Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006955
Fusion event
HBV-XRCC4 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
Polymerase, X protein
Start
1387
Integrated sequence
GCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCTGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGGT| |GTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGGGGCCGTTTGGGACTCTACCG
Host Sequence
Chromosome
chr5
Cytoband
q14.2
Reference genome
Start
End
82591572/83295753 (Hg38)
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-10397/Upstream/455529; hsa-mir-103a-1/Downstream/3819126;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/218225, chr5-CpG: 61/Downstream/176815
Upstream sequence
CGGCATCGCGGGGGTGGCCGGGGCCAGGGCTTCCCACGTGCGCAGCAGGACGCAGCGCTGCCTGAAACTCGCGCCGCGAGGAGAgggcggggccgcggaa
Downstream sequence
gcctatctagcatggagaggtaagcaggatccagatcatgcagagcctggatgccaaaatgagagagtttggaatttactctgtatactttgggaagctt
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.