Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016118
Fusion event
HBV-IQSEC2 integration
Validated
No
Detection method
RNA-Seq
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
1767
End
1789
Orient
-
Integrated sequence
CTGGATGTGTCTGCGGCGTTTTA
Host Sequence
Chromosome
chrX
Cytoband
p11.22
Reference genome
Start
End
53295118/53265936 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-4728-5p ; hsa-mir-8085 ; hsa-mir-3175 ; hsa-mir-6731-5p ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-5192 ; hsa-mir-4644 ; hsa-mir-4306 ; hsa-mir-8077 ; hsa-mir-185-5p ; hsa-mir-4722-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-1827 ; hsa-mir-3160-3p ; hsa-mir-4739 ; hsa-mir-4756-5p ; hsa-mir-1321 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-708-5p ; hsa-mir-3139 ; hsa-mir-28-5p ; hsa-mir-6873-5p ; hsa-mir-1252-5p ; hsa-mir-1299 ; hsa-mir-196a-3p ; hsa-mir-3202 ; hsa-mir-4496 ; hsa-mir-4533 ; hsa-mir-6128 ; hsa-mir-651-3p ; hsa-mir-6771-3p ; hsa-mir-875-3p
Nearest miRNA
hsa-mir-1587/Upstream/66874; hsa-let-7f-2/Downstream/139737;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/10963, chrX-CpG: 127/Downstream/54532
Upstream sequence
gatgcttagtggatccctggtctccacctaccagatgccagtagcctgcccccttctccagttgtaacagcaaaatatagaccttgccaaatatcccagg
Downstream sequence
TGCATTGTAGAAATAGAAATCATAAAATTGCAGTGGAATGTGTCACTGAATCATTGTCTATTAAATTCACATAATCATAGCTTCTTAAAACTGTAGCatc
Target sequence
AGTAAACGATCAAGGAATCTAAACATTGCAGAATATTAAAATTGCATCATCAGAATTTGTTCAAATGGTAGAATTATGCAATCTTAAAACCACAGGACTGGAAAATCCCAAAATCAC
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.