Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016446
Fusion event
HBV-LITAF 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
1483
End
1518
Orient
+
Integrated sequence
CTCTCGTCCCCTTCTCCGTCTGCCGTTCCGACCGAC
Host Sequence
Chromosome
chr16
Cytoband
p13.13
Reference genome
Start
End
11660021/11566165 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-375 ; hsa-mir-128-3p ; hsa-mir-7-5p ; hsa-mir-27a-3p ; hsa-mir-320a ; hsa-mir-8083 ; hsa-mir-936 ; hsa-mir-7151-5p ; hsa-mir-449c-5p ; hsa-mir-34b-5p ; hsa-mir-2682-5p ; hsa-mir-4484 ; hsa-mir-3714 ; hsa-mir-6768-3p ; hsa-mir-548an ; hsa-mir-3978 ; hsa-mir-127-5p ; hsa-mir-1255b-5p ; hsa-mir-1255a ; hsa-mir-6744-5p ; hsa-mir-1287-5p ; hsa-mir-6134 ; hsa-mir-617 ; hsa-mir-6806-3p ; hsa-mir-3928-5p ; hsa-mir-4712-3p ; hsa-mir-320e ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-15b-5p
Nearest miRNA
hsa-mir-1225/Upstream/259603; hsa-mir-11401/Downstream/1154156;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/72034, chr16-CpG: 118/Downstream/19987
Nearest cancer related gene
LITAF(TSG, No orient, 0)
Upstream sequence
CATTTTCTTTGCCTTTAGAACACACTTTCCCCTCACTTGtttattcatgagcccacatgccttcagtgctttccactgtgccgggtaatactggaagccc
Downstream sequence
ttcttcacttgtctgtcttcctatctggtcatagaccccataagagcaggaactgacactaaaatctgcatcccagcacctagaaagagggccaaaacat
Target sequence
tcatgtttgtttgctgtatttgtcataaagcagtt
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.