TCF12 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015377
Fusion event
HBV-TCF12 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23867110
Virus Sequence
Virus name
HBV
Reference genome
AB014381.1
Host Sequence
Chromosome
chr15
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
57455366/57163168 (Hg38)
End
57455366/57163168 (Hg38)
Location type
Intronic
Target gene
TCF12
miRNAs that regulate target gene
hsa-mir-204-5p ; hsa-mir-211-5p ; hsa-mir-375 ; hsa-mir-155-5p ; hsa-mir-26b-5p ; hsa-mir-1224-3p ; hsa-mir-548v ; hsa-mir-33a-3p ; hsa-mir-139-5p ; hsa-mir-8485
Nearest miRNA
hsa-mir-10393/Upstream/1790134; hsa-mir-11181/Downstream/2008015;
Nearest TSS
ENST00000557528/Upstream/28852; ENST00000561235/Downstream/50911;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/243361, chr15-CpG: 58/Downstream/143172
Upstream sequence
TACCTCCCTTGCAGCCAATAATTTATTACTTACCGAGTTCATCCTTTAGGAAAATATAGTGTTCATTCGTGGAGTTATTCATGTGTCAGCTTTTAAGTTT
Downstream sequence
gtctcaaaaaaaataaaaaataaaaaaTGTAGTTCACTAATTAAAAAAACTCTACAGGTGAATAGGATGTTCAAAATTGTTTATTGATATGATACATAAT
Reference
Li, W., et al. HIVID: an efficient method to detect HBV integration using low coverage sequencing. Genomics,2013, 102(4): 338-344.
Curate