Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005823
Fusion event
HBV-MATN2 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1831
Orient
-
Integrated sequence
GGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTC| |TGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAG
Host Sequence
Chromosome
chr8
Cytoband
q22.2
Reference genome
Start
End
98960216/97947988 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-12123/Upstream/2874992; hsa-mir-10400/Downstream/445657;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/78373, chr8-CpG: 17/Downstream/97321
Upstream sequence
AACCAAACGATTTGAGAGTTGGGATGGGTACAGTTCATAGACACTGACATAATGAGCTCTTTCTTTTTTGTTAGGAAAATAAAACTGCTTTTTTCATGAG
Downstream sequence
gagtatatactgttaattcattaacattgaaAGCTATCGTTCATATTTTGAATGAAgtacttaggaacaatagacagcagatcagcattactcttggggg
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).