Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009023
Fusion event
HBV-KDM4C integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
precore/core protein|Core and e antigen|
Start
1954
Orient
+
Integrated sequence
TGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGT| |TTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCA
Host Sequence
Chromosome
chr9
Cytoband
p24.1
Reference genome
Start
End
6895482/6895482 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-101-2/Upstream/887578; hsa-let-7a-1/Downstream/11677824;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/136610, chr9-CpG: 43/Downstream/903873
Nearest cancer related gene
KDM4C(OG, No orient, 0)
Upstream sequence
tgctctgtttcagtccttgctggataccagagagaggacacagcttttagcctctaaaagattccactctCCCCAGATAACACGGACTTGTGAccacaga
Downstream sequence
gtgtcatgcaagatagcgcattcaaagatctctgggattaggatgaggacatctttgttgggggTGCAGGAGGGGAAGCATCTGCCTACTACTACAGGGG
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.