SCN11A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015867
Fusion event
HBV-SCN11A integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22962577
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1877
Orient
-
Host Sequence
Chromosome
chr3
Cytoband
p22.2
Reference genome
GRCh37/hg19
Start
39026094/38984603 (Hg38)
End
39026094/38984603 (Hg38)
Orient
+
Location type
Intronic
Target gene
SCN11A
miRNAs that regulate target gene
hsa-mir-30c-5p ; hsa-mir-196a-5p
Nearest miRNA
hsa-mir-12127/Upstream/1015123; hsa-let-7g/Downstream/153603;
Nearest TSS
ENST00000440867/Upstream/34042; ENST00000423296/Downstream/67395;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/334581, chr3-CpG: 57/Downstream/67375
Nearby gene
SCN11A
Upstream sequence
CCCTTCTGACCTTCACTTTCCGAACTTCATTGGCCTGGAATTCAGGTGTACAGTTGTGGTGGATGAAGCCAATACCGCCTGTAAGCTACAGGATAAAAAG
Downstream sequence
aggttcaaacaattctccagcctcagcctcccaagtagctgggattacaggtacctgccaccatgcccggctaatttttgtatttttagtagagacgggg
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate