PTPN5 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006506
Fusion event
HBV-PTPN5 integration
Validated
Yes
Detection method
invPCR +Sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
27453547
Virus Sequence
Virus name
HBV
Reference genome
V01460.1
Start
1740
Integrated sequence
TCCGCGTAAAGAGAGGTGCGCCCCGTGGTCGGTCGGAACGGCAGACGGAGAAGGGGACGAGAGAGTCCCAAGCGACCCCGAGAAGGGTCGTCCGCAGGAT| |TCAGCGCCGACGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCTAGCAGCCATGGAAACGATGTATATTTGCGGGATAGGAC
Host Sequence
Chromosome
chr11
Cytoband
p15.1
Reference genome
GRCh38
Start
18736493 (Hg38)
End
18736493 (Hg38)
Location type
Intron
Fragile sites / regions
FRA11C ; FRA11I
Target gene
PTPN5
Nearest miRNA
hsa-mir-210/Upstream/348633; hsa-let-7a-2/Downstream/838817;
Nearest TSS
ENST00000527297/Upstream/5749; ENST00000528646/Downstream/7349;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/14527, chr11-CpG: 123/Downstream/54532
Downstream sequence
TTTATGTCTAAATCCTCA
Junction sequence
GTGNTTACTGNGTGGGAGGATTTATGTCTAAATCCTCA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Mason, W. S., et al. HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant. Gastroenterology,2016, 151(5): 986-998 e984.
Curate