Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010231
Fusion event
HBV-KCNIP4 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|Polymerase|
Start
2324
Orient
+
Integrated sequence
TCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATC| |AACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGA
Host Sequence
Chromosome
chr4
Cytoband
p15.2
Reference genome
Start
End
21941793/21940170 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-12113/Upstream/475412; hsa-mir-12115/Downstream/575142;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1239457, chr4-CpG: 95/Downstream/8292
Upstream sequence
gtttccattccattcctttccatttcattctaatccattccattccattccattctattccattccattccactccattccattccattcctctccggtt
Downstream sequence
GTAATGTCTTTAGGTGACTGAAAGATAAACCCATATTACAATTAGAAAAATTGGTAGAGGGTAGGAAGAAATGGAAAATAGAACAAACACAGAACTTCAA
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.