FAM162A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015660
Fusion event
HBV-FAM162A 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
chr3
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
122108695/122389848 (Hg38)
End
122108695/122389848 (Hg38)
Orient
-
Location type
Intronic
Target gene
FAM162A
miRNAs that regulate target gene
hsa-mir-139-5p ; hsa-mir-6516-5p ; hsa-mir-1273e ; hsa-mir-455-3p ; hsa-mir-139-3p ; hsa-mir-6499-3p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-4487 ; hsa-mir-558 ; hsa-mir-3160-3p ; hsa-mir-219b-3p ; hsa-mir-6746-5p ; hsa-mir-1247-3p ; hsa-mir-302f
Nearest miRNA
hsa-let-7g/Upstream/1340133; hsa-mir-12124/Downstream/771946;
Nearest TSS
ENST00000440867/Upstream/5650; ENST00000608465/Downstream/26203;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/5497, chr3-CpG: 29/Downstream/25990
Upstream sequence
TTTATTTTTCTTCACATCTTTTTTTAACTTCCAAATTT
Junction sequence
TTTATTTTTCTTCACATCTTTTTTTAACTTCCAAATTTAAAAAGTTGCATGGTGCTGGTGAACAGACCAATTTATGCCTACAGCCTCC
* 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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