Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007023
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
1001
End
1216
Orient
+
Host Sequence
Chromosome
chr5
Cytoband
p15.33
Reference genome
Start
End
1296164/1296049 (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/233075; hsa-mir-10397/Downstream/13261;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/194, chr5-CpG: 18/Downstream/38913
Nearest cancer related gene
TERT(OG, No orient, 0)
Upstream sequence
CACAGCGGGCAGCACCAGGACAGGGCAGGCAGCGGCACAGCACGACCCGCAGGGGTGTGGAGCCCCAGAGGCTACTTCGATTCCTAGCCTGCTCTGTGTG
Downstream sequence
TCCCCTCCAGACCTGGGGCCCCGGCACAACCGCAGGACAGCTGAGGACTTCCCAGGAATCCAGACTCCGGGTTGCTCAAGTTTGGATCTAAGGGGCGAGA
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.