HSDL2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019025
Fusion event
HBV-HSDL2 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr9
Cytoband
q32
Reference genome
GRCh37.55
Start
115233861/112471581 (Hg38)
End
115233904/112471624 (Hg38)
Location type
Exon9
Fragile sites / regions
FRA9E
Target gene
HSDL2
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-328-3p ; hsa-mir-3121-3p ; hsa-mir-577
Nearest miRNA
hsa-let-7a-1/Upstream/539412; hsa-mir-12126/Downstream/1737810;
Nearest TSS
ENST00000422679/Upstream/57579; ENST00000374244/Downstream/13002;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/91223, chr9-CpG: 135/Downstream/14824
Upstream sequence
ACTATATAGTGAGGGGTGTTATGCAAAGGGCCGCTAATCAGGGAAAAGACTCTCTTCAATTGGCAACTTTTCAGGGCTACATGTAAAGGAGAATTTACAT
Downstream sequence
caaggccagcctggacaacatagtaagaccctatctctaCCCCCCTAATAAATTAATTTAAAaagccccccaatctgtggtattttattatggcagccct
Target sequence
ctgtgggaggccgacgcaggaggattgcttgaggccaggagtt
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