HOPX _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018558
Fusion event
HBV-HOPX integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
444
Integrated sequence
CTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTT| |CTTCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCTCAACAACCAGCACGGGACCATGCCGGACCTGCATGACTACTGCTCAAG
Host Sequence
Chromosome
chr4
Cytoband
q12
Reference genome
GRCh37.55
Start
57540592/56674426 (Hg38)
End
57540592/56674426 (Hg38)
Location type
Intron3
Fragile sites / regions
FRA4B
Target gene
HOPX
miRNAs that regulate target gene
hsa-mir-5096 ; hsa-mir-377-3p ; hsa-mir-8069 ; hsa-mir-215-3p ; hsa-mir-6773-3p ; hsa-mir-1228-3p ; hsa-mir-576-5p ; hsa-mir-4263 ; hsa-mir-202-5p ; hsa-mir-337-3p ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-627-3p ; hsa-mir-4735-5p
Nearest miRNA
hsa-mir-12113/Upstream/3961679; hsa-mir-1243/Downstream/4248193;
Nearest TSS
ENST00000502981/Upstream/17901; ENST00000503522/Downstream/6868;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/17889, chr4-CpG: 45/Downstream/147018
Nearest cancer related gene
HOPX(TSG, No orient, 0)
Upstream sequence
tttctgtgtgtctcagagggaatcccgtgatggagatgaacattctgacctgtagctgattgcaggagctttcaggaaagcatcagggggaaataatatc
Downstream sequence
GACTAGACTATCTAAGCAGATCTGTCATGACCTTAAGAATCCTAGGAAATTTTCCTCATGATCCTAGATGGAATGACTAGACCTAACAGCCAAAATGACT
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
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