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Fusion Protein:HDAC7-CHUK |
Fusion Gene and Fusion Protein Summary |
 Fusion gene summary |
| Fusion partner gene information | Fusion gene name: HDAC7-CHUK | FusionPDB ID: 35857 | FusionGDB2.0 ID: 35857 | Hgene | Tgene | Gene symbol | HDAC7 | CHUK | Gene ID | 51564 | 1147 |
| Gene name | histone deacetylase 7 | component of inhibitor of nuclear factor kappa B kinase complex | |
| Synonyms | HD7|HD7A|HDAC7A | IKBKA|IKK-alpha|IKK1|IKKA|NFKBIKA|TCF16 | |
| Cytomap | 12q13.11 | 10q24.31 | |
| Type of gene | protein-coding | protein-coding | |
| Description | histone deacetylase 7histone deacetylase 7A | inhibitor of nuclear factor kappa-B kinase subunit alphaI-kappa-B kinase 1I-kappa-B kinase-alphaIKK-a kinaseIkB kinase alpha subunitNuclear factor NFkappaB inhibitor kinase alphaTCF-16conserved helix-loop-helix ubiquitous kinasetranscription facto | |
| Modification date | 20200327 | 20200327 | |
| UniProtAcc | Q8WUI4 Main function of 5'-partner protein: FUNCTION: Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Histone deacetylases act via the formation of large multiprotein complexes. Involved in muscle maturation by repressing transcription of myocyte enhancer factors such as MEF2A, MEF2B and MEF2C. During muscle differentiation, it shuttles into the cytoplasm, allowing the expression of myocyte enhancer factors (By similarity). May be involved in Epstein-Barr virus (EBV) latency, possibly by repressing the viral BZLF1 gene. Positively regulates the transcriptional repressor activity of FOXP3 (PubMed:17360565). Serves as a corepressor of RARA, causing its deacetylation and inhibition of RARE DNA element binding (PubMed:28167758). In association with RARA, plays a role in the repression of microRNA-10a and thereby in the inflammatory response (PubMed:28167758). {ECO:0000250|UniProtKB:Q8C2B3, ECO:0000269|PubMed:12239305, ECO:0000269|PubMed:17360565, ECO:0000269|PubMed:28167758}. | O15111 Main function of 5'-partner protein: FUNCTION: Serine kinase that plays an essential role in the NF-kappa-B signaling pathway which is activated by multiple stimuli such as inflammatory cytokines, bacterial or viral products, DNA damages or other cellular stresses. Acts as part of the canonical IKK complex in the conventional pathway of NF-kappa-B activation and phosphorylates inhibitors of NF-kappa-B on serine residues. These modifications allow polyubiquitination of the inhibitors and subsequent degradation by the proteasome. In turn, free NF-kappa-B is translocated into the nucleus and activates the transcription of hundreds of genes involved in immune response, growth control, or protection against apoptosis. Negatively regulates the pathway by phosphorylating the scaffold protein TAXBP1 and thus promoting the assembly of the A20/TNFAIP3 ubiquitin-editing complex (composed of A20/TNFAIP3, TAX1BP1, and the E3 ligases ITCH and RNF11). Therefore, CHUK plays a key role in the negative feedback of NF-kappa-B canonical signaling to limit inflammatory gene activation. As part of the non-canonical pathway of NF-kappa-B activation, the MAP3K14-activated CHUK/IKKA homodimer phosphorylates NFKB2/p100 associated with RelB, inducing its proteolytic processing to NFKB2/p52 and the formation of NF-kappa-B RelB-p52 complexes. In turn, these complexes regulate genes encoding molecules involved in B-cell survival and lymphoid organogenesis. Participates also in the negative feedback of the non-canonical NF-kappa-B signaling pathway by phosphorylating and destabilizing MAP3K14/NIK. Within the nucleus, phosphorylates CREBBP and consequently increases both its transcriptional and histone acetyltransferase activities. Modulates chromatin accessibility at NF-kappa-B-responsive promoters by phosphorylating histones H3 at 'Ser-10' that are subsequently acetylated at 'Lys-14' by CREBBP. Additionally, phosphorylates the CREBBP-interacting protein NCOA3. Also phosphorylates FOXO3 and may regulate this pro-apoptotic transcription factor (PubMed:12789342, PubMed:15084260, PubMed:17434128, PubMed:20434986, PubMed:20501937, PubMed:21765415). Phosphorylates RIPK1 at 'Ser-25' which represses its kinase activity and consequently prevents TNF-mediated RIPK1-dependent cell death (By similarity). {ECO:0000250|UniProtKB:Q60680, ECO:0000269|PubMed:12789342, ECO:0000269|PubMed:15084260, ECO:0000269|PubMed:17434128, ECO:0000269|PubMed:20434986, ECO:0000269|PubMed:20501937, ECO:0000269|PubMed:21765415}. | |
