Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004417
Fusion event
HBV-PTPRT integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr20
Cytoband
q12
Reference genome
Start
End
40954641/42326001 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-331-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-16-5p ; hsa-mir-3928-3p ; hsa-mir-215-5p ; hsa-mir-3149 ; hsa-mir-630 ; hsa-mir-29a-5p ; hsa-mir-186-3p ; hsa-mir-664a-3p ; hsa-mir-5096 ; hsa-mir-197-3p ; hsa-mir-103a-2-5p ; hsa-mir-583 ; hsa-mir-1276 ; hsa-mir-4311 ; hsa-mir-6809-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-4753-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-6832-3p ; hsa-mir-515-3p ; hsa-mir-5581-5p ; hsa-mir-7702 ; hsa-mir-4297 ; hsa-mir-6747-3p ; hsa-mir-4524b-3p ; hsa-mir-3909 ; hsa-mir-4494 ; hsa-mir-4633-3p ; hsa-mir-4738-3p ; hsa-mir-4766-3p ; hsa-mir-4773 ; hsa-mir-499b-5p ; hsa-mir-6500-5p ; hsa-mir-6736-3p ; hsa-mir-6852-3p ; hsa-mir-6874-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/1156923; hsa-mir-1-1/Downstream/2082119;
Nearest CpG islands
Nearest cancer related gene
PTPRT(TSG, No orient, 0)
Upstream sequence
gctcccatttcaaggcccttgctctcgctatccccttccttgaatggtcttcccttggagataggcaacctaaggaaggcttactttttcacctctgcca
Downstream sequence
gggaagtctgtcctgaccactttatttaaaatagcaaccgaaatccacaatatagccaattacactttccctcttaatttttacctaccacacctaacaG
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.