Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015339
Fusion event
HBV-TERT 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
HBVgp4_core/Eantigen
Start
2035
Host Sequence
Chromosome
chr5
Cytoband
p15.33
Reference genome
Start
End
1272250/1272135 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-138-5p ; hsa-mir-498 ; hsa-mir-193b-3p ; hsa-mir-335-5p ; hsa-mir-512-5p ; hsa-mir-1207-5p ; hsa-mir-1266-5p ; hsa-mir-1182 ; hsa-mir-181a-5p ; hsa-mir-6776-3p ; hsa-mir-197-3p ; hsa-mir-6740-3p ; hsa-mir-6760-3p ; hsa-mir-532-5p ; hsa-mir-3064-5p ; hsa-mir-422a ; hsa-mir-346 ; hsa-mir-1226-3p ; hsa-mir-1255a ; hsa-mir-1255b-5p ; hsa-mir-143-3p ; hsa-mir-3161 ; hsa-mir-3605-5p ; hsa-mir-3620-3p ; hsa-mir-3682-3p ; hsa-mir-4323 ; hsa-mir-4712-3p ; hsa-mir-4733-3p ; hsa-mir-4758-3p ; hsa-mir-4770 ; hsa-mir-6088 ; hsa-mir-7112-3p
Nearest miRNA
hsa-mir-4635/Upstream/209161; hsa-mir-10397/Downstream/37175;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1149, chr5-CpG: 20/Downstream/418
Nearest cancer related gene
TERT(OG, No orient, 0)
Upstream sequence
aggtgaaggggcaggacgggTGCCCGGGTCCCCAGTCCCTCCGCCACGTGGGAAGCGCGGTCCTGGGCGTCTGTGCCCGCGAATCCACTGGGAGCCCGGC
Downstream sequence
GACCCACTGCTGGGAGTCCGTGCCCAACCCTGCAGGGCAGTGCCCAGACCTGCTCGATGACGACGGCATCCCTCAGCGGGCTGGTCTCCTGCAGGTGAGC
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.