NTN4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013734
Fusion event
HBV-NTN4 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
precore/core protein|
Start
1859
Orient
+
Integrated sequence
TTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCC| |TACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTG
Host Sequence
Chromosome
chr12
Cytoband
q22
Reference genome
GRCh37/hg19
Start
96172556/95778778 (Hg38)
End
96172556/95778778 (Hg38)
Orient
+
Location type
Intronic
Target gene
NTN4
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-196a-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p
Nearest miRNA
hsa-let-7i/Upstream/468794; hsa-mir-1178/Downstream/1713131;
Nearest TSS
ENST00000382841/Upstream/38783; ENST00000553095/Downstream/11170;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/229575, chr12-CpG: 124/Downstream/11317
Upstream sequence
aaccaaaaaaagtccaggaccagacggattcacagccgaattctaccagaggtacaaggaggagctggtaccattccttctgaaactattccaatcaata
Downstream sequence
gaaaaagagggaatcctccctaactcattttatgagtccagcatcattctgataccaaagcctggcagagacacaacaaaaaagaattttagaccaatat
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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