Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006623
Fusion event
HBV-TGM3 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
1757
Integrated sequence
GCGCCCCGTGGTCGGTCGGAACGGCAGACGGAGAAGGGGACGAGAGAGTCCCAAGCGACCCCGAGAAGGGTCGTCCGCAGGATTCAGCGCCGACGGGACG| |TAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCTAGCAGCCATGGAAACGATGTATATTTGCGGGATAGGACAACAGAGTTATCAGTCC
Host Sequence
Chromosome
chr20
Cytoband
p13
Reference genome
Start
End
2333235 (Hg38)
Location type
Intron
Target gene
Nearest miRNA
hsa-mir-6869/Upstream/940274; hsa-mir-1-1/Downstream/319542;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/4839, chr20-CpG: 17/Downstream/70353
Nearest cancer related gene
TGM3(TSG, No orient, 0)
Upstream sequence
CTTCTGTCTCCAGAGAAACT
Junction sequence
CTTCTGTCTCCAGAGAAACTGTACANCCTCCTAAAATCTCCTCCCCCAACTCC
* 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.