Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007030
Fusion event
HBV-TERT integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Not given
Start
1525
End
1826
Orient
-
Host Sequence
Chromosome
chr5
Cytoband
p15.33
Reference genome
Start
End
1295166/1295051 (Hg38)
Orient
-
Location type
Promoter
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/232077; hsa-mir-10397/Downstream/14259;
Nearest CpG islands
chr5-CpG: 485/Target, None/Upstream, None/Downstream
Nearest cancer related gene
TERT(OG, No orient, 0)
Upstream sequence
TGTGAAAGGGTCCACCATTTATTTTACAAGAGGATAATgagggacaacctggagctgtgaaaagagatggttttggaggcaaacctaggtttgaatcttg
Downstream sequence
TCGCGCCGCGAGGAGAgggcggggccgcggaaaggaaggggaggggctgggagggcccggagggggctgggccggggacccgggaggggtcgggacgggg
Reference
Kawai-Kitahata, F., et al. Comprehensive analyses of mutations and hepatitis B virus integration in hepatocellular carcinoma with clinicopathological features. J Gastroenterol ,2016,51(5): 473-486.