Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10003060
Fusion event
HBV-SEL1L3 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
chr4
Cytoband
p15.2
Reference genome
Start
End
25798564/25796942 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-130b-3p ; hsa-mir-19b-3p ; hsa-mir-93-3p ; hsa-let-7a-5p ; hsa-let-7g-3p ; hsa-let-7a-2-3p ; hsa-mir-486-5p ; hsa-mir-339-5p ; hsa-mir-6866-3p ; hsa-mir-188-5p ; hsa-mir-4789-3p ; hsa-mir-8485 ; hsa-mir-520f-5p ; hsa-mir-6780a-3p ; hsa-mir-6881-3p ; hsa-mir-7111-3p ; hsa-mir-1236-3p ; hsa-mir-877-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183
Nearest miRNA
hsa-mir-12113/Upstream/1276652; hsa-mir-1243/Downstream/3022640;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/120432, chr4-CpG: 123/Downstream/65196
Upstream sequence
ACATAACTACATCTTGAAATGTAAGTGCAGAAATGTATACTTTCAGTAAAAGAGTCACAAGACAATACTACTTTGGCAGATACTTTAATATTTCCTTTTG
Downstream sequence
AAGAAAGAAGAAagagggagagagaagaaggggtaggaagaggaaagagagaggaagagaggaaaaggagagaggaaaagACAGGGGGAATAGACAGGTA
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.