Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015330
Fusion event
HBV-IL6 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Region type
HBVgp3_Xprotein
Start
1782
Host Sequence
Chromosome
chr7
Cytoband
p15.3
Reference genome
Start
End
22735275/22695656 (Hg38)
Location type
5'
Target gene
miRNAs that regulate target gene
hsa-let-7a-5p ; hsa-mir-203a-3p ; hsa-mir-142-3p ; hsa-mir-26a-5p ; hsa-mir-335-5p ; hsa-mir-365a-3p ; hsa-mir-155-5p ; hsa-mir-124-3p ; hsa-mir-1-3p ; hsa-mir-98-5p ; hsa-mir-107 ; hsa-let-7c-5p ; hsa-mir-223-3p ; hsa-mir-149-5p ; hsa-let-7f-5p ; hsa-mir-146b-5p ; hsa-mir-9-5p ; hsa-mir-146a-5p ; hsa-mir-125a-3p ; hsa-mir-106a-5p ; hsa-mir-136-5p ; hsa-mir-451a
Nearest miRNA
hsa-mir-1183/Upstream/1224510; hsa-mir-10399/Downstream/3254263;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/29854, chr7-CpG: 25/Downstream/127125
Upstream sequence
tcaacattctgaattgtctaattgtttcctcatggtgcttacctttttcctctatcccctgtgtttcttataaaATAGAAGGTCCCAATCCAAGCAAGAA
Downstream sequence
tctctctttctTTCCGGGAATTGTTGAAGCTTTATGTGTTTCTGCTAGCACAGGTCACATTCTCTAGGGTGTAGTCTTGTGCATGAAGAAATATtttccc
Reference
Khoury, J. D., et al. Landscape of DNA virus associations across human malignant cancers: analysis of 3,775 cases using RNA-Seq. J Virol,2013, 87(16): 8916-8926.