Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015338
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
HBVgp3_Xprotein
Start
1577
Host Sequence
Chromosome
chr5
Cytoband
p15.33
Reference genome
Start
End
1272106/1271991 (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/209017; hsa-mir-10397/Downstream/37319;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1005, chr5-CpG: 20/Downstream/562
Nearest cancer related gene
TERT(OG, No orient, 0)
Upstream sequence
taaccagtcattgacagacctaggacttgaacccaagtcaatgtgagtctgaatcctatgcttcctccaAAGTGCTTGGTCAGAGGTAAGTCATCACAGT
Downstream sequence
AGCAGCTGTCGCAGCCTGGCATGGCCCAGCTCAGATTTCGCCAAGGCACACAGCTCATCATGCCCCCATCACAGCTCATTCCCCCCACTGCCCCCCAGGG
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.