Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007039
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
2409
End
2701
Orient
+
Host Sequence
Chromosome
chr5
Cytoband
p15.33
Reference genome
Start
End
1276301/1276186 (Hg38)
Orient
-
Location type
Intron
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/213212; hsa-mir-10397/Downstream/33124;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/2800, chr5-CpG: 18/Downstream/1166
Nearest cancer related gene
TERT(OG, No orient, 0)
Upstream sequence
ttttttattttttttgagacggagtcccactctgtctcctaggctggagtgcatggtgcgatctcagctcactgcaacctctgcctccctggttcaattg
Downstream sequence
GTCCCCACCTACCCCACACATAGAAACCAATCCCACAGATCCCCACCTACCCCACGGATGAAAACCAATTCACAGATCTCCACCTACACCACACATGAAA
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.