FRMD4A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009871
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
Polymerase|large S protein|middle S protein|
Start
19
Orient
+
Integrated sequence
AATTCCACAACCTTCCACC| |AAACTCTGCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATC
Host Sequence
Chromosome
chr10
Cytoband
p13
Reference genome
GRCh37/hg19
Start
13756471/13714471 (Hg38)
End
13756471/13714471 (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/989118; hsa-mir-107/Downstream/668729;
Nearest TSS
ENST00000439456/Upstream/4056; ENST00000449462/Downstream/14912;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/56931, chr10-CpG: 86/Downstream/177011
Upstream sequence
TTTTTAGTGGGTTGAAATCATATGTCAGAGGTTTTTTTTTTTCTATCAGTTTTTTAGGCATTCAATATATTTTACTTTTTACAAAAAAAGAAGACAGAGG
Downstream sequence
CAAGGCCCTTGGGTTTCAGGCAGCATTGAATTCCCATTCCCTTTCCAACCATTCATGTAGTAGTCTTCTACTTTGTACTGGACTGTTCTCATAGGCAAGA
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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