Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016228
Fusion event
HBV-GANAB integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1602
End
1637
Orient
+
Integrated sequence
ACGTCGCATGGAGACCACCGTGAACGCCCACCAAAT
Host Sequence
Chromosome
chr11
Cytoband
q12.3
Reference genome
Start
End
62398842/62631370 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-1296-5p ; hsa-mir-93-3p ; hsa-mir-615-3p ; hsa-mir-484 ; hsa-mir-324-5p ; hsa-mir-125b-5p ; hsa-mir-23b-3p ; hsa-mir-222-3p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-34a-5p ; hsa-mir-107 ; hsa-mir-92a-3p ; hsa-mir-17-5p ; hsa-mir-3619-5p ; hsa-mir-155-5p ; hsa-mir-629-3p ; hsa-mir-515-5p ; hsa-mir-519e-5p ; hsa-mir-29a-5p ; hsa-mir-497-3p ; hsa-mir-136-5p ; hsa-mir-16-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-1273a ; hsa-mir-1273c ; hsa-mir-1273g-5p ; hsa-mir-1291 ; hsa-mir-146b-3p ; hsa-mir-203a-5p ; hsa-mir-29b-2-5p ; hsa-mir-3074-5p ; hsa-mir-6775-3p ; hsa-mir-7152-5p ; hsa-mir-7160-3p
Nearest miRNA
hsa-mir-129-2/Upstream/64264; hsa-let-7a-2/Downstream/158445;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/9016, chr11-CpG: 57/Downstream/14790
Nearest cancer related gene
GANAB(TSG, No orient, 0)
Upstream sequence
TGCACATGTGTGACAGTTTATATACCGTTATATACATGCATGGCAATTTATATACCAAAGTGGTGGTGGGAGGTAATTAAATTTAGAGACTGACAGGAGA
Downstream sequence
ccacccctaccccaccagtttggggtggttaagtgctaacaaagactctctttcatgtctttgttagcacttaatcaccccaaactcatcttgcattctt
Target sequence
tttcctagaccacactatctaaagcagtacagccc
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.