Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006844
Fusion event
HBV-ME1 integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
C2
Reference genome
Region type
pre-core/core, X protain
Start
1825
Integrated sequence
AAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAAT
Host Sequence
Chromosome
chr6
Cytoband
q14.2
Reference genome
Start
End
83965334/83255615 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-10398/Upstream/4716306; hsa-mir-1202/Downstream/7057127;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/61557, chr6-CpG: 60/Downstream/175078
Upstream sequence
TTTTACTTATGACATGTCCTGAGTATTTTTTTCCCAAATTTAGAGTTCAATCCTGTGTAGGTGTTTGTTTACAATAGAGTTGTGAGTGCTTGAGAAAGAC
Downstream sequence
aaatttctgttttctatataatcacccaactatgtcagcaccatttatttaacagtccatccttctcctcatcacctataattagatactatattctgat
Reference
Yan, H., et al. Characterization of the genotype and integration patterns of hepatitis B virus in early- and late-onset hepatocellular carcinoma. Hepatology ,2015,61(6): 1821-1831.