| Ensembl transtripts involved in fusion gene | ENST ids | ENST00000080059, ENST00000354334, ENST00000552960, ENST00000380610, ENST00000427332, ENST00000488927, | ENST00000590930, ENST00000370397, |
| Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0) | * DoF score | 11 X 8 X 6=528 | 1 X 1 X 1=1 |
| # samples | 15 | 1 | |
| ** MAII score | log2(15/528*10)=-1.81557542886257 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(1/1*10)=3.32192809488736 | |
| Fusion gene context | PubMed: HDAC7 [Title/Abstract] AND CHUK [Title/Abstract] AND fusion [Title/Abstract] | ||
| Fusion neoantigen context | PubMed: HDAC7 [Title/Abstract] AND CHUK [Title/Abstract] AND neoantigen [Title/Abstract] | ||
| Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | HDAC7(48213550)-CHUK(101969547), # samples:1 | ||
| Anticipated loss of major functional domain due to fusion event. | HDAC7-CHUK seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. HDAC7-CHUK seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. HDAC7-CHUK seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. HDAC7-CHUK seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. | ||
| * DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Hgene | HDAC7 | GO:0032703 | negative regulation of interleukin-2 production | 17360565 |
| Tgene | CHUK | GO:0006468 | protein phosphorylation | 20434986 |
| Tgene | CHUK | GO:0045944 | positive regulation of transcription by RNA polymerase II | 23091055 |
| Tgene | CHUK | GO:0071356 | cellular response to tumor necrosis factor | 23091055 |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr12:48213550/chr10:101969547) - FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels. - How to search 1. Put your fusion gene symbol. 2. Press the tab key until there will be shown the breakpoint information filled. 4. Go down and press 'Search' tab twice. 4. Go down to have the hyperlink of the search result. 5. Click the hyperlink. 6. See the FGviewer result for your fusion gene. |
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| Retention analysis results of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features, are available here. |
| Fusion gene breakpoints across HDAC7 (5'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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| Fusion gene breakpoints across CHUK (3'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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Fusion Amino Acid Sequences |
| Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | Seq length (transcript) | BP loci (transcript) | Predicted start (transcript) | Predicted stop (transcript) | Seq length (amino acids) |
| ENST00000080059 | HDAC7 | chr12 | 48213550 | - | ENST00000370397 | CHUK | chr10 | 101969547 | - | 2624 | 19 | 16 | 1323 | 435 |
| ENST00000354334 | HDAC7 | chr12 | 48213550 | - | ENST00000370397 | CHUK | chr10 | 101969547 | - | 2705 | 100 | 61 | 1404 | 447 |
| ENST00000552960 | HDAC7 | chr12 | 48213550 | - | ENST00000370397 | CHUK | chr10 | 101969547 | - | 2725 | 120 | 81 | 1424 | 447 |
| DeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
| ENST00000080059 | ENST00000370397 | HDAC7 | chr12 | 48213550 | - | CHUK | chr10 | 101969547 | - | 0.000208736 | 0.9997913 |
| ENST00000354334 | ENST00000370397 | HDAC7 | chr12 | 48213550 | - | CHUK | chr10 | 101969547 | - | 0.000199119 | 0.99980086 |
| ENST00000552960 | ENST00000370397 | HDAC7 | chr12 | 48213550 | - | CHUK | chr10 | 101969547 | - | 0.000204617 | 0.9997954 |
| Predicted full-length fusion amino acid sequences. For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among all the predicted ones. |
Get the fusion protein sequences from here. |
| Fusion protein sequence information is available in the fasta format. >FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP |
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Fusion Protein Breakpoint Sequences for HDAC7-CHUK |
| +/-13 AA sequence from the breakpoints of the fusion protein sequences. |
| Hgene | Hchr | Hbp | Tgene | Tchr | Tbp | Length(fusion protein) | BP in fusion protein | Peptide |
| HDAC7 | chr12 | 48213550 | CHUK | chr10 | 101969547 | 100 | 13 | MRAPAPGCTAPALIVHILNMTSAKII |
| HDAC7 | chr12 | 48213550 | CHUK | chr10 | 101969547 | 120 | 13 | MRAPAPGCTAPALIVHILNMTSAKII |
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Potential FusionNeoAntigen Information of HDAC7-CHUK in HLA I |
| Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific. |
| HDAC7-CHUK_48213550_101969547.msa |
| Potential FusionNeoAntigen Information * We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5) |
