Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008375
Fusion event
HBV-PPP2R2C integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
precore/core protein|Core and e antigen|Polymerase|
Start
2390
Orient
-
Integrated sequence
CAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCC| |TCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGG
Host Sequence
Chromosome
chr4
Cytoband
p16.1
Reference genome
Start
End
6425625/6423898 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-378d-1/Upstream/500570; hsa-mir-12113/Downstream/886552;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/45080, chr4-CpG: 222/Downstream/46550
Nearest cancer related gene
PPP2R2C(TSG, No orient, 0)
Upstream sequence
ATTAAATGACTAAATCCCATCCACAGCATTACCCACAGAACAAGATTGGAGAAAGATTATCCATTAAAGAGAGAGGGCATTGCTATTATGGCTTTTGAAG
Downstream sequence
GTgttagggttagggttagggttagggttagtgttagtgttTCCCTCCTGCACAGACTGATTTCGTCCATTCACTGCCCACCTGGCTGTCCTGGGGCCAA
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.