Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10003675
Fusion event
HBV-SF3B1 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
chr2
Cytoband
q33.1
Reference genome
End
198280664/197415940 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-615-3p ; hsa-mir-504-5p ; hsa-mir-423-3p ; hsa-let-7b-5p ; hsa-mir-1260b ; hsa-mir-127-5p ; hsa-mir-539-5p ; hsa-mir-493-5p ; hsa-mir-4639-5p ; hsa-mir-379-5p ; hsa-mir-3529-5p ; hsa-mir-382-5p ; hsa-mir-495-5p ; hsa-mir-365b-5p ; hsa-mir-365a-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-3653-5p ; hsa-mir-325 ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-498 ; hsa-mir-6778-3p ; hsa-mir-2276-3p ; hsa-mir-1304-3p ; hsa-mir-1281 ; hsa-mir-4485-5p ; hsa-mir-4532 ; hsa-mir-1247-3p ; hsa-mir-6890-3p ; hsa-mir-4284 ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-6741-3p
Nearest miRNA
hsa-mir-10b/Upstream/8282829; hsa-mir-1244-1/Downstream/9367294;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/105263, chr2-CpG: 61/Downstream/18580
Upstream sequence
ccaggctggaatgcagcggcatgatcatagctcactgcaacctctacctccggggatcaagggatcctcccacctcagcccccaccaccccccatacccc
Downstream sequence
agtagctgggactacaggcatgcaccactatgcccagctaatttttttttttttttttgtaaagacagggtctccctctgttgcccaagctggtctcaaa
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.