Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015684
Fusion event
HBV-RASSF4 integration
Validated
No
Detection method
MAPS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
AY800389.1;AY800390.1;AY800391.1;AY800392.1
Orient
-
Host Sequence
Chromosome
chr10
Cytoband
q11.21
Reference genome
Start
End
45447575/44952127 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-6876-3p ; hsa-mir-626 ; hsa-mir-8485 ; hsa-mir-6787-3p ; hsa-mir-4291 ; hsa-mir-761 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-922 ; hsa-mir-4312 ; hsa-mir-6882-3p ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-4270 ; hsa-mir-6510-5p ; hsa-mir-1301-3p ; hsa-mir-5047 ; hsa-mir-578 ; hsa-mir-7156-3p ; hsa-mir-8066 ; hsa-mir-8070 ; hsa-mir-147b ; hsa-mir-203b-5p ; hsa-mir-24-3p ; hsa-mir-2682-5p ; hsa-mir-34b-5p ; hsa-mir-3607-5p ; hsa-mir-3714 ; hsa-mir-4284 ; hsa-mir-4474-3p ; hsa-mir-449c-5p ; hsa-mir-4709-5p ; hsa-mir-548an ; hsa-mir-548au-3p ; hsa-mir-644a ; hsa-mir-6718-5p ; hsa-mir-6847-3p
Nearest miRNA
hsa-mir-1265/Upstream/1954446; hsa-mir-107/Downstream/211887;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/87049, chr10-CpG: 66/Downstream/7220
Nearest cancer related gene
RASSF4(TSG, No orient, 0)
Upstream sequence
CTGGTTGTGATGGTTAATTCTAGGTGTCCACTGG
Junction sequence
CTGGTTGTGATGGTTAATTCTAGGTGTCCACTGGAAAAGTTGCATGGTGCTGGTGAGCACACCAATTTATGCCTACAGCCTCCTAATA
* 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.