FARP1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018580
Fusion event
HBV-FARP1 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
1816
Integrated sequence
CTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCA| |TGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCC
Host Sequence
Chromosome
chr13
Cytoband
q32.2
Reference genome
GRCh37.55
Start
98819046/98166792 (Hg38)
End
98819046/98166792 (Hg38)
Location type
Intron1
Fragile sites / regions
FRA13D
Target gene
FARP1
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-204-5p ; hsa-mir-124-3p ; hsa-mir-26b-5p ; hsa-let-7f-5p
Nearest miRNA
hsa-mir-1297/Upstream/1739500; hsa-mir-1267/Downstream/41732;
Nearest TSS
ENST00000623511/Upstream/23312; ENST00000601656/Downstream/10473;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/22805, chr13-CpG: 63/Downstream/9517
Upstream sequence
aattacccctctcaagcagttctttatagcagtatgaaaatggactaatacagttttctatatagcagataaaatctgaaaagacaattaacagccaaca
Downstream sequence
CTCCCTTTCTTATTCTATTTATAAACTATCTGGTTCTCATTTACCTCTATAAACATTTTTGCCTAGATAATTCACATCCTTTGGGGGGATTAAAAAAACT
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.
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