Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006715
Fusion event
HBV-RNF130 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
1802
Integrated sequence
GAGTCCCAAGCGACCCCGAGAAGGGTCGTCCGCAGGATTCAGCGCCGACGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCT| |AGCAGCCATGGAAACGATGTATATTTGCGGGATAGGACAACAGAGTTATCAGTCCCGATAATGTTTGCTCCAGACCTGCTGCGAGCAAAACAAGCGGCTA
Host Sequence
Chromosome
chr5
Cytoband
q35.3
Reference genome
Start
End
180023237 (Hg38)
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-10397/Upstream/7840; hsa-mir-4638/Downstream/1020166;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/115122, chr5-CpG: 134/Downstream/48162
Downstream sequence
ATGTAGATATGCAGGAGTTA
Junction sequence
CTGTAGGCATAAATTGGTGTATGTAGATATGCAGGAGTTA
* 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.