| Fusion gene | Hchr | Hbp | Tgene | Tchr | Tbp | HLA I | FusionNeoAntigen peptide | Binding score | Immunogenic score | Neoantigen start (at BP 13) | Neoantigen end (at BP 13) |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B52:01 | TAPALIVHI | 0.9982 | 0.8425 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:03 | APALIVHIL | 0.9788 | 0.6064 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:01 | APALIVHIL | 0.9732 | 0.5476 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:08 | APALIVHIL | 0.9513 | 0.5937 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:02 | APALIVHIL | 0.913 | 0.6599 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:04 | APALIVHIL | 0.913 | 0.6599 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-A02:13 | ALIVHILNM | 0.8977 | 0.5654 | 11 | 20 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-A02:38 | ALIVHILNM | 0.865 | 0.5491 | 11 | 20 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B39:01 | APALIVHIL | 0.8126 | 0.6737 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B08:01 | APALIVHIL | 0.7457 | 0.5754 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B08:09 | APALIVHIL | 0.6328 | 0.6014 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B51:07 | APALIVHI | 0.9942 | 0.5188 | 9 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B51:07 | TAPALIVHI | 0.9984 | 0.7757 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C04:06 | TAPALIVHI | 0.9958 | 0.7045 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C12:04 | TAPALIVHI | 0.9822 | 0.9816 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C06:03 | TAPALIVHI | 0.9796 | 0.9775 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:12 | APALIVHIL | 0.913 | 0.6599 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B42:02 | APALIVHIL | 0.8637 | 0.5778 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B15:04 | ALIVHILNM | 0.8482 | 0.8164 | 11 | 20 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B39:10 | APALIVHIL | 0.8336 | 0.6874 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B42:01 | APALIVHIL | 0.8193 | 0.5689 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C02:06 | TAPALIVHI | 0.7995 | 0.926 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C01:30 | TAPALIVHI | 0.7848 | 0.9275 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B14:03 | APALIVHIL | 0.7407 | 0.717 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C01:17 | TAPALIVHI | 0.5275 | 0.8982 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C01:30 | TAPALIVHIL | 0.9731 | 0.9458 | 8 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C01:17 | TAPALIVHIL | 0.9262 | 0.9228 | 8 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B42:01 | TAPALIVHIL | 0.8169 | 0.5703 | 8 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:23 | APALIVHIL | 0.9735 | 0.5526 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:77 | APALIVHIL | 0.9732 | 0.5476 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:13 | APALIVHIL | 0.9731 | 0.6216 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-A02:03 | ALIVHILNM | 0.9316 | 0.5876 | 11 | 20 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:09 | APALIVHIL | 0.913 | 0.6599 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:11 | APALIVHIL | 0.8536 | 0.5903 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B35:24 | APALIVHIL | 0.8397 | 0.5558 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B39:02 | APALIVHIL | 0.8383 | 0.6801 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B67:01 | APALIVHIL | 0.8381 | 0.5512 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C06:08 | TAPALIVHI | 0.8196 | 0.9785 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B08:18 | APALIVHIL | 0.7457 | 0.5754 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B15:73 | ALIVHILNM | 0.7296 | 0.6582 | 11 | 20 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B08:12 | APALIVHIL | 0.6445 | 0.7095 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C01:02 | TAPALIVHI | 0.5169 | 0.8946 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C01:03 | TAPALIVHI | 0.4411 | 0.8641 | 8 | 17 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B18:07 | APALIVHIL | 0.0996 | 0.5579 | 9 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-C01:02 | TAPALIVHIL | 0.9342 | 0.9199 | 8 | 18 |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 | HLA-B67:01 | TAPALIVHIL | 0.8334 | 0.6186 | 8 | 18 |
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Potential FusionNeoAntigen Information of HDAC7-CHUK in HLA II |
| Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific. |
| Potential FusionNeoAntigen Information * We used NetMHCIIpan v4.1 (%rank<0.5). |
