Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015308
Fusion event
HBV-KCNH1 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Region type
HBVgp2_Sprotein
Start
341
Host Sequence
Chromosome
chr1
Cytoband
q32.2
Reference genome
End
210977324/210803982 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-296-3p ; hsa-mir-335-5p ; hsa-mir-34a-5p ; hsa-mir-7704 ; hsa-mir-615-5p ; hsa-mir-2467-3p ; hsa-mir-4257 ; hsa-mir-6890-5p ; hsa-mir-7843-5p ; hsa-mir-6879-5p ; hsa-mir-6735-5p ; hsa-mir-4632-5p ; hsa-mir-4436b-3p ; hsa-mir-6753-5p ; hsa-mir-1911-3p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-505-3p ; hsa-mir-4290 ; hsa-mir-1233-3p ; hsa-mir-7113-3p ; hsa-mir-4673 ; hsa-mir-339-5p ; hsa-mir-4645-5p ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-4687-5p ; hsa-mir-508-5p
Nearest miRNA
hsa-mir-101-1/Upstream/1180472; hsa-mir-1182/Downstream/1273631;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/120062, chr1-CpG: 92/Downstream/329343
Upstream sequence
gacatccactgTCTTAGGCAAGCCTCAACCCTCCTAGGGAAACCAAAAGACAAATGGTTTCCCTGAGCTCCTCATCCTCCTTACCTTCTCTGTGTCAATG
Downstream sequence
CCTCTGGACATGGACCAAGTGGACACAATATAATCCATTACTCGCTCACTCAATCCTTTTGGCACCTGGTAGAGCTTCAGGAAGTCCCGAACACTGTTGA
Reference
Khoury, J. D., et al. Landscape of DNA virus associations across human malignant cancers: analysis of 3,775 cases using RNA-Seq. J Virol,2013, 87(16): 8916-8926.