LAMB3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009084
Fusion event
HBV-LAMB3 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
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
1606
Orient
+
Integrated sequence
CGTTCCGACCGACCACGGGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGT| |CGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCAT
Host Sequence
Chromosome
chr1
Cytoband
q32.2
Reference genome
GRCh37/hg19
Start
209819207/209645862 (Hg38)
End
209819207/209645862 (Hg38)
Orient
-
Location type
Intronic
Target gene
LAMB3
miRNAs that regulate target gene
hsa-mir-218-5p ; hsa-mir-124-3p ; hsa-mir-16-5p
Nearest miRNA
hsa-mir-101-1/Upstream/22352; hsa-mir-1182/Downstream/2431751;
Nearest TSS
ENST00000473358/Upstream/27064; ENST00000367029/Downstream/5472;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/19853, chr1-CpG: 75/Downstream/29236
Upstream sequence
CTCAAAATCCCTTGTGGGTTGAGTACAGGGATCATAGTACATATATGAACACATCCTCTGCCTACACATTAGCCTTCCTGAAAATCAAGAAAACAGACAA
Downstream sequence
CTGTCAAACAAAGAAAGGCAGTGGTCGTTGGAGTGTGTGTGTCAGCGGGCAGGGGGATAAGGGTGCATTTACATGCATGTGCGCCTGCGCGTATTAGAGA
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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