Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002938
Fusion event
HBV-chr17 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
chr17
Cytoband
q11.2
Reference genome
Start
End
26643906/28316880 (Hg38)
Location type
Promoter
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-99b-3p ; hsa-mir-769-5p ; hsa-mir-193b-3p ; hsa-mir-20a-5p ; hsa-mir-3190-3p ; hsa-mir-4491 ; hsa-mir-4657 ; hsa-mir-5680 ; hsa-mir-6508-5p ; hsa-mir-6833-5p ; hsa-mir-8067 ; hsa-mir-6878-3p ; hsa-mir-6744-3p ; hsa-mir-4757-5p ; hsa-mir-6077 ; hsa-mir-203a-3p ; hsa-mir-517-5p ; hsa-mir-5583-5p ; hsa-mir-3129-3p ; hsa-mir-7844-5p
Nearest miRNA
hsa-mir-1180/Upstream/1022884; hsa-mir-10226/Downstream/43774;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/9436, chr17-CpG: 29/Downstream/1384
Upstream sequence
GGTCCTGGGCAAGGCTGACCTGAGACTTGGGGGACGCCAGAACTGTGTGCCCTCACGATGCTCAGCCACCCATGCTGTTCATCCCCTGCTCCCCACCCAA
Downstream sequence
AGACCTCCACATTTCTCCTACTGTCTCCTTCCAACCTGCTCCTCCTCCTCTCCAGCCAAACCCCTCCACTGTTACCTCCCCCAGTAActggcacttggct
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.