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-56-8622-01A | TCGA-56-8622 | ATP2C1|MBNL1 | ATP2C1 | MBNL1 | 3 | 3 | 1 | 1 | 9 | 7 | 7 | 0.33 | 130613619 | 152132730 | tier1 | In-frame | 1732 | NA | 0.34486 |
| LUSC | TCGA-52-7812-01A | TCGA-52-7812 | ATP2C1|COL6A6 | ATP2C1 | COL6A6 | 3 | 3 | 1 | 1 | 40 | 33 | 29 | 0.44 | 130649370 | 130394046 | tier1 | Out-of-frame | 1730 | validated | 0.34441 |
| PRAD | TCGA-V1-A9O9-01A | TCGA-V1-A9O9 | ATP2C1|CPNE4 | ATP2C1 | CPNE4 | 3 | 3 | 1 | -1 | 8 | 5 | 4 | 0.98 | 130675023 | 131759165 | tier1 | CDS-5UTR | 1731 | NA | 0.37531 |
| SARC | TCGA-3B-A9HS-01A | TCGA-3B-A9HS | ATP2C1|C18orf45 | ATP2C1 | C18orf45 | 3 | 18 | 1 | -1 | 5 | 9 | 9 | 0.043 | 130660543 | 20889708 | tier1 | In-frame | 1729 | NA | 0 |
| LUAD | TCGA-49-4501-01A | TCGA-49-4501 | CNTN1|TSPAN8 | CNTN1 | TSPAN8 | 12 | 12 | 1 | -1 | 159 | 98 | 2 | 0.27 | 41086394 | 71676599 | tier1 | 5UTR-5UTR | 3951 | NA | 0.37099 |
| SARC | TCGA-QC-AA9N-01A | TCGA-QC-AA9N | CNTN1|TMEM117 | CNTN1 | TMEM117 | 12 | 12 | 1 | 1 | 3 | 1 | 1 | 0.041 | 41423021 | 44770378 | tier2 | Out-of-frame | 3950 | NA | 0.3721 |
| BRCA | TCGA-EW-A3U0-01A | TCGA-EW-A3U0 | PRDM11|ACCS | PRDM11 | ACCS | 11 | 11 | 1 | 1 | 6 | 3 | 2 | 0.19 | 45204674 | 44089178 | tier1 | In-frame | 13498 | non-validated | 0.34549 |
| BRCA | TCGA-AN-A0FT-01A | TCGA-AN-A0FT | PRDM11|MRPS9 | PRDM11 | MRPS9 | 11 | 2 | 1 | 1 | 5 | 10 | 10 | 0.034 | 45169132 | 105687771 | tier1 | 5UTR-CDS | 13499 | NA | 0.35211 |
| LUAD | TCGA-64-1680-01A | TCGA-64-1680 | CD74|ROS1 | CD74 | ROS1 | 5 | 6 | -1 | -1 | 175 | 173 | 161 | 1.6 | 149784243 | 117645578 | tier1 | In-frame | 3294 | validated | 0.38396 |
| LUAD | TCGA-86-8278-01A | TCGA-86-8278 | CD74|ROS1 | CD74 | ROS1 | 5 | 6 | -1 | -1 | 203 | 260 | 245 | 1.6 | 149784243 | 117645578 | tier1 | In-frame | 3295 | NA | 0.38396 |
| UCEC | TCGA-DF-A2KR-01A | TCGA-DF-A2KR | CD74|ERBB3 | CD74 | ERBB3 | 5 | 12 | -1 | 1 | 2 | 30 | 8 | 1.3 | 149781200 | 56492035 | tier3 | 3UTR-5UTR | 3291 | NA | 0.38685 |
| DLBC | TCGA-GR-A4D5-01A | TCGA-GR-A4D5 | CD74|SUPT16H | CD74 | SUPT16H | 5 | 14 | -1 | -1 | 2 | 54 | 10 | 0.007 | 149781200 | 21829491 | tier4 | 3UTR-CDS | 3297 | NA | 0.37847 |
| THCA | TCGA-ET-A40S-01A | TCGA-ET-A40S | CD74|SUPT16H | CD74 | SUPT16H | 5 | 14 | -1 | -1 | 2 | 61 | 7 | 0.007 | 149781200 | 21829491 | tier3 | 3UTR-CDS | 3296 | NA | 0.37847 |
| BLCA | TCGA-XF-A9T5-01A | TCGA-XF-A9T5 | CD74|CD40 | CD74 | CD40 | 5 | 20 | -1 | 1 | 2 | 21 | 8 | 0.008 | 149781200 | 44754189 | tier3 | NA | 3288 | NA | 0.38008 |
| DLBC | TCGA-FA-A82F-01A | TCGA-FA-A82F | CD74|CXCR5 | CD74 | CXCR5 | 5 | 11 | -1 | 1 | 2 | 22 | 7 | 0.022 | 149781200 | 118754475 | tier3 | 3UTR-5UTR | 3289 | NA | 0.36705 |
| LIHC | TCGA-DD-A4NA-01A | TCGA-DD-A4NA | CD74|THSD4 | CD74 | THSD4 | 5 | 15 | -1 | 1 | 2 | 1 | 1 | 0.046 | 149781200 | 72072881 | tier3 | 3UTR-CDS | 3298 | non-validated | 0.36551 |
| CHOL | TCGA-W5-AA2H-01A | TCGA-W5-AA2H | CD74|DDX27 | CD74 | DDX27 | 5 | 20 | -1 | 1 | 2 | 40 | 11 | 0.16 | 149781200 | 47849303 | tier3 | NA | 3290 | NA | 0.3704 |
| LGG | TCGA-HT-7854-01A | TCGA-HT-7854 | CD74|IQCE | CD74 | IQCE | 5 | 7 | -1 | 1 | 2 | 4 | 2 | 0.42 | 149781200 | 2641075 | tier3 | 3UTR-CDS | 3292 | NA | 0.3688 |
| LGG | TCGA-DB-5276-01A | TCGA-DB-5276 | CD74|UTRN | CD74 | UTRN | 5 | 6 | -1 | 1 | 2 | 6 | 2 | 0.22 | 149781200 | 144665237 | tier3 | NA | 3299 | NA | 0.37546 |
| UCS | TCGA-N9-A4Q7-01A | TCGA-N9-A4Q7 | CD74|NDUFV1 | CD74 | NDUFV1 | 5 | 11 | -1 | 1 | 2 | 55 | 13 | 1.2 | 149781200 | 67375697 | tier3 | NA | 3293 | NA | 0.36562 |
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