Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004208
Fusion event
HBV-LMAN1 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr18
Cytoband
q21.32
Reference genome
Start
End
57006859/59339627 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-18a-3p ; hsa-mir-3148 ; hsa-mir-181a-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-181d-5p ; hsa-mir-4668-5p ; hsa-mir-873-5p ; hsa-mir-5582-3p ; hsa-mir-34a-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-4446-5p ; hsa-mir-3156-3p ; hsa-mir-1260b ; hsa-mir-1260a ; hsa-mir-188-3p ; hsa-mir-6072 ; hsa-mir-6891-3p ; hsa-mir-4301 ; hsa-mir-483-3p ; hsa-mir-3591-5p ; hsa-mir-4460 ; hsa-mir-4727-3p ; hsa-mir-153-5p ; hsa-mir-1250-3p ; hsa-mir-7-2-3p ; hsa-mir-5688 ; hsa-mir-7-1-3p ; hsa-mir-495-3p
Nearest miRNA
hsa-mir-1-2/Upstream/888469; hsa-mir-5011/Downstream/7741957;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/30699, chr18-CpG: 65/Downstream/19206
Upstream sequence
tgtgggctggacatatggaactgcctaaatattgcacagagatgttgctccataaagggaaaccacatggaatcccacaggcatttgagcctacaacagc
Downstream sequence
tccagttgggcaccactgttgatagcctagatactggggatctacagacatggctgcagtcgctgcaatgttccaaggagagaaggggggacactggtca
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.