Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007734
Fusion event
HBV-LRMP 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
S protein|Polymerase|large S protein|middle S protein|
Start
588
Orient
-
Integrated sequence
AGGATCCTCAACAACCAGCACGGGACCATGCCGGACCTGCATGACTACTGCTCAAGGAACCTCTATGTATCCCTCCTGTTGCTGTACCAAACCTTCGGAC| |GGAAATTGCACCTGTATTCCCATCCCATCATCCTGGGCTTTCGGAAAATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTCCTGGCTCAGTTTACTAGTGC
Host Sequence
Chromosome
chr12
Cytoband
p12.1
Reference genome
Start
End
25249071/25096137 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-1244-3/Upstream/883642; hsa-let-7i/Downstream/777883;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/146998, chr12-CpG: 37/Downstream/98968
Nearest cancer related gene
LRMP(TSG, No orient, 0)
Upstream sequence
agcaccaaatgtgcaacaggcagttggcatctcttacctatcatatgacagtatttctggagaggatacgtgattgtccccactggacagataaggaaca
Downstream sequence
gcaaatcagaaaggttgaTTTTTtttgaacatttctaaaattatgatgcaatttacagtcggtggtgcctaatggttttattgacagccttttctttctt
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.