Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000644
Fusion event
HBV-SNX27 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
chr1
Cytoband
q21.3
Reference genome
End
151643728/151671252 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-4999-3p ; hsa-mir-7977 ; hsa-mir-26b-3p ; hsa-mir-4267 ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-665 ; hsa-mir-4768-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-887-5p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-2467-3p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-890
Nearest miRNA
hsa-mir-101-1/Upstream/125361; hsa-mir-1182/Downstream/2018453;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/58523, chr1-CpG: 25/Downstream/50263
Upstream sequence
ttatgccagtaccatgctgtttttgttactatagttctgtagtataatttgaagtcaggtaatatgattcctccagttttgttctttttttttttttttt
Downstream sequence
ccagagacagggtctcgctttgtcacccagaccagagtgcagtggcatgatcacaactcactgcagccttgacctcctgggcacaggctatcctcctgcc
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.