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VISDB
Viral Integration Site DataBase
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TVIS10002917
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002917
Fusion event
HBV-GMDS 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
chr6
Cytoband
p25.3
Reference genome
GRCh37/hg19
Start
1842577/1842343 (Hg38)
End
1842577/1842343 (Hg38)
Location type
Intronic
Target gene
GMDS
miRNAs that regulate target gene
hsa-mir-218-5p
;
hsa-mir-302c-5p
;
hsa-mir-1231
;
hsa-mir-4423-3p
;
hsa-mir-3143
;
hsa-mir-496
;
hsa-mir-3622b-5p
;
hsa-mir-5588-5p
;
hsa-mir-4799-3p
;
hsa-mir-4720-5p
;
hsa-mir-6868-5p
;
hsa-mir-3128
;
hsa-mir-654-3p
;
hsa-mir-3622a-5p
;
hsa-mir-5582-5p
;
hsa-mir-4803
;
hsa-mir-3196
;
hsa-mir-6816-5p
;
hsa-mir-3180-3p
;
hsa-mir-6787-5p
;
hsa-mir-3180
;
hsa-mir-663a
;
hsa-mir-1908-5p
;
hsa-mir-744-5p
;
hsa-mir-6812-3p
;
hsa-mir-1307-3p
;
hsa-mir-3150b-5p
;
hsa-mir-3150a-5p
Nearest miRNA
hsa-mir-6720/Upstream/451932; hsa-mir-10398/Downstream/1011688;
Nearest TSS
ENST00000381078/Upstream/115866;
ENST00000530833/Downstream/88656;
Nearest CpG islands
None/Target,
chr6-CpG: 120/Upstream/217110
,
chr6-CpG: 106/Downstream/402541
Upstream sequence
CCTCCTTCTCTAGTGGCAACAGCAAATGGCCACACAGAAGGCAGACATTGCACCCAACTGAGGAGAATGTAATTCACTCATTGCCAGTCACAGACCTTGG
Downstream sequence
CCTAAGGAAAGGCAATCCCAACTCCTCTGACTGGCAAATAGCCTGGGTCTGGATATATGACCCAACTCTAGCTAGGGAGATGGGAGAGGAGGCCTGCTGA
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Sample Information
×
Sample name
083788T
Sample type
Tumor
Gender
Female
CpG Island Information
×
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