Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016282
Fusion event
HBV-GLI2 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
88
End
124
Orient
-
Integrated sequence
ACCCTGTTCTGACTACTGCCTCTCCCTTATCGTCAAT
Host Sequence
Chromosome
chr2
Cytoband
q14.2
Reference genome
End
121642498/120884922 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-31-5p ; hsa-mir-218-5p ; hsa-mir-574-5p ; hsa-mir-5572 ; hsa-mir-4260 ; hsa-mir-450a-2-3p ; hsa-mir-6855-5p ; hsa-mir-3170 ; hsa-mir-6819-5p ; hsa-mir-6812-5p ; hsa-mir-6737-5p ; hsa-mir-6740-5p ; hsa-mir-6867-5p ; hsa-mir-3650 ; hsa-mir-4455 ; hsa-mir-6747-5p ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-4664-5p ; hsa-mir-342-5p ; hsa-mir-4748 ; hsa-mir-4464 ; hsa-mir-466 ; hsa-mir-6793-3p ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-95-5p ; hsa-mir-223-5p ; hsa-mir-541-3p ; hsa-mir-654-5p ; hsa-mir-6769a-5p ; hsa-mir-6769b-5p ; hsa-mir-92a-2-5p
Nearest miRNA
hsa-mir-1285-2/Upstream/7163460; hsa-mir-10b/Downstream/6538615;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/17194, chr2-CpG: 22/Downstream/99608
Nearest cancer related gene
GLI2(OG, No orient, 0)
Upstream sequence
ccaggcactagcaggagaaaggaatggagaattagtgtttaatgggtatagggtttcaattttgcaagacgaaaagagttctggagatggatggtaatga
Downstream sequence
CCATGGCGGGAGCATCATCAGCCGGCCTCACTCCTGCTTTCCCCACTATCCTAACAGCTGGGCTGCTCCTGGCTCCCTCTCCATTCATTTCTTGCCTTCC
Target sequence
CGCGTGGGGGCCCAACATCTGCTCACCCCCTGGGCCGGAAGGTGGGGTTCTTCCTGTAATCTTCTCCCACAGCCCCCACCTCCTACCATTGCTG
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.