CDH18 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009183
Fusion event
HBV-CDH18 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
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|Core and e antigen|Polymerase|
Start
2347
Orient
+
Integrated sequence
ATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTG| |TTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCA
Host Sequence
Chromosome
chr5
Cytoband
p14.3
Reference genome
GRCh37/hg19
Start
20175258/20175149 (Hg38)
End
20175258/20175149 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5E
Target gene
CDH18
miRNAs that regulate target gene
hsa-let-7e-5p
Nearest miRNA
hsa-mir-10397/Upstream/3019157; hsa-mir-103a-1/Downstream/11760953;
Nearest TSS
ENST00000502646/Upstream/186919; ENST00000513573/Downstream/130416;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/2519535, chr5-CpG: 45/Downstream/130304
Nearby gene
CDH18(-186905) ; GUSBP1(+1284331) ;
Upstream sequence
ctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaa
Downstream sequence
ggaagaaaaaggaaaggcatagaagttggagctaacagaggagaaaaatgaaaagaaaaagagtaacagagagaggaaagagagcaggaggaggaggaaA
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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