Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016323
Fusion event
HBV-PPARGC1A integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1483
End
1505
Orient
+
Integrated sequence
CTCTCGTCCCCTTCTCCGTCTGC
Host Sequence
Chromosome
chr4
Cytoband
p15.2
Reference genome
Start
End
24234865/24233242 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-23a-3p ; hsa-mir-335-5p ; hsa-mir-98-5p ; hsa-mir-421 ; hsa-mir-425-3p ; hsa-mir-378a-5p ; hsa-let-7b-5p ; hsa-mir-130b-3p ; hsa-mir-1277-5p ; hsa-mir-6083 ; hsa-mir-190a-3p ; hsa-mir-4775 ; hsa-mir-3124-3p ; hsa-mir-5011-5p ; hsa-mir-32-3p ; hsa-mir-5585-3p ; hsa-mir-3941 ; hsa-mir-8064 ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-485-3p ; hsa-mir-485-5p ; hsa-mir-130a-3p ; hsa-mir-4311 ; hsa-mir-4524a-3p ; hsa-mir-4524b-3p ; hsa-mir-4668-5p
Nearest miRNA
hsa-mir-12113/Upstream/1717771; hsa-mir-1243/Downstream/286950;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1716731, chr4-CpG: 266/Downstream/236835
Upstream sequence
TTTGGTTATTGATTTGGTAATAAAGCGATCAGTGGGACTCATCTGATTTCTTAACATGTATTCATCACTTATGGAAACACAGCTTTTTTTAATGCCACAA
Downstream sequence
AATCACCCAATAGCCAAGCAAatatgatgtgatatgatgtgatatgTTGGTCTGTTCATGTATCATACATAAGCCATTCAAAATGCACATTGTACTAAAG
Target sequence
AGTCTCACTTAGAAGCAGATGCAAATAAAATGAGATTTGAGAATTTCCTCCACAATTTAAAACAAAGAAATAAAAATATTTTAACA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.