HPD _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019453
Fusion event
HBV-HPD integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr12
Cytoband
q24.31
Reference genome
GRCh37/hg19
Start
122281614/121843708 (Hg38)
End
122281738/121843832 (Hg38)
Location type
Intron2
Fragile sites / regions
FRA12E
Target gene
HPD
Nearest miRNA
hsa-let-7i/Upstream/399356; hsa-mir-3612/Downstream/852075;
Nearest TSS
ENST00000382841/Upstream/38970; ENST00000543848/Downstream/12427;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/4075, chr12-CpG: 60/Downstream/44744
Upstream sequence
attgatgattgatgacttattgtgtgcaagacgttgttcttagcacttttggtggcttctcatttaatactcccagtaattctattttagagataagaaa
Downstream sequence
CTGTTTCAGAGCAAAGCTGAGGTCAGCCTTCGGCCTCCAAGTTCAACTCCCCTAGCCAGGTGGAGGTGCTGGGTCATCAGGATACAGGGTCCCTATCCTA
Target sequence
CCTCCAGGGCATCAATGTTCTCCTTCACCTTGATCTTGGCCGTCTTCAGCTTCTCCCGCAGTTGTTTGTAGTACGTGGAGGGAACAGATAAGAACTCCAGGCCTCTCTCTCTCAAGTGGCGAAT
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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