Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019019
Fusion event
HBV-FGG 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
Host Sequence
Chromosome
chr4
Cytoband
q32.1
Reference genome
End
155526221/154605069 (Hg38)
Location type
Exon1
Target gene
miRNAs that regulate target gene
hsa-mir-409-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-144-3p ; hsa-mir-29c-3p ; hsa-mir-1304-5p ; hsa-mir-6765-5p ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-623 ; hsa-mir-4755-3p ; hsa-mir-6089 ; hsa-mir-5008-5p ; hsa-mir-769-5p ; hsa-mir-4786-5p ; hsa-mir-6780b-3p ; hsa-mir-4780 ; hsa-mir-4645-5p ; hsa-mir-4673 ; hsa-mir-6866-3p ; hsa-mir-188-5p
Nearest miRNA
hsa-mir-12113/Upstream/2068379; hsa-mir-1305/Downstream/4523733;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/54365, chr4-CpG: 39/Downstream/21763
Upstream sequence
AAATTATTTTTGTTATAACACACCATCTATTAAAAGACCCATTATGCAAAAGGTAGGTAAACATTGTGAAATTTTAAGTGTGTACTTGCTTTTCAATTAA
Downstream sequence
AAACAAGTCGTAGATGTACATATCATTATTCTGGAATCTTTTTACCTCTGCAAGTCTATGAAGAGCTGTCTATTACGAAGTGCATTGCCAGTTACATAAA
Target sequence
CCTGTTTGGCTCCCCCCAGGTGGTGTTGCTGTCCTTCTCCAATTGTGAGTCTGTTGAATGGGATTATCTTCATAGTGGTTTTCTTCATGGAATACCACCGGGTTTTCCAAGTGGCCCAAATAATGCCATTATCATAACCATTAGGAGTAGATGCTTTTGAGTAAGTGCCACCTA
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.