Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019288
Fusion event
HBV-PLS1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Host Sequence
Chromosome
chr3
Cytoband
q23
Reference genome
End
142416273/142697431 (Hg38)
Location type
Intron11
Target gene
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-320a ; hsa-mir-186-5p ; hsa-mir-17-5p ; hsa-mir-16-1-3p ; hsa-mir-137 ; hsa-mir-142-5p ; hsa-mir-144-3p ; hsa-mir-153-5p ; hsa-mir-577 ; hsa-mir-3609 ; hsa-mir-548ah-5p ; hsa-mir-4709-5p ; hsa-mir-5003-5p ; hsa-mir-5590-3p ; hsa-mir-744-3p ; hsa-mir-377-3p ; hsa-mir-4684-3p ; hsa-mir-216b-3p ; hsa-mir-4796-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-106a-5p ; hsa-mir-1178-3p
Nearest miRNA
hsa-let-7g/Upstream/8259436; hsa-mir-1224/Downstream/8868445;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/100617, chr3-CpG: 94/Downstream/26572
Upstream sequence
AAATTGATGATTATAATTTTTAAGGATTGAAAATGttttataattttacaaaataaataaaaattaaaGACTTTAACTAAATCAACTTGTTAAGGTACTA
Downstream sequence
ACTCCCCTTTTCCTGACCTCTTTCTTTACCTAATAGAGGTAATTGCTATTAACTGTCCTTAGCATATATAGGTACATAAATACATTTGACTCTAAATttt
Target sequence
TAATACAGGAACTTATTCTTACTGTACAAGTTTTAGGAAGTATGTAAGTATATGGAATAAAATAAAACATTCCACCCTTACTCTCTCAT
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.