Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006840
Fusion event
HBV-RPL23AP53 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
Polymerase,S
Start
421
Integrated sequence
AATCTCCAGTCACTCACCAACCTGTTGTCCTCCAATTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTGCATCCTGCTGCTA| |TGCCTCATCTTCTTGTTGGTTCTTCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCATCAACAACCAGCACCGGACCATGCAAAA
Host Sequence
Chromosome
chr8
Cytoband
p23.3
Reference genome
Start
End
155450/205450 (Hg38)
Location type
Promoter
Target gene
Nearest miRNA
hsa-mir-10400/Downstream/1595675;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/121956, chr8-CpG: 25/Downstream/23551
Upstream sequence
TTGGGGTCCAAGTGCTCCGGGGTGGGTGGAGTGGTCTGTGGGAAGAAGGCAACAGTGACTCTGAGAAGCTGGTGGGAAATCTGCGGAGAGCCACAGCTCT
Downstream sequence
cctaaccctaaccctaacccctaaccctaacccctaacccctatccctaacccctaacccctaaccccaaccccaaccctaaacccaaccccaaccccaa
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.