Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012218
Fusion event
HBV-SLC4A8 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
1821
Orient
+
Integrated sequence
TGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAA| |CTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATA
Host Sequence
Chromosome
chr12
Cytoband
q13.13
Reference genome
Start
End
51894818/51501034 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-1244-3/Upstream/1266822; hsa-let-7i/Downstream/1397855;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/75652, chr12-CpG: 75/Downstream/89656
Upstream sequence
ttgttacatatgtatacatgtgccatgttggcgtgctgcacccattaactcatcatttagcattaggtatatttttagtagagaccgggtttcacggtga
Downstream sequence
tagccaggatggtctcgatctcctgacctcgtgatccgcccgcctcggcctcccaaagtgctgggattataggcgtgagccaccgtgcccggccAGATTA
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.