Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10001072
Fusion event
HBV-PATZ1 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
chr22
Cytoband
q12.2
Reference genome
Start
End
31752178/31356192 (Hg38)
Location type
Promoter
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-100-5p ; hsa-mir-942-5p ; hsa-mir-7114-5p ; hsa-mir-4443 ; hsa-mir-516b-5p ; hsa-mir-3191-5p ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-6089 ; hsa-mir-6824-3p ; hsa-mir-6764-3p ; hsa-mir-330-5p ; hsa-mir-326 ; hsa-mir-518c-5p ; hsa-mir-4636 ; hsa-mir-3680-5p ; hsa-mir-29b-3p ; hsa-mir-1285-3p ; hsa-mir-3187-5p ; hsa-mir-3620-3p ; hsa-mir-3914 ; hsa-mir-4731-5p ; hsa-mir-5189-5p ; hsa-mir-5589-5p ; hsa-mir-612 ; hsa-mir-621 ; hsa-mir-6721-5p ; hsa-mir-6776-3p ; hsa-mir-6860 ; hsa-mir-873-5p
Nearest miRNA
hsa-mir-1286/Upstream/196073; hsa-let-7a-3/Downstream/265275;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/8471, chr22-CpG: 69/Downstream/43072
Nearest cancer related gene
PATZ1(OG, No orient, 0)
Upstream sequence
ggaaaatgaggcaaagcagaggaaacgataataaattatccatagtgtctcaccacttaaatagaagtactaaaatgttggtatattctttctttctttc
Downstream sequence
tttttctttctttctttctttctttctttctttttctttctttttttctttctttctttctttctttctctctttcttccttctcctcctcctccttctt
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.