Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015145
Fusion event
HBV-TERT integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
HBVgp1 Polymerase;HBVgp2 pre-S1/pre-S2/S
Start
3153
Orient
+
Integrated sequence
CAGGCTCAGGGCATACTACAAACTTTGCCAGCAAATCCGCCTCCTGCCTCCACCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCTTTGA| |GAAACACTCATCCTCAGGCCATGCAGTGG
Host Sequence
Chromosome
chr5
Cytoband
p15.33
Reference genome
Start
End
1297639/1297524 (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/234550; hsa-mir-10397/Downstream/11786;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1669, chr5-CpG: 18/Downstream/37438
Nearest cancer related gene
TERT(OG, No orient, 0)
Upstream sequence
AGGCGCCGCACGAACGTGGCCAGCGGCAGCACCTCGCGGTAGTGGCTGCGCAGCAGGGAGCGCACGGCTCGGCAGCGGGGAGCGCGCGGCATCGCGGGGG
Downstream sequence
GTCTACGAAGAATTACAGAAAATATCAAAGGAGGGTAACTCCTGAGTAAAGGGGAAATTGAACTCCATGAACTCCTