Transcript Fusion
The transcript fusion data of TCGA were retrieved from the TumorFusions database.
List of the transcript fusions of the HAMPs 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-4357-01A | TCGA-BR-4357 | C22orf34|HDAC10 | C22orf34 | HDAC10 | 22 | 22 | -1 | -1 | 9 | 8 | 7 | 0.72 | 50020491 | 50689334 | tier1 | Out-of-frame | 2671 | NA | 0 |
| BRCA | TCGA-A2-A0CT-01A | TCGA-A2-A0CT | SYCP2|ZMYND8 | SYCP2 | ZMYND8 | 20 | 20 | -1 | -1 | 7 | 9 | 2 | 3.7 | 58467045 | 45927616 | tier1 | In-frame | 17228 | NA | 0 |
| PCPG | TCGA-WB-A818-01A | TCGA-WB-A818 | CC2D1A|ZMYND8 | CC2D1A | ZMYND8 | 19 | 20 | 1 | -1 | 6 | 6 | 6 | 0.7 | 14030015 | 45938948 | tier2 | In-frame | 3096 | NA | 0.36701 |
| ESCA | TCGA-V5-A7RE-01A | TCGA-V5-A7RE | MMD|HDAC5 | MMD | HDAC5 | 17 | 17 | -1 | -1 | 19 | 58 | 55 | 0.003 | 53499031 | 42165966 | tier1 | Out-of-frame | 10541 | NA | 0.37248 |
| PRAD | TCGA-YL-A8HO-01A | TCGA-YL-A8HO | AFF3|HDAC5 | AFF3 | HDAC5 | 2 | 17 | -1 | -1 | 2 | 3 | 3 | 0.01 | 100623094 | 42171202 | tier4 | Out-of-frame | 592 | NA | 0.37414 |
| 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 |
| UCEC | TCGA-EY-A4KR-01A | TCGA-EY-A4KR | MACF1|HDAC5 | MACF1 | HDAC5 | 1 | 17 | 1 | -1 | 2 | 3 | 2 | 0.11 | 39723700 | 42195072 | tier2 | CDS-5UTR | 9730 | NA | 0.38177 |
| LUSC | TCGA-60-2721-01A | TCGA-60-2721 | BSDC1|HDAC1 | BSDC1 | HDAC1 | 1 | 1 | -1 | 1 | 86 | 60 | 57 | 1.2 | 32834048 | 32797075 | tier1 | Out-of-frame | 2242 | NA | 0.37238 |
| UCS | TCGA-N9-A4Q1-01A | TCGA-N9-A4Q1 | VTI1A|HDAC1 | VTI1A | HDAC1 | 10 | 1 | 1 | 1 | 10 | 9 | 9 | 3.8 | 114298089 | 32790080 | tier1 | In-frame | 19694 | NA | 0 |
| LUAD | TCGA-91-6836-01A | TCGA-91-6836 | CLK2|ASH1L | CLK2 | ASH1L | 1 | 1 | -1 | -1 | 13 | 9 | 7 | 0.26 | 155236520 | 155313533 | tier1 | In-frame | 3811 | NA | 0.37517 |
| LUAD | TCGA-97-A4M3-01A | TCGA-97-A4M3 | GATAD2B|ASH1L | GATAD2B | ASH1L | 1 | 1 | -1 | -1 | 4 | 1 | 1 | 0.26 | 153895209 | 155349907 | tier2 | 5UTR-CDS | 6978 | NA | 0.37119 |
| LUAD | TCGA-55-7903-01A | TCGA-55-7903 | SHC1|ASH1L | SHC1 | ASH1L | 1 | 1 | -1 | -1 | 27 | 9 | 6 | 1.5 | 154946724 | 155309159 | tier1 | 5UTR-CDS | 15877 | NA | 0 |
| LUSC | TCGA-33-4587-01A | TCGA-33-4587 | CDKAL1|ASH1L | CDKAL1 | ASH1L | 6 | 1 | 1 | -1 | 14 | 19 | 14 | 0.4 | 20846409 | 155349907 | tier1 | In-frame | 3445 | NA | 0.36064 |
| PRAD | TCGA-EJ-5518-01A | TCGA-EJ-5518 | NME7|ASH1L | NME7 | ASH1L | 1 | 1 | -1 | -1 | 4 | 3 | 3 | 0.057 | 169292355 | 155491409 | tier1 | CDS-5UTR | 11614 | NA | 0.37008 |
| LAML | TCGA-AB-2893-03A | TCGA-AB-2893 | MLLT4|MLL | MLLT4 | MLL | 6 | 11 | 1 | 1 | 11 | 2 | 2 | 0.38 | 168227917 | 118352430 | tier1 | Out-of-frame | 10525 | NA | 0.39579 |
| READ | TCGA-F5-6464-01A | TCGA-F5-6464 | BRAF|TRIM24 | BRAF | TRIM24 | 7 | 7 | -1 | 1 | 7 | 1 | 1 | 0.74 | 140624366 | 138258252 | tier3 | In-frame | 2190 | NA | 0.39399 |
| BRCA | TCGA-BH-A18T-01A | TCGA-BH-A18T | WDSUB1|BAZ2B | WDSUB1 | BAZ2B | 2 | 2 | -1 | -1 | 7 | 6 | 6 | 0.013 | 160136272 | 160189197 | tier1 | Out-of-frame | 19817 | NA | 0 |
| LUSC | TCGA-NC-A5HJ-01A | TCGA-NC-A5HJ | WDSUB1|BAZ2B | WDSUB1 | BAZ2B | 2 | 2 | -1 | -1 | 2 | 2 | 2 | 0.013 | 160104883 | 160269056 | tier3 | Out-of-frame | 19818 | NA | 0 |
| BLCA | TCGA-C4-A0F7-01A | TCGA-C4-A0F7 | TCF12|NCOA3 | TCF12 | NCOA3 | 15 | 20 | 1 | 1 | 19 | 20 | 19 | 0.5 | 57213296 | 46211927 | tier1 | CDS-5UTR | 17583 | non-validated | 0 |
| BRCA | TCGA-E2-A15F-01A | TCGA-E2-A15F | PTPRT|NCOA3 | PTPRT | NCOA3 | 20 | 20 | -1 | 1 | 86 | 100 | 87 | 0.002 | 40944363 | 46211927 | tier1 | CDS-5UTR | 13921 | NA | 0 |
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