HNF1A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014614
Fusion event
HBV-HNF1A integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27064257
Virus Sequence
Virus name
HBV
Reference genome
AP011098.1
Start
1198
Orient
+
Integrated sequence
TCGCCAACTTACAAGGCCTTTCTGTGTAAACAATATCTGCACCTTTACCCCGTTGCCCGGCAACGGTCAGGTCTCTGCCAAGTGTTTGCTGACGCAACCC| |CCACTGGATGGGGCTTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGC
Host Sequence
Chromosome
chr12
Cytoband
q24.31
Reference genome
GRCh37/hg19
Start
121439103/121001300 (Hg38)
End
121439103/121001300 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
HNF1A
miRNAs that regulate target gene
hsa-mir-320a ; hsa-mir-15b-5p
Nearest miRNA
hsa-let-7i/Upstream/278034; hsa-mir-3612/Downstream/442973;
Nearest TSS
ENST00000382841/Upstream/4910; ENST00000535928/Downstream/5929;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/22286, chr12-CpG: 21/Downstream/15050
Upstream sequence
CCTGGGCCCTGGGGCCTGTACTGCCTGCTTGGGGGGTGATGAGGGCAGCAGCCAGCCCTGCCTGGAGGACCTGAGCCTGCCGAGCAACCGTGGCCCTTCC
Downstream sequence
TGGACAGCTGTGCCTCGCTCCCCACTCTGCTCTGATGCATCAGAAAGGGAGGGCTCTGAGGCGCCCCAACCCGTGGAGGCTGCTCGGGGTGCACAGGAGG
Reference
Fujimoto, A., et al. Whole-genome mutational landscape and characterization of noncoding and structural mutations in liver cancer. Nat Genet ,2016,48(5): 500-509.
Curate