Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018615
Fusion event
HBV-OGFRL1 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
1797
Integrated sequence
TTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATT| |GGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTT
Host Sequence
Chromosome
chr6
Cytoband
q13
Reference genome
Start
End
72004550/71294847 (Hg38)
Location type
Intron3
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-196a-5p ; hsa-mir-8081 ; hsa-mir-627-5p ; hsa-mir-937-5p ; hsa-mir-7977 ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-3664-3p ; hsa-mir-1282 ; hsa-mir-5707 ; hsa-mir-665 ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-5690 ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-4695-5p ; hsa-mir-510-5p ; hsa-mir-512-5p ; hsa-mir-891a-3p ; hsa-mir-4755-3p ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-3165 ; hsa-mir-6745 ; hsa-mir-363-5p ; hsa-mir-3656 ; hsa-mir-6087 ; hsa-mir-769-5p ; hsa-mir-4786-5p
Nearest miRNA
hsa-mir-10398/Upstream/13904635; hsa-mir-10524/Downstream/82113;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/5441, chr6-CpG: 138/Downstream/124958
Upstream sequence
tcctagtatactTATGCCTTGCTTTTTGTCAACATTAGAAGTTTCAATAAATGCTGGCAACATTTCAGATGACATTATTTGGTGCCTCTGAAAAACAACT
Downstream sequence
ATACAATTTTCCTAAAGGAATGCCTTCACATATTAAAAATATTAAACATAAAGCTATGATAGTATTTAACTCTATTTTTTTCTACTAGGGaatttatttt
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.