PTPRR _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006519
Fusion event
HBV-PTPRR 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
1750
Integrated sequence
GAGAGGTGCGCCCCGTGGTCGGTCGGAACGGCAGACGGAGAAGGGGACGAGAGAGTCCCAAGCGACCCCGAGAAGGGTCGTCCGCAGGATTCAGCGCCGA| |CGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCTAGCAGCCATGGAAACGATGTATATTTGCGGGATAGGACAACAGAGTTA
Host Sequence
Chromosome
chr12
Cytoband
q15
Reference genome
GRCh38
Start
70661649 (Hg38)
End
70661649 (Hg38)
Location type
Intron
Target gene
PTPRR
miRNAs that regulate target gene
hsa-mir-150-5p
Nearest miRNA
hsa-let-7i/Upstream/1076826; hsa-mir-1178/Downstream/8757608;
Nearest TSS
ENST00000382841/Upstream/24209; ENST00000549015/Downstream/2723;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/51372, chr12-CpG: 104/Downstream/777763
Downstream sequence
CCAAACCCAGCACGGGTGAGGG
Junction sequence
AGTGGGAGGAGTTGGGGGAGCCAAACCCAGCACGGGTGAGGG
* 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