Transcript Fusion
The transcript fusion data of TCGA were retrieved from the TumorFusions database.
List of the transcript fusions of the CDKs/cyclins 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-BR-8373-01A | TCGA-BR-8373 | CCND3|TRERF1 | CCND3 | TRERF1 | 6 | 6 | -1 | -1 | 3 | 23 | 19 | 0.19 | 42016239 | 42330817 | tier1 | 5UTR-5UTR | 3216 | validated | 0.38486 |
| UCEC | TCGA-AJ-A3NH-01A | TCGA-AJ-A3NH | CCND3|TRERF1 | CCND3 | TRERF1 | 6 | 6 | -1 | -1 | 4 | 5 | 5 | 0.19 | 42016239 | 42268487 | tier1 | 5UTR-5UTR | 3215 | NA | 0.38486 |
| UCS | TCGA-N8-A4PI-01A | TCGA-N8-A4PI | CCND3|LUZP1 | CCND3 | LUZP1 | 6 | 1 | -1 | -1 | 3 | 4 | 4 | 0.22 | 42016239 | 23415546 | tier1 | 5UTR-CDS | 3214 | NA | 0.37154 |
| ACC | TCGA-OR-A5JS-01A | TCGA-OR-A5JS | CCNG1|SLCO6A1 | CCNG1 | SLCO6A1 | 5 | 5 | 1 | -1 | 11 | 4 | 3 | 0.27 | 162871487 | 101709198 | tier1 | 3UTR-CDS | 3221 | NA | 0.36879 |
| SKCM | TCGA-D3-A2J6-06A | TCGA-D3-A2J6 | CDK18|CNTN2 | CDK18 | CNTN2 | 1 | 1 | 1 | 1 | 6 | 1 | 1 | 0.094 | 205473924 | 205027049 | tier2 | 5UTR-CDS | 3424 | NA | 0.36283 |
| LUSC | TCGA-85-8351-01A | TCGA-85-8351 | CCNI|MRPL1 | CCNI | MRPL1 | 4 | 4 | -1 | 1 | 80 | 25 | 22 | 0.51 | 77996625 | 78870951 | tier1 | 5UTR-CDS | 3222 | NA | 0.34961 |
| 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 |
| BLCA | TCGA-DK-A6B2-01A | TCGA-DK-A6B2 | CCNT1|ADCY6 | CCNT1 | ADCY6 | 12 | 12 | -1 | -1 | 3 | 1 | 1 | 1.6 | 49094796 | 49177221 | tier3 | CDS-5UTR | 3228 | NA | 0.37513 |
| LIHC | TCGA-DD-A73G-01A | TCGA-DD-A73G | CCNT1|RP11-579D7.1 | CCNT1 | RP11-579D7.1 | 12 | 12 | -1 | 1 | 5 | 9 | 9 | 1.7 | 49108226 | 49152992 | tier1 | Out-of-frame | 3229 | NA | 0.36781 |
| BRCA | TCGA-A8-A07I-01A | TCGA-A8-A07I | CDK8|IKZF3 | CDK8 | IKZF3 | 13 | 17 | 1 | -1 | 15 | 10 | 10 | 1.1 | 26828906 | 37988404 | tier1 | Out-of-frame | 3444 | validated | 0.38402 |
| SARC | TCGA-SI-AA8B-01A | TCGA-SI-AA8B | CDK8|GCNT7 | CDK8 | GCNT7 | 13 | 20 | 1 | -1 | 14 | 12 | 11 | 0.22 | 26928017 | 55070353 | tier1 | Out-of-frame | 3442 | NA | 0.37807 |
| STAD | TCGA-D7-8576-01A | TCGA-D7-8576 | CDK8|GTF2F2 | CDK8 | GTF2F2 | 13 | 13 | 1 | 1 | 2 | 12 | 11 | 1.9 | 26911779 | 45857577 | tier3 | In-frame | 3443 | NA | 0.37858 |
| BRCA | TCGA-BH-A1FD-01A | TCGA-BH-A1FD | CDK7|CCNB1 | CDK7 | CCNB1 | 5 | 5 | 1 | 1 | 31 | 8 | 1 | 1.4 | 68531280 | 68463735 | tier4 | In-frame | 3438 | NA | 0.38343 |
| BRCA | TCGA-C8-A26W-01A | TCGA-C8-A26W | CDK7|RGS20 | CDK7 | RGS20 | 5 | 8 | 1 | 1 | 2 | 5 | 4 | 1.3 | 68531280 | 54866636 | tier3 | Out-of-frame | 3439 | NA | 0.38257 |
| PRAD | TCGA-VN-A88K-01A | TCGA-VN-A88K | CDK7|RIN3 | CDK7 | RIN3 | 5 | 14 | 1 | 1 | 25 | 22 | 9 | 0.005 | 68531280 | 93107583 | tier1 | Out-of-frame | 3440 | NA | 0.38397 |
| PRAD | TCGA-ZG-A9NI-01A | TCGA-ZG-A9NI | CDK7|SH3BGR | CDK7 | SH3BGR | 5 | 21 | 1 | 1 | 7 | 7 | 3 | 100 | 68531280 | 40871749 | tier1 | In-frame | 3441 | NA | 0.38124 |
| BRCA | TCGA-AR-A24Z-01A | TCGA-AR-A24Z | CDK19|ZFAND3 | CDK19 | ZFAND3 | 6 | 6 | -1 | 1 | 10 | 6 | 5 | 0.005 | 111136212 | 38120011 | tier1 | Out-of-frame | 3425 | non-validated | 0.33826 |
| STAD | TCGA-CD-8535-01A | TCGA-CD-8535 | CCNB2|RNF111 | CCNB2 | RNF111 | 15 | 15 | 1 | 1 | 5 | 37 | 30 | 0.093 | 59409567 | 59386982 | tier1 | Out-of-frame | 3206 | NA | 0.36983 |
| STAD | TCGA-VQ-A92D-01A | TCGA-VQ-A92D | CCNB2|TCF12 | CCNB2 | TCF12 | 15 | 15 | 1 | 1 | 2 | 59 | 55 | 1.2 | 59409567 | 57578355 | tier2 | CDS-3UTR | 3207 | NA | 0.37595 |
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