OLFM3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005208
Fusion event
HBV-OLFM3 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
2480
Orient
-
Integrated sequence
CCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATCCCTTGGACTCATAAGGTGGGAAAC| |TTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCTAACATTCATTTACAGGAGGACATTATTAATAGAT
Host Sequence
Chromosome
chr1
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
102412409/101946853 (Hg38)
End
102412409/101946853 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
FRA1E
Target gene
OLFM3
miRNAs that regulate target gene
hsa-mir-10b-5p
Nearest miRNA
hsa-mir-101-1/Upstream/1665545; hsa-mir-11399/Downstream/5950370;
Nearest TSS
ENST00000473358/Upstream/36699; ENST00000414923/Downstream/50052;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/709664, chr1-CpG: 85/Downstream/1578617
Junction sequence
GTT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
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