HDAC9 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018843
Fusion event
HBV-HDAC9 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1561
Integrated sequence
CTTCTCGGGGTCGCTTGGGACTCTCTCGTCCCCTTCTCCGTCTGCCGTTCCGACCGACCACGGGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCC| |TTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGA
Host Sequence
Chromosome
chr7
Cytoband
p21.1
Reference genome
GRCh37.55
Start
18336987/18297364 (Hg38)
End
18336987/18297364 (Hg38)
Location type
Intron2
Target gene
HDAC9
miRNAs that regulate target gene
hsa-mir-342-3p ; hsa-mir-8485 ; hsa-mir-29a-5p
Nearest miRNA
hsa-mir-1302-6/Upstream/170055; hsa-mir-10399/Downstream/1407994;
Nearest TSS
ENST00000635602/Upstream/6914; ENST00000461409/Downstream/133374;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/209978, chr7-CpG: 34/Downstream/808885
Upstream sequence
ACCTCAGCCCACCCCGCAACAGTCAAGCTTTGGGTCCAAACCAATCTGGCATCTCTAAAATGGAAGCACTGTTTGGAGACAAAGTGGCCAGGCACTGCCG
Downstream sequence
ggtttttgccattaaacggagtggaccaaagaattttgcaccaaTTCTTTGGTCCATGTGTCTGCATTTCTCAGATAGCTGTTGAGTTTGTTTTATTTTT
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