Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004378
Fusion event
HBV-GREB1 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
p25.1
Reference genome
Start
End
11679889/11539763 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-340-5p ; hsa-mir-520f-3p ; hsa-mir-5004-3p ; hsa-mir-8078 ; hsa-mir-4445-5p ; hsa-mir-885-5p ; hsa-mir-7151-5p ; hsa-mir-5586-3p ; hsa-mir-302c-3p ; hsa-mir-548s ; hsa-mir-513b-5p ; hsa-mir-3926 ; hsa-mir-5189-3p ; hsa-mir-3190-5p ; hsa-mir-6849-3p ; hsa-mir-125b-2-3p ; hsa-mir-4457 ; hsa-mir-490-3p ; hsa-mir-6514-3p ; hsa-mir-4303 ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6847-3p ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-4755-3p ; hsa-mir-6089 ; hsa-mir-5008-5p ; hsa-mir-7162-3p ; hsa-mir-4649-3p ; hsa-mir-5693
Nearest miRNA
hsa-mir-4261/Upstream/1347092; hsa-mir-10b/Downstream/842;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/56624, chr2-CpG: 50/Downstream/52952
Upstream sequence
GTACCTGTGTGGAGAGCACTGTGACCCAGCAAAACACTTCAGGGCTAAGAAGACACGAAACGGTGGCATTTGCCATCTGACCCGGCAGGCGCTGGGGCAG
Downstream sequence
ATGAAGCTCCAGTTGGAAGGGCTACTGCTGAAttttttttttttttttttttttGGTTGTTGTTGTAGCTCTGGGAGCAGATACTAGCTCTGAAACTTTT
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.