Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016356
Fusion event
HBV-NHSL1 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
251
End
286
Orient
-
Integrated sequence
AGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGG
Host Sequence
Chromosome
chr6
Cytoband
q24.1
Reference genome
End
139002661/138681524 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-484 ; hsa-mir-221-3p ; hsa-mir-192-5p ; hsa-mir-32-5p ; hsa-mir-877-3p ; hsa-mir-92a-3p ; hsa-let-7b-5p ; hsa-mir-218-5p ; hsa-mir-3613-5p ; hsa-mir-548g-3p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p
Nearest miRNA
hsa-mir-10398/Upstream/246195; hsa-mir-1202/Downstream/1523728;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/257033, chr6-CpG: 156/Downstream/10714
Upstream sequence
TTTATTTAGGATTGAAGAGTAAATCATTTGCCAAGTAGGTTTCTAAAAGTGAAAACAAATGTCAGTTTCAAAAAAGAACAATTTAGTTTTACATTTCTGA
Downstream sequence
accaactagctAATGAGCACACCTGGAATATCCTGGGAGAAGCAGGCTAGTGCCCTTGCCTGGATGGTGGTCCCAGCAGCAAGACCATCAGCTGAGAAAC
Target sequence
ggctatggagtcaggctgcctggagctgagggccc
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.