NELL1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000203
Fusion event
HBV-NELL1 integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Cell line
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
29437961
Virus Sequence
Virus name
HBV
Reference genome
U95551.1
End
2861
Integrated sequence
TGGAAGGCGGGTATATTATATAAGAGAGAAACAACACATAGCGCCTCATTTTGTGGGTCACCATATTCTTGGGAACAAGATCTACAGCATGGGGCAGAAT| |CTTTCCACCAGCAATCCTCTGGGATTCTTTCCCGACCACCAGTTGGATCCAGCCTTCAGAGCAAACACAGCAAATCCAGATTGGGACTTCAATCCCAACA
Host Sequence
Chromosome
chr11
Cytoband
p15.1
Reference genome
GRCh38.p7
Start
20742026 (Hg38)
End
20742026 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11C ; FRA11I
Target gene
NELL1
Nearest miRNA
hsa-mir-210/Upstream/981943; hsa-let-7a-2/Downstream/2677079;
Nearest TSS
ENST00000527297/Upstream/70729; ENST00000528046/Downstream/27199;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/71727, chr11-CpG: 88/Downstream/1450600
Downstream sequence
GAGCAACAAAGGGTTAGAGGACAAGAAACC
Junction sequence
AAGAATCCCAGAGGATTGCTGGTGGAAAGAGAGCAACAAAGGGTTAGAGGACAAGAAACC
* 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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