FRMD4A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013523
Fusion event
HBV-FRMD4A 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|precore/core protein|
Start
1820
Orient
+
Integrated sequence
TTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCA| |ACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTAT
Host Sequence
Chromosome
chr10
Cytoband
p13
Reference genome
GRCh37/hg19
Start
14258885/14216886 (Hg38)
End
14258885/14216886 (Hg38)
Orient
-
Location type
Intronic
Target gene
FRMD4A
miRNAs that regulate target gene
hsa-mir-423-3p ; hsa-mir-218-5p ; hsa-mir-34a-5p
Nearest miRNA
hsa-mir-3155a/Upstream/1491533; hsa-mir-107/Downstream/166314;
Nearest TSS
ENST00000439456/Upstream/142602; ENST00000443282/Downstream/113998;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/324702, chr10-CpG: 135/Downstream/386867
Upstream sequence
TTTCATAAGTGTCTATCATATGCCTGAAACATGGCTGTGTAGGCAAGGAGGGTCTCCACCAGGATAATGATCCTTCATTTCTACTCTCTTCTTTTGCATT
Downstream sequence
CTGTATCTAGACGCTTCCCAATTCCATAATAATTCAGTTTGTTTAACTTAGTCCGAAATGCAGTTGAGGATTTTCCTAAATATTATACACACTGATCCCA
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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