GCSH _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10001248
Fusion event
HBV-GCSH 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
chr16
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
81119775/81086170 (Hg38)
End
81119775/81086170 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA16D
Target gene
GCSH
miRNAs that regulate target gene
hsa-mir-421
Nearest miRNA
hsa-mir-1225/Upstream/4217151; hsa-mir-11401/Downstream/298848;
Nearest TSS
ENST00000527434/Upstream/8851; ENST00000564552/Downstream/4498;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/8532, chr16-CpG: 100/Downstream/9586
Upstream sequence
gcgtgaacccgggaagcggagcttgcagtgagccgagattgcgccactgcagtccgcagtccggcctgggcgacagagcgagactccgtctcaaaaaaaa
Downstream sequence
aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaacaaaaaaaaCACAATTATGAACTCTGAACTACTggccaggaacggcggctcat
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate