ARHGEF12 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015646
Fusion event
HBV-ARHGEF12 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
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
120259620/120388911 (Hg38)
End
120259620/120388911 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11B
Target gene
ARHGEF12
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-1225-3p ; hsa-mir-30c-5p ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-1250-3p ; hsa-mir-660-5p ; hsa-mir-362-3p ; hsa-mir-329-3p
Nearest miRNA
hsa-mir-10392/Upstream/1075899; hsa-let-7a-2/Downstream/1710846;
Nearest TSS
ENST00000527297/Upstream/3590; ENST00000530388/Downstream/17022;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/51971, chr11-CpG: 126/Downstream/122257
Nearest cancer related gene
ARHGEF12(TSG, No orient, 0)
Upstream sequence
TTTATTTTGCGACAGAGTTTTGCTCTTGTTTCCCAGGC
Junction sequence
TTTATTTTGCGACAGAGTTTTGCTCTTGTTTCCCAGGCTGCCTACAGCCTCCTAGTACAAAGACCTTTAACCTCATCTCCTCCCCCAA
* 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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