PTPRR _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019981
Fusion event
HBV-PTPRR integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2013
PubMed ID
24085110
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Host Sequence
Chromosome
chr12
Cytoband
q15
Reference genome
GRCh37/hg19
Start
71213384/70819604 (Hg38)
End
71213573/70819793 (Hg38)
Location type
Intronic
Target gene
PTPRR
miRNAs that regulate target gene
hsa-mir-150-5p
Nearest miRNA
hsa-let-7i/Upstream/1234781; hsa-mir-1178/Downstream/8599464;
Nearest TSS
ENST00000382841/Upstream/30622; ENST00000549015/Downstream/101050;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/209327, chr12-CpG: 104/Downstream/619619
Upstream sequence
GCCCCAGTGATGGAATAGAGAGGAGAGCTGTGCTAGGGGGAGAGGGTGGTGAAAGCCAGTCAGGAAACTTCCACTAGGAATCCCTTCTCCTCCACCAAAC
Downstream sequence
TTATTTGTACAATGGCATTAAATTGTCCAATAATATAAATGTGTACACTTTCTACATCATAGAATAATGTAAAGATATTTTCTGTGTTCAGTCTAAACTA
Target sequence
AGGTGTTTTGGTCTTCATGATATCTAGAAGAGGATTTTAAAGAAAAAGCAGTTTGGGAAGATCAAGGGTAATTTGGACATAGAATGGAAGAATTGGGTGGAATCCTGGAAGGAACAGAATACAGAGACTCAGAAAGGGAGGATGGCCGAGAATACACATTGCCTCTTTATGCATTGCTTTTGGTCAAAC
Reference
Tang, K. W., et al.The landscape of viral expression and host gene fusion and adaptation in human cancer. Nat Commun,2013, 4: 2513.
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