Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018859
Fusion event
HBV-EFNA5 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1809
Integrated sequence
TCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACC| |AGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACA
Host Sequence
Chromosome
chr5
Cytoband
q21.3
Reference genome
End
106880296/107544595 (Hg38)
Location type
Intron4
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-92a-3p ; hsa-mir-6794-3p ; hsa-mir-6787-3p ; hsa-mir-4310 ; hsa-mir-7157-5p ; hsa-mir-4639-3p ; hsa-mir-3680-5p ; hsa-mir-4798-3p ; hsa-mir-8054 ; hsa-mir-548l ; hsa-mir-548k ; hsa-mir-548av-5p ; hsa-mir-559 ; hsa-mir-548y ; hsa-mir-548w ; hsa-mir-548o-5p ; hsa-mir-548j-5p ; hsa-mir-548i ; hsa-mir-548h-5p ; hsa-mir-548d-5p ; hsa-mir-548c-5p ; hsa-mir-548bb-5p ; hsa-mir-548b-5p ; hsa-mir-548ay-5p ; hsa-mir-548au-5p ; hsa-mir-548as-5p ; hsa-mir-548ar-5p ; hsa-mir-548aq-5p ; hsa-mir-548ap-5p ; hsa-mir-548am-5p ; hsa-mir-548ak ; hsa-mir-548ae-5p ; hsa-mir-548ad-5p ; hsa-mir-548ab ; hsa-mir-548a-5p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-3692-3p ; hsa-mir-6836-3p ; hsa-mir-496 ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-6747-3p ; hsa-mir-1179 ; hsa-mir-1305 ; hsa-mir-576-5p ; hsa-mir-4263 ; hsa-mir-4799-5p ; hsa-mir-6883-3p ; hsa-mir-6715b-3p ; hsa-mir-454-5p ; hsa-mir-6715a-3p ; hsa-mir-3938 ; hsa-mir-501-5p ; hsa-mir-500b-5p ; hsa-mir-362-5p ; hsa-mir-10a-3p
Nearest miRNA
hsa-mir-10397/Upstream/6728030; hsa-mir-103a-1/Downstream/2969234;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/4284746, chr5-CpG: 253/Downstream/124834
Nearest cancer related gene
EFNA5(TSG, No orient, 0)
Upstream sequence
GAACATCAGTCATAATGGAGGAAAGGCAAGATGGTCAATCTTTTCAGGAGAGATAGTTCTTTGTTAATTGAGAGCCAAGTATCATCTTGAGTCAGAAAAA
Downstream sequence
TCAGAGCCAACATAAACACTTTGAAGGAATAAGAGCAATTCAGGCGCTGGTCCTGCAGAATTAACCACTccctcctcagtgttcttgggatattcctcag
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.