COL23A1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000736
Fusion event
HBV-COL23A1 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
chr5
Cytoband
q35.3
Reference genome
GRCh37/hg19
Start
177804498/178377497 (Hg38)
End
177804498/178377497 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
COL23A1
miRNAs that regulate target gene
hsa-mir-676-5p ; hsa-mir-4474-5p ; hsa-mir-8086 ; hsa-mir-4680-5p ; hsa-mir-484 ; hsa-mir-3155b ; hsa-mir-3155a ; hsa-mir-4714-3p ; hsa-mir-7151-3p ; hsa-mir-767-5p ; hsa-mir-5095 ; hsa-mir-4735-5p ; hsa-mir-1224-3p ; hsa-mir-6504-3p ; hsa-mir-501-3p ; hsa-mir-502-3p ; hsa-mir-4438 ; hsa-mir-32-3p
Nearest miRNA
hsa-mir-10397/Upstream/1747997; hsa-mir-1229/Downstream/1420781;
Nearest TSS
ENST00000502646/Upstream/26630; ENST00000520377/Downstream/185229;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/40157, chr5-CpG: 191/Downstream/17354
Upstream sequence
AGTGCTCCCTCAGATCACTGCTGCGGGGCAGCACAGGCCGGGGAGTGCTCCCTCAGATCACTGCTGCGGGGCAGCACAGGCCGGGGAGTGCTCCCTCAGA
Downstream sequence
GCCAGACGTGTCATCCTGGGCCTTTTGCCTTTTCTTCACCCTCTGCCACCGGCCATGTGTCCTAGGATCCTCAAGCCTAACTTCCCTGGGTGCAATTCCC
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
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