NCAM1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016415
Fusion event
HBV-NCAM1 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
223
End
258
Orient
+
Integrated sequence
CAAGAATCCTCACAATACCGCAGAGTCTAGACTCGT
Host Sequence
Chromosome
chr11
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
113038772/113168050 (Hg38)
End
113038807/113168085 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11G
Target gene
NCAM1
miRNAs that regulate target gene
hsa-mir-122-5p ; hsa-mir-210-3p ; hsa-mir-200c-3p ; hsa-mir-375 ; hsa-mir-30a-5p ; hsa-mir-3148 ; hsa-mir-651-3p
Nearest miRNA
hsa-mir-10392/Upstream/1654535; hsa-let-7a-2/Downstream/281938;
Nearest TSS
ENST00000527297/Upstream/35122; ENST00000534046/Downstream/63295;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/204282, chr11-CpG: 34/Downstream/146525
Upstream sequence
AGAGGAGGGAGCGTAGAAGTGTAGAATAAAGATGTCCAATATTCTAGAGATGTCCTGTTCTAGAGATGTCCGATAAGTTGAAGACTAAAAAATGTCCTTT
Downstream sequence
AATTGAATCGGACAAGTAAGGCCTCTTCCGGGTTAGGCTGGATAATCGAGTTAATTCAAATCCATTTGAAGGATGTTCCTTGAAAAATGTTGCCTTGTGG
Target sequence
AAAGGAATTGGAATTGAATTCCGAATAGCATTTAG
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
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