RMST _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013064
Fusion event
HBV-RMST integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
X protein|
Start
1800
Orient
-
Integrated sequence
AGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGT| |CTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGG
Host Sequence
Chromosome
chr12
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
97918655/97524877 (Hg38)
End
97918655/97524877 (Hg38)
Orient
+
Location type
ncRNA_intronic
Target gene
RMST
Nearest miRNA
hsa-let-7i/Upstream/32899; hsa-mir-1178/Downstream/38935;
Nearest TSS
ENST00000382841/Upstream/248668; ENST00000548911/Downstream/767568;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/617368, chr12-CpG: 31/Downstream/932035
Upstream sequence
AATAGGAAGAAACTATGACACTTGAAAGCTTCCTATGAAGTTGTCAATTGAAATTTGTTTAGATAATATTTGTAATGAGCAATGTGTTCTCCAATTTGCA
Downstream sequence
TATTTGAAAAGATAAGGAAAGCCTTCTGTTTTAAGCTCATATCACATGTTCAGGCTATCAGATCACAATTTATTGTGTATTATGTGCCATGTGGCATCTT
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.
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