Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008492
Fusion event
HBV-PALMD 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
1815
Orient
-
Integrated sequence
ACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACC| |ATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACC
Host Sequence
Chromosome
chr1
Cytoband
p21.2
Reference genome
End
100148773/99683217 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-101-1/Upstream/1637046; hsa-mir-11399/Downstream/598024;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/418438, chr1-CpG: 63/Downstream/166647
Upstream sequence
gaaagaaagaaagaaagaaagaaagaaagaaagaaagaaagaaagaaagaaaCGAACACCCTATGAAGTTGTTAACATTGAccagatctctaaatgttga
Downstream sequence
attgctccagattcaggccttggaattcttatctccttcactttctagggaaacttatccactcctgtggtgataaataccaactcccaaatgtatatct
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.