TF _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018401
Fusion event
HBV-TF 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
270
End
1737
Integrated sequence
CTCAATTTTCTAGGGGGAACTACCGTGTGTCTTGGCCAAAATTCGCAGTCCCCAACCTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCTCAACAACCAGCACGGGACCATGCCGGACC
Host Sequence
Chromosome
chr3
Cytoband
q22.1
Reference genome
GRCh37.55
Start
133478172/133759328 (Hg38)
End
133478172/133759328 (Hg38)
Location type
Exon9
Target gene
TF
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-19a-3p
Nearest miRNA
hsa-let-7g/Upstream/1773397; hsa-mir-1224/Downstream/608476;
Nearest TSS
ENST00000440867/Upstream/11188; ENST00000462495/Downstream/6950;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/12752, chr3-CpG: 35/Downstream/24389
Upstream sequence
TTTTTCATGTTGTTTCCTGCAGAGATTTCTTTTCTCTTCAGTCCCATTTCTCAGCCTCCTTTCTTCTGTGTTGCCATCCACTATTCTGTTTTTCTATGAA
Downstream sequence
GGTATGTCACTCCAGCCTTCCTAGGGCAGCGTCCCTGTCATTGCTGCCTGCTGGCCCCCAAGACTGAGCTAGGGAGTGTTCCTGGGAATGATGCAAAAAC
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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