Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016222
Fusion event
HBV-NAV2 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
635
End
670
Orient
-
Integrated sequence
ATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTCCTG
Host Sequence
Chromosome
chr11
Cytoband
p15.1
Reference genome
Start
End
19813738/19792192 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-663a ; hsa-mir-98-5p ; hsa-mir-16-5p ; hsa-mir-6825-5p ; hsa-mir-7106-5p ; hsa-mir-765 ; hsa-mir-766-5p ; hsa-mir-3202 ; hsa-mir-3179 ; hsa-mir-6876-5p ; hsa-mir-4779 ; hsa-mir-4476 ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-6835-3p ; hsa-mir-4668-5p ; hsa-mir-1298-5p ; hsa-mir-664a-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6759-5p ; hsa-mir-4753-3p ; hsa-mir-6873-3p ; hsa-mir-2117 ; hsa-mir-6793-5p ; hsa-mir-6748-5p ; hsa-mir-597-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-130b-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-299-3p ; hsa-mir-6818-3p ; hsa-mir-6888-3p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-3120-5p ; hsa-mir-335-3p ; hsa-mir-664b-3p ; hsa-mir-5696 ; hsa-mir-579-3p ; hsa-mir-627-3p
Nearest miRNA
hsa-mir-210/Upstream/32074; hsa-let-7a-2/Downstream/3626913;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/14754, chr11-CpG: 96/Downstream/363870
Nearby gene
LOC100126784(-77557) ; NAV2(+230932) ;
Upstream sequence
cacctgctttgtgaaagtgtgcaaagctcaagggcaacagagagggcctgctagcaagagggaagtcacaatcttatgtcacacaagcagaaatgtgaca
Downstream sequence
CTTAGGTCCAGGTCCCAGGCTTTAGGAGCTCTGTGCCAGTGACATTCCTTCCTGTCATGGGTCCCTTTGCCTCTCCCTTCTCCCATAATTTCTTCTGGAA
Target sequence
TCCTCTTTTCTGCATGTCTCTCCAACACACATATA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.