Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006493
Fusion event
HBV-PCDHGB3 integration
Validated
Yes
Detection method
invPCR +Sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1829
Integrated sequence
GTCCGCAGGATTCAGCGCCGACGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCTAGCAGCCATGGAAACGATGTATATTTG| |CGGGATAGGACAACAGAGTTATCAGTCCCGATAATGTTTGCTCCAGACCTGCTGCGAGCAAAACAAGCGGCTAGGAGTTCCGCAGTATGGATCGGCAGAG
Host Sequence
Chromosome
chr5
Cytoband
q31.3
Reference genome
Start
End
141370942 (Hg38)
Location type
Exon
Target gene
Nearest miRNA
hsa-mir-10397/Upstream/723016; hsa-mir-103a-1/Downstream/2308918;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/245, chr5-CpG: 58/Downstream/789
Downstream sequence
AGGAGAACCTGGATGGCAG
Junction sequence
AGCACCATGCAACTTTTTCAGGAGAACCTGGATGGCAG
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
Reference
Mason, W. S., et al. HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant. Gastroenterology,2016, 151(5): 986-998 e984.