Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010475
Fusion event
HBV-RUNX2 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
Polymerase|large S protein|middle S protein|
Start
26
Orient
+
Integrated sequence
AATTCCACAACCTTCCACCAAACTCT| |GCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATCGTCAATC
Host Sequence
Chromosome
chr6
Cytoband
p21.1
Reference genome
Start
End
45364247/45396510 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-135b-5p ; hsa-mir-155-5p ; hsa-mir-335-5p ; hsa-mir-203a-3p ; hsa-mir-497-5p ; hsa-mir-195-5p ; hsa-mir-204-5p ; hsa-mir-433-3p ; hsa-mir-338-3p ; hsa-mir-124-3p ; hsa-mir-30d-5p ; hsa-mir-30a-5p ; hsa-mir-505-5p ; hsa-mir-484 ; hsa-mir-30b-5p ; hsa-mir-218-5p ; hsa-mir-23b-3p ; hsa-mir-34c-5p ; hsa-mir-30c-5p ; hsa-mir-205-5p ; hsa-mir-320a ; hsa-mir-135a-5p ; hsa-mir-222-3p ; hsa-mir-221-5p ; hsa-mir-628-3p ; hsa-mir-103a-3p ; hsa-mir-30a-3p ; hsa-mir-376c-3p
Nearest miRNA
hsa-mir-10398/Upstream/198740; hsa-mir-10524/Downstream/6747839;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/17986, chr6-CpG: 60/Downstream/23099
Nearest cancer related gene
RUNX2(TSG, No orient, 0)
Upstream sequence
aaaactaagtctttctgattggtgagcctgggtgcctaaagaaaggaatagagtcccaaaatttatactagaaatcattcttataggagaaactagaaaa
Downstream sequence
tcctcctgcctcagcctcccaaatagctgggactacaggcatgtggtaccatgcccagctaatttttaaatttattgtagagacagggtctcgctatgtt
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.