Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10001190
Fusion event
HBV-chr2 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
chr2
Cytoband
q13
Reference genome
End
110533004/109775427 (Hg38)
Location type
Intronic
Fragile sites / regions
miRNAs that regulate target gene
hsa-mir-708-5p ; hsa-mir-106b-3p ; hsa-mir-93-3p ; hsa-mir-421 ; hsa-mir-423-3p ; hsa-mir-186-5p ; hsa-mir-125b-5p ; hsa-let-7g-5p ; hsa-mir-92a-3p ; hsa-mir-15a-5p ; hsa-let-7e-5p ; hsa-let-7a-5p ; hsa-mir-7152-5p ; hsa-mir-3074-5p ; hsa-mir-1200 ; hsa-mir-378a-5p ; hsa-mir-539-5p ; hsa-mir-3124-3p ; hsa-mir-3140-5p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-3973 ; hsa-mir-551b-5p ; hsa-mir-6507-3p ; hsa-mir-4311 ; hsa-mir-4439 ; hsa-mir-943 ; hsa-mir-6826-3p ; hsa-mir-3136-5p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-6795-3p ; hsa-mir-6887-3p ; hsa-mir-5003-5p ; hsa-mir-542-3p ; hsa-mir-4504 ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-4501 ; hsa-mir-8087 ; hsa-mir-7161-5p ; hsa-mir-548u
Nearest miRNA
hsa-mir-1285-2/Upstream/461802; hsa-mir-10b/Downstream/294534;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/14091, chr2-CpG: 105/Downstream/18794
Upstream sequence
GTTAAAAAAAATCCACTTGGCTGGCAAAATTCcagaaaggcacgaattaatgttgggaagggcaaagggttcagagccatccagcaatgggttcagattc
Downstream sequence
tgacatgccatttactagctgtgccatctttagtaactcagcatctctgagcttcaggttccttatatataaatgagataatactgtcactgatttgtta
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.