Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014344
Fusion event
HBV-GABRG3 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
X protein|precore/core protein|
Start
1819
Orient
+
Integrated sequence
TTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGC| |AACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTA
Host Sequence
Chromosome
chr15
Cytoband
q12
Reference genome
Start
End
27437954/27192807 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-1268a/Upstream/1343982; hsa-mir-10393/Downstream/1233684;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/221098, chr15-CpG: 40/Downstream/348765
Upstream sequence
tccttctctcaactcgtcattctccgtccagctttgttccattgctggtgaggaactgtgatcctttggaggaggagaggtgctctgctttttagagttt
Downstream sequence
ccaggttttctgctctgttttttccccatctttgtggttttatctgcttttggtctttgatgatggtgatgtacagatgggtttttggtgtggatgtcct
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.