OPCML _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018993
Fusion event
HBV-OPCML integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr11
Cytoband
q25
Reference genome
GRCh37.55
Start
132634820/132764925 (Hg38)
End
132634820/132764925 (Hg38)
Location type
Intron6
Target gene
OPCML
miRNAs that regulate target gene
hsa-mir-3149 ; hsa-mir-297 ; hsa-mir-675-3p ; hsa-mir-3924 ; hsa-mir-8068 ; hsa-mir-190a-3p ; hsa-mir-567 ; hsa-mir-4307 ; hsa-mir-5011-5p
Nearest miRNA
hsa-let-7a-2/Upstream/2098122; hsa-mir-4697/Downstream/1133579;
Nearest TSS
ENST00000527297/Upstream/432435; ENST00000532272/Downstream/95852;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/853287, chr11-CpG: 33/Downstream/177842
Nearest cancer related gene
OPCML(TSG, No orient, 0)
Upstream sequence
taattagacagggaggaaagtctttttgaagaggaacctctactttactttttacaTGCCATTTGCTTCCACACTTGGTTTCACTTAGCCTTTTTATTTT
Downstream sequence
ttaacactgagaagtctgcgcgagtgtcaaggaggaagtcaatttcctggccctcaatggttaaacatacccagggctcagtgagggtgatgacagctgg
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.
Curate