FGA _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018553
Fusion event
HBV-FGA integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1800
Integrated sequence
AGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGT| |CTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGG
Host Sequence
Chromosome
chr4
Cytoband
q31.3
Reference genome
GRCh37.55
Start
155504886/154583734 (Hg38)
End
155504886/154583734 (Hg38)
Location type
Exon1
Target gene
FGA
miRNAs that regulate target gene
hsa-mir-409-3p ; hsa-mir-29c-3p ; hsa-mir-144-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p
Nearest miRNA
hsa-mir-12113/Upstream/2047218; hsa-mir-1305/Downstream/4545068;
Nearest TSS
ENST00000502981/Upstream/17953; ENST00000500890/Downstream/7010;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/33204, chr4-CpG: 39/Downstream/43098
Upstream sequence
ccaggactcagaGGAGAGCCCTTTGCGGAGATGCCTGAGGGCAGGGGGCGCGGACACTGCATTCGAGGAGGAATCAGGCAGGTGGAGGTCCAGGCTCGCC
Downstream sequence
TCAAATCAAATGGATAAAACAACTTTTTGCTTTCCAATGGCATTATGATTTTGGGTGGTATGGGAAGAGAAGTTCTCAAACCAATAGTCTTCAAGGTTGC
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
Curate