S100A9 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018949
Fusion event
HBV-S100A9 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
chr1
Cytoband
q21.3
Reference genome
GRCh37.55
Start
153330743/153358267 (Hg38)
End
153330908/153358432 (Hg38)
Location type
Intron1
Fragile sites / regions
FRA1F
Target gene
S100A9
miRNAs that regulate target gene
hsa-mir-196a-5p ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-4252 ; hsa-mir-4679 ; hsa-mir-1204 ; hsa-mir-132-5p
Nearest miRNA
hsa-mir-101-1/Upstream/1812376; hsa-mir-1182/Downstream/331273;
Nearest TSS
ENST00000473358/Upstream/413; ENST00000329256/Downstream/17217;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/96430, chr1-CpG: 40/Downstream/177516
Upstream sequence
CTTGGGATGAGATGTGTAAAGGGCCAGGACCTGAAATTACGTGAAGGTTGATATTCTGGGATTGGTAGTTTTGAAGTTCCATAAAGAAGTTCAGTCCAGC
Downstream sequence
GGTAGGGCTGGACTCTGGCAGGTCTGACCCAGCCTCACCGCAGTTTGGGTTGACAAGGGAGGATGGGAGTATGGGCTACAGCAATCAAGGGGAAGATTTG
Target sequence
GACAGAGTGCAAGACGATGACTTGCAAAATGTCGCAGCTGGAACGCAACATAGAGACCATCATCAACACCTTCCACCAATACTCTGTGAAGCTGGGGCACCCAGACACCCTGAACCAGGGGGAATTCAAAGAGCTGGTGCGAAAAGATCTGCAAAATTTTCTCAA
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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