Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016486
Fusion event
HBV-JPH2 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
327
End
362
Orient
+
Integrated sequence
TCCAATCACTCACCAACCTCTTGTCCTCCAACTTGT
Host Sequence
Chromosome
chr20
Cytoband
q13.12
Reference genome
Start
End
42809694/44181054 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-mir-3180-5p ; hsa-mir-4309 ; hsa-mir-3198 ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-4294 ; hsa-mir-1289 ; hsa-mir-4534 ; hsa-mir-8082 ; hsa-mir-488-5p ; hsa-mir-6514-5p ; hsa-mir-6730-3p ; hsa-mir-1273h-3p ; hsa-mir-4771 ; hsa-mir-3166 ; hsa-mir-17-3p ; hsa-mir-1205 ; hsa-mir-1184 ; hsa-mir-3158-5p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-6829-3p ; hsa-mir-8485 ; hsa-mir-6791-3p ; hsa-mir-6747-3p ; hsa-mir-5193 ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-640 ; hsa-mir-6513-3p ; hsa-mir-8079 ; hsa-mir-1245a ; hsa-mir-4789-3p ; hsa-mir-8057 ; hsa-mir-6805-3p ; hsa-mir-5691 ; hsa-mir-7641 ; hsa-mir-143-5p ; hsa-mir-6879-3p ; hsa-mir-5698 ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-4284 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-3194-3p ; hsa-mir-6499-3p ; hsa-mir-6773-3p ; hsa-mir-5693 ; hsa-mir-500b-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/3011941; hsa-mir-1-1/Downstream/227066;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/20491, chr20-CpG: 98/Downstream/29155
Upstream sequence
AAGATGCACTTGTCCAGAGACACATTCAGTGACCTTTGTTTTGTGTTTAACTTATAGATACACGATAAGAATACTCCATGGAAGTCTTTCCTTGTCATTG
Downstream sequence
GGGTGCCAAGCAGCTTACAACAGGGTTTGGGAGGCCAGAGCTCCTGCACCAGCCCCACCTTCCCCTTCCCATGCGAGAGCTGGAGAGCTTATCCTCAGAC
Target sequence
GGCCAGGGGAGGAATGAGGGCTATAGGAGGGGGAG
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.