 | 0.3 | 41362953 | 41265242 | tier1 | In-frame | 9342 | NA | 0.36487 |
| PRAD | TCGA-EJ-A46G-01A | TCGA-EJ-A46G | LIMCH1|UCHL1 | LIMCH1 | UCHL1 | 4 | 4 | 1 | 1 | 2 | 5 | 5 | 0.3 | 41526495 | 41258610 | tier3 | NA | 9344 | NA | 0.36487 |
| UCEC | TCGA-A5-A7WK-01A | TCGA-A5-A7WK | LIMCH1|UCHL1 | LIMCH1 | UCHL1 | 4 | 4 | 1 | 1 | 29 | 57 | 50 | 0.3 | 41526495 | 41258610 | tier1 | NA | 9343 | NA | 0.36487 |
| ESCA | TCGA-L5-A88S-01A | TCGA-L5-A88S | FNDC3B|TNIK | FNDC3B | TNIK | 3 | 3 | 1 | -1 | 5 | 44 | 35 | 0.046 | 171851336 | 171065007 | tier1 | Out-of-frame | 6619 | NA | 0.37541 |
| STAD | TCGA-BR-4369-01A | TCGA-BR-4369 | CLIP1|TNIK | CLIP1 | TNIK | 12 | 3 | -1 | -1 | 5 | 10 | 9 | 0.034 | 122861936 | 170908576 | tier1 | In-frame | 3802 | NA | 0.37098 |
| STAD | TCGA-VQ-AA6B-01A | TCGA-VQ-AA6B | SKIL|TNIK | SKIL | TNIK | 3 | 3 | 1 | -1 | 7 | 184 | 161 | 0.086 | 170079217 | 171087474 | tier2 | In-frame | 15988 | NA | 0 |
| BLCA | TCGA-XF-A9SP-01A | TCGA-XF-A9SP | CRISPLD1|LY96 | CRISPLD1 | LY96 | 8 | 8 | 1 | 1 | 2 | 1 | 1 | 0.32 | 75926337 | 74922236 | tier3 | Out-of-frame | 4227 | NA | 0.35229 |
| COAD | TCGA-AY-A71X-01A | TCGA-AY-A71X | JPH1|LY96 | JPH1 | LY96 | 8 | 8 | -1 | 1 | 3 | 1 | 1 | 0.027 | 75149443 | 74922236 | tier3 | 3UTR-CDS | 8502 | NA | 0.35854 |
| PRAD | TCGA-G9-6361-01A | TCGA-G9-6361 | USP48|PSMA8 | USP48 | PSMA8 | 1 | 18 | -1 | 1 | 10 | 10 | 10 | 0.3 | 22078000 | 23724523 | tier1 | In-frame | 19404 | NA | 0 |
| BRCA | TCGA-AO-A12D-01A | TCGA-AO-A12D | ANK3|TMPRSS15 | ANK3 | TMPRSS15 | 10 | 21 | -1 | -1 | 2 | 1 | 1 | 0.049 | 61894029 | 19687573 | tier2 | Out-of-frame | 910 | NA | 0.36802 |
| LGG | TCGA-P5-A72W-01A | TCGA-P5-A72W | NCAM2|TMPRSS15 | NCAM2 | TMPRSS15 | 21 | 21 | 1 | -1 | 3 | 3 | 3 | 0.008 | 22370936 | 19653538 | tier1 | Out-of-frame | 11145 | NA | 0.35169 |
| BRCA | TCGA-A7-A2KD-01A | TCGA-A7-A2KD | ADNP2|L3MBTL4 | ADNP2 | L3MBTL4 | 18 | 18 | 1 | -1 | 4 | 7 | 7 | 0.071 | 77867356 | 6215834 | tier1 | 5UTR-CDS | 535 | NA | 0.3404 |
| SARC | TCGA-DX-AB2W-01A | TCGA-DX-AB2W | NIPBL|L3MBTL4 | NIPBL | L3MBTL4 | 5 | 18 | 1 | -1 | 3 | 3 | 3 | 0.04 | 36877280 | 6171941 | tier2 | 5UTR-CDS | 11558 | NA | 0.34781 |
| THCA | TCGA-EL-A3H4-01A | TCGA-EL-A3H4 | DNAJC6|PDE1C | DNAJC6 | PDE1C | 1 | 7 | 1 | -1 | 2 | 5 | 4 | 1.8 | 65855310 | 31815346 | tier3 | In-frame | 4953 | NA | 0.36444 |
| UCEC | TCGA-AJ-A3QS-01A | TCGA-AJ-A3QS | GABPA|JAM2 | GABPA | JAM2 | 21 | 21 | 1 | 1 | 17 | 32 | 27 | 0.23 | 27113986 | 27078291 | tier1 | Out-of-frame | 6893 | NA | 0.37257 |
| BRCA | TCGA-BH-A0EE-01A | TCGA-BH-A0EE | GCFC1|ADAMTS1 | GCFC1 | ADAMTS1 | 21 | 21 | -1 | -1 | 2 | 2 | 2 | 0.66 | 34142125 | 28215004 | tier3 | In-frame | 7009 | NA | 0.35781 |
| PRAD | TCGA-FC-A4JI-01A | TCGA-FC-A4JI | TTC6|ADAMTS5 | TTC6 | ADAMTS5 | 14 | 21 | 1 | -1 | 2 | 2 | 1 | 0.54 | 38075947 | 28327190 | tier2 | NA | 18861 | NA | 0 |
| BLCA | TCGA-GV-A3JV-01A | TCGA-GV-A3JV | IQSEC1|WNT7A | IQSEC1 | WNT7A | 3 | 3 | -1 | -1 | 551 | 257 | 235 | 1 | 12954928 | 13916670 | tier1 | Out-of-frame | 8333 | NA | 0.34926 |
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