| Fusion gene | Hchr | Hbp | Tgene | Tchr | Tbp | HLA II | FusionNeoAntigen peptide | Neoantigen start (at BP 13) | Neoantigen end (at BP 13) |
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Fusion breakpoint peptide structures of HDAC7-CHUK |
| 3D structures of the fusion breakpoint peptide of 14AA sequence that have potential fusion neoantigens * The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA. |
| File name | BPseq | Hgene | Tgene | Hchr | Hbp | Tchr | Tbp | AAlen |
| 2697 | GCTAPALIVHILNM | HDAC7 | CHUK | chr12 | 48213550 | chr10 | 101969547 | 100 |
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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of HDAC7-CHUK |
| Virtual screening between 25 HLAs (from PDB) and FusionNeoAntigens * We used Glide to predict the interaction between HLAs and neoantigens. |
| HLA allele | PDB ID | File name | BPseq | Docking score | Glide score |
| HLA-B14:02 | 3BVN | 2697 | GCTAPALIVHILNM | -5.50071 | -6.53601 |
| HLA-B14:02 | 3BVN | 2697 | GCTAPALIVHILNM | -5.44997 | -5.56337 |
| HLA-B52:01 | 3W39 | 2697 | GCTAPALIVHILNM | -6.87928 | -6.99268 |
| HLA-B52:01 | 3W39 | 2697 | GCTAPALIVHILNM | -3.95744 | -4.99274 |
| HLA-A24:02 | 5HGA | 2697 | GCTAPALIVHILNM | -7.30598 | -7.41938 |
| HLA-A24:02 | 5HGA | 2697 | GCTAPALIVHILNM | -5.09366 | -6.12896 |
| HLA-B44:05 | 3DX8 | 2697 | GCTAPALIVHILNM | -5.64505 | -5.75845 |
| HLA-B44:05 | 3DX8 | 2697 | GCTAPALIVHILNM | -4.1878 | -5.2231 |
| HLA-A02:01 | 6TDR | 2697 | GCTAPALIVHILNM | -0.0912853 | -1.12659 |
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Vaccine Design for the FusionNeoAntigens of HDAC7-CHUK |
| mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is. |
| Fusion gene | Hchr | Hbp | Tchr | Tbp | Start in +/-13AA | End in +/-13AA | FusionNeoAntigen peptide sequence | FusionNeoAntigen RNA sequence |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 11 | 20 | ALIVHILNM | GCGCTGATAGTACACATCCTAAATATG |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 8 | 17 | TAPALIVHI | ACAGCCCCGGCGCTGATAGTACACATC |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 8 | 18 | TAPALIVHIL | ACAGCCCCGGCGCTGATAGTACACATCCTA |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 9 | 17 | APALIVHI | GCCCCGGCGCTGATAGTACACATC |
| HDAC7-CHUK | chr12 | 48213550 | chr10 | 101969547 | 9 | 18 | APALIVHIL | GCCCCGGCGCTGATAGTACACATCCTA |
| mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs. |
| Fusion gene | Hchr | Hbp | Tchr | Tbp | Start in +/-13AA | End in +/-13AA | FusionNeoAntigen peptide | FusionNEoAntigen RNA sequence |
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Information of the samples that have these potential fusion neoantigens of HDAC7-CHUK |
| These samples were reported as having these fusion breakpoints. For individual breakpoints, we checked the open reading frames considering multiple gene isoforms and chose the in-frame fusion genes only. Then, we made fusion protein sequences and predicted the fusion neoantigens. These fusion-positive samples may have these potential fusion neoantigens. |
| Cancer type | Fusion gene | Hchr | Hbp | Henst | Tchr | Tbp | Tenst | Sample |
| N/A | HDAC7-CHUK | chr12 | 48213550 | ENST00000354334 | chr10 | 101969547 | ENST00000370397 | DA482203 |
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Potential target of CAR-T therapy development for HDAC7-CHUK |
| Predicted 3D structure. We used RoseTTAFold. |
| Retention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, to provide the retention of the transmembrane domain, we only show the protein feature retention information of those transmembrane features * Minus value of BPloci means that the break point is located before the CDS. |
| - In-frame and retained 'Transmembrane'. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| Subcellular localization prediction of the transmembrane domain retained fusion proteins * We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image. |
| Hgene | Hchr | Hbp | Henst | Tgene | Tchr | Tbp | Tenst | DeepLoc result |
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Related Drugs to HDAC7-CHUK |
| Drugs used for this fusion-positive patient. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Drug | Source | PMID |
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Related Diseases to HDAC7-CHUK |
| Diseases that have this fusion gene. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Disease | Source | PMID |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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