ALK _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015578
Fusion event
HBV-ALK integration
Validated
No
Detection method
MAPS
Data source
Curated
Sample type
Adjacent tissue
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2012
PubMed ID
23236287
Virus Sequence
Virus name
HBV
Reference genome
AY800389.1;AY800390.1;AY800391.1;AY800392.1
Orient
-
Host Sequence
Chromosome
chr2
Cytoband
p23.2
Reference genome
GRCh37/hg19
Start
29505922/29283056 (Hg38)
End
29505922/29283056 (Hg38)
Orient
-
Location type
Intronic
Target gene
ALK
miRNAs that regulate target gene
hsa-mir-132-3p ; hsa-mir-96-5p
Nearest miRNA
hsa-mir-1301/Upstream/1286607; hsa-mir-10b/Downstream/3249097;
Nearest TSS
ENST00000437798/Upstream/55403; ENST00000421411/Downstream/36155;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/167013, chr2-CpG: 147/Downstream/636909
Nearest cancer related gene
ALK(OG, No orient, 0)
Upstream sequence
TGAGGAAAGACATTGCTTCCTGGAGCCATGGTCC
Junction sequence
TGAGGAAAGACATTGCTTCCTGGAGCCATGGTCCATTTATGCCTACAGCCTCCTAGTACAAAGACCTTTAACCTAATCTCCTCCCCCA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Ding, D., et al. Recurrent targeted genes of hepatitis B virus in the liver cancer genomes identified by a next-generation sequencing-based approach. PLoS Genet ,2010,8(12): e1003065.
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