Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008321
Fusion event
HBV-HS3ST4 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
precore/core protein|Core and e antigen|Polymerase|
Start
2390
Orient
-
Integrated sequence
CAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCC| |TCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGG
Host Sequence
Chromosome
chr16
Cytoband
p12.1
Reference genome
Start
End
25771462/25760141 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-1225/Upstream/1556910; hsa-mir-11401/Downstream/265096;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/66831, chr16-CpG: 34/Downstream/1349549
Upstream sequence
catctccgggacttgaacttcaatctgggagactttgtgcGTCTATGAGGGCTGCCAtagccctaaccctaaccctaaccctaaccctaactctaaccct
Downstream sequence
aaccctaaccctaacACTTTGTTTAGGGCTCAACAACACTGTTAAAGCCactgggtgccttaaaaaacagaaattaattttctcacagttccagaggatg
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.