Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002278
Fusion event
HBV-TNFRSF9 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
chr1
Cytoband
p36.23
Reference genome
Start
End
8001999/7941939 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-98-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-374a-3p ; hsa-mir-3140-3p ; hsa-mir-4267 ; hsa-mir-4733-3p ; hsa-mir-1226-3p ; hsa-mir-1305 ; hsa-mir-607 ; hsa-mir-3671 ; hsa-mir-627-3p ; hsa-mir-4762-5p ; hsa-mir-203a-3p ; hsa-mir-3613-3p
Nearest miRNA
hsa-mir-12136/Upstream/1512043; hsa-mir-101-1/Downstream/924563;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/114523, chr1-CpG: 31/Downstream/409
Upstream sequence
ggaagtagaggttgcagtgagccgagattgcgccactgcactccagccacaaaaaaaaaaaaaaaaagaagaagaagaagaagaagaggaagaggagggc
Downstream sequence
agagaaagcagaaggaaaaaaaagTACAGTAAGAGGAgaggaggagtataaggagaaagaagagggagaagaggaggaggaggagaaaaataaagagaaa
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.