Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006857
Fusion event
HBV-RGS20 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
B2
Reference genome
Region type
pre-core/core
Start
2197
Integrated sequence
GAATCTAGCCACCTGGGTGGGAAGTAATTTGGAAGATCCAGCATCCAGGGAATTAGTAGTCAGCTATGTCAACGTTAATATGGGCCTAAAAATCAGACAA| |CTATTGTGGTTTCACATTTCCTGTCTTACTTTTGGGAGAGAAACTGTTCTTGAATATTTGGTGTCTTTTGGAGTGTGGATTCGCACTCCTCCTGCATATA
Host Sequence
Chromosome
chr8
Cytoband
q11.23
Reference genome
Start
End
54810076/53897516 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-124-1/Upstream/11001241; hsa-mir-10400/Downstream/7817272;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/14935, chr8-CpG: 78/Downstream/124252
Upstream sequence
agatcatagtttggttctataacatgaacagtcctatattttgccacttaatgctacatatgcaaaagtttctttaagctgatatctaagagcaaaatgg
Downstream sequence
TTATAATATCCATATAGTAACCACAATACATTTGTCATACCCAACAAAATTAACAGTAAGCAATTCACATCATCTAATGTGTAACCATAGTACATTCTTt
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.