USH2A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002218
Fusion event
HBV-USH2A integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27703150
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
q41
Reference genome
GRCh37/hg19
Start
216389548/216216206 (Hg38)
End
216389548/216216206 (Hg38)
Location type
Intronic
Target gene
USH2A
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-124-3p
Nearest miRNA
hsa-mir-101-1/Upstream/4138521; hsa-mir-1182/Downstream/3901647;
Nearest TSS
ENST00000473358/Upstream/22155; ENST00000470448/Downstream/207190;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/648283, chr1-CpG: 43/Downstream/384791
Upstream sequence
TTTTGTTGCATACAAAGCAATCAATTGTATTGCTAATCAATAAATGACACATAGTAATTAAGTGGCCAATGAAGTCCAGATTTATGTTTAGACTGTATTT
Downstream sequence
ATACATGAAAGGAATTATGACAGTTCTTTCCCAAAAGAAGCATAAATACCTACAGTTTTACTTATACTGAAATCCAGAGGGACTGATGAAATGCGGGATG
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate