Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015313
Fusion event
HBV-GLI2 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Region type
HBVgp1_polymerase-2
Start
2403
Host Sequence
Chromosome
chr2
Cytoband
q14.2
Reference genome
End
121585830/120828255 (Hg38)
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/7106887; hsa-mir-10b/Downstream/6595282;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/86253, chr2-CpG: 23/Downstream/39160
Nearest cancer related gene
GLI2(OG, No orient, 0)
Upstream sequence
TCCACCATCGATGACCAGTGTGTCACCCCCTGGTTCAGTGCCCTCTTTATGCATGAGAGCAGCTTGCTGGGCCAAGGCCCCCGGGCCAGGTGGCTTCTCT
Downstream sequence
GAGGAAACGTTCGTTAGTTCTCCCCGCTCTCTCACCAGAGAAAGCACCTGTGAGGCCAGCCTCTTGTCTGAGCCCCTGCCCGGAGACTCCGAGGACATTC
Reference
Khoury, J. D., et al. Landscape of DNA virus associations across human malignant cancers: analysis of 3,775 cases using RNA-Seq. J Virol,2013, 87(16): 8916-8926.