Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004365
Fusion event
HBV-GLTP 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
chr12
Cytoband
q24.11
Reference genome
End
110320429/109882624 (Hg38)
Location type
Promoter
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-373-3p ; hsa-mir-484 ; hsa-mir-196a-5p ; hsa-mir-129-5p ; hsa-mir-4465 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-1297 ; hsa-mir-1224-3p ; hsa-mir-5697 ; hsa-mir-6848-3p ; hsa-mir-3187-3p ; hsa-mir-6843-3p ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-640 ; hsa-mir-6131 ; hsa-mir-4755-3p ; hsa-mir-3663-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p
Nearest miRNA
hsa-let-7i/Upstream/49188; hsa-mir-1178/Downstream/1421518;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/1651, chr12-CpG: 63/Downstream/17551
Upstream sequence
aggggaggaaatgggaatgggtaagtgagggcaagagtgagtagggtgataggagttgaggtcagggaggtgggcagaggctggagtatatTGGGGCAGG
Downstream sequence
AAGGGAGTGGTGAAGAGTTTGGAtttttttttttttttttttttttttgagatggagtctcactctgtcgcccaggctggagtacagtggtggtgcaatc
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.