Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019859
Fusion event
HBV-KCNH1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1826
Integrated sequence
AAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTT| |TCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAA
Host Sequence
Chromosome
chr1
Cytoband
q32.2
Reference genome
End
211038149/210864807 (Hg38)
Location type
Intron4
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/1241297; hsa-mir-1182/Downstream/1212806;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/180887, chr1-CpG: 92/Downstream/268518
Upstream sequence
CCCGAACACTGTTGAGCATCTCATGGTATCTGTTGGTGTTGGCATACATCTGTTGGAAAATAGTCGTCACATTCCCGAAGATGGTGGCATAGAGAAGTGC
Downstream sequence
TAGAGGTGAGGAGGAGGAGCAAAAGAAGAAATAACAAGTTAGTGGTCCCTGAGCCAGGGTTCCAGAATGCTCAGCTTGCTCAGAGTAGGCCAATGGCCAG
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.