SYF2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019835
Fusion event
HBV-SYF2 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
1807
Integrated sequence
CTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCA| |CCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGA
Host Sequence
Chromosome
chr1
Cytoband
p36.11
Reference genome
GRCh37.55
Start
25551445/25224954 (Hg38)
End
25551445/25224954 (Hg38)
Location type
Intron1
Fragile sites / regions
FRA1A
Target gene
SYF2
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-320a ; hsa-let-7a-3p ; hsa-let-7b-3p ; hsa-let-7f-1-3p ; hsa-mir-98-3p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-4666a-3p ; hsa-mir-5692c ; hsa-mir-5692b ; hsa-mir-1277-5p ; hsa-mir-5692a ; hsa-mir-376c-3p ; hsa-mir-381-3p ; hsa-mir-300
Nearest miRNA
hsa-mir-12136/Upstream/201368; hsa-mir-101-1/Downstream/681408;
Nearest TSS
ENST00000473358/Upstream/16815; ENST00000641059/Downstream/7478;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/292440, chr1-CpG: 45/Downstream/7118
Upstream sequence
taaatctcatgatatttcaaatgttttcattattactgtatctgtatggcaatctgtaagcagtgacctgtgatgttactattgcaattgttttggggca
Downstream sequence
ccatgaaccatggccaaataagatggcaaatttgatctaccaatgtcatgggctttgttattgttttagagacagggtctcattctgtcaccggggttgc
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