VPS54 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019619
Fusion event
HBV-VPS54 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
28622513
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1812
Integrated sequence
AAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGC| |ACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCG
Host Sequence
Chromosome
chr2
Cytoband
p14
Reference genome
GRCh37/hg19
Start
64134683/63907549 (Hg38)
End
64134683/63907549 (Hg38)
Location type
Intron3
Fragile sites / regions
FRA2S
Target gene
VPS54
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-26b-5p ; hsa-mir-21-5p ; hsa-mir-877-3p ; hsa-mir-92b-3p ; hsa-mir-32-5p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-1301/Upstream/1701632; hsa-mir-10b/Downstream/433198;
Nearest TSS
ENST00000437798/Upstream/50785; ENST00000438115/Downstream/12381;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/65777, chr2-CpG: 74/Downstream/111251
Upstream sequence
tcatgacatctgcttcaaaatccttgtcagggctttgttgggtatacatcatctgaataacacacatttttacctattaagtaatttctcaccatcaact
Downstream sequence
ctcaggataggacacaagcagcatgaacagaaaataaataaataaactgaatttcatcaaaatcaaaaattgctctaagacactgttcatgaaaggagaa
Reference
Cancer Genome Atlas Research Network. Electronic address, w. b. e. and N. Cancer Genome Atlas Research . Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. Cell ,2017,169(7): 1327-1341 e13
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