Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019785
Fusion event
HBV-VKORC1L1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1823
Integrated sequence
TTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACT| |TTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAA
Host Sequence
Chromosome
chr7
Cytoband
q11.21
Reference genome
Start
End
65415653/65950666 (Hg38)
Location type
Intron1
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-6882-5p ; hsa-mir-1264 ; hsa-mir-3611 ; hsa-mir-1257 ; hsa-mir-367-5p ; hsa-mir-1267 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-4789-5p ; hsa-mir-4766-3p ; hsa-mir-466 ; hsa-mir-656-5p ; hsa-mir-758-5p ; hsa-mir-3908 ; hsa-mir-4703-5p ; hsa-mir-3942-5p ; hsa-mir-4661-5p ; hsa-mir-4789-3p ; hsa-mir-4643 ; hsa-mir-3133 ; hsa-mir-186-5p ; hsa-mir-552-5p ; hsa-mir-4328 ; hsa-mir-6512-5p ; hsa-mir-140-3p ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-3686 ; hsa-mir-4775 ; hsa-mir-4742-3p ; hsa-mir-664a-5p ; hsa-mir-4794 ; hsa-mir-4735-5p ; hsa-mir-8073 ; hsa-mir-221-5p ; hsa-mir-590-3p ; hsa-mir-3934-5p ; hsa-mir-5095 ; hsa-mir-552-3p ; hsa-mir-6504-3p ; hsa-mir-6807-5p ; hsa-mir-6872-3p ; hsa-mir-7151-3p
Nearest miRNA
hsa-mir-1183/Upstream/1271474; hsa-mir-10399/Downstream/1163656;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/76609, chr7-CpG: 66/Downstream/31118
Upstream sequence
ttaaaaGCCATTATGCTGGAAACAGAGCATTCATACAAACAATACACGAATGAATGTAGGTTATACTGCAAAATAGCTGGTTACTATAATGTAGTTGTAT
Downstream sequence
ttgaataaattagaaaatactatgaaatactatgtagccattaaaggaaaaaggagatctatgtttatatcctagaaagataaagacactatttagtgaa
Target sequence
tacaaatagataatgg
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.