LRRC4C _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010580
Fusion event
HBV-LRRC4C 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|Polymerase|
Start
1623
Orient
+
Integrated sequence
GGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGT| |GAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTG
Host Sequence
Chromosome
chr11
Cytoband
p12
Reference genome
GRCh37/hg19
Start
40879609/40858059 (Hg38)
End
40879609/40858059 (Hg38)
Orient
+
Location type
Intronic
Target gene
LRRC4C
Nearest miRNA
hsa-mir-1343/Upstream/4847855; hsa-let-7a-2/Downstream/2701597;
Nearest TSS
ENST00000527297/Upstream/538329; ENST00000524493/Downstream/536536;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/4347592, chr11-CpG: 49/Downstream/2453830
Upstream sequence
aaagggaaagggaaagggaaagggaaagggacagggacagggacagggacaaggaaaggaagggaagggaagggaagggaagggaagggaagggaaaACT
Downstream sequence
CTAAAGCTGCACTACCCAATGTGTTAACTACTGCCCaataaattaaattaaaataaaataaaaaatgtagttcctcagttaaattaattacatttcaact
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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