HNF1A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014869
Fusion event
HBV-HNF1A integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634756
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Start
1361
Integrated sequence
CGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATA| |CACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCG
Host Sequence
Chromosome
chr3
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
121439129/121720282 (Hg38)
End
121439129/121720282 (Hg38)
Location type
Intronic
Target gene
HNF1A
miRNAs that regulate target gene
hsa-mir-320a ; hsa-mir-15b-5p
Nearest miRNA
hsa-let-7g/Upstream/670567; hsa-mir-12124/Downstream/1441512;
Nearest TSS
ENST00000440867/Upstream/43252; ENST00000465664/Downstream/9668;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/174186, chr3-CpG: 42/Downstream/28963
Upstream sequence
taagagttaaggcttagggattatggtttgggtgaggggtgaggggtgagggtgagggttagggttaggggttagggttagggttagggttagggttagg
Downstream sequence
AAAGAACCTCATGTGCTTCTAAATCCACACCACCTCCCCAGACAGCTGTTTTCAGCTGTCATTACTTGCAGCCTTCTAGATCATGCTCATTTTTAACTGG
Reference
Fujimoto, A., et al. Whole-genome sequencing of liver cancers identifies etiological influences on mutation patterns and recurrent mutations in chromatin regulators. Nat Genet,2012, 44(7): 760-764.
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