ALK _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016062
Fusion event
HBV-ALK integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22962577
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1825
Orient
-
Host Sequence
Chromosome
chr2
Cytoband
p23.2
Reference genome
GRCh37/hg19
Start
29792372/29569506 (Hg38)
End
29792372/29569506 (Hg38)
Orient
-
Location type
Intron
Target gene
ALK
miRNAs that regulate target gene
hsa-mir-132-3p ; hsa-mir-96-5p
Nearest miRNA
hsa-mir-1301/Upstream/1573057; hsa-mir-10b/Downstream/2962647;
Nearest TSS
ENST00000437798/Upstream/250295; ENST00000421411/Downstream/148194;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/453463, chr2-CpG: 147/Downstream/350459
Nearest cancer related gene
ALK(OG, No orient, 0)
Upstream sequence
tttccaataattttgattttttaaaattgtgttaaatattatttgattactgatttggggggtatctttttaaatcatgtggctgaggcaagtatcttat
Downstream sequence
cacagaatatgactcaaagaacatgcccagtaaatgtGACTTTCTTTCCCTTTTCTTCCCCCCCCCTAGTGAGGTCCAGAGACAGTGTCTCCTTTTACAG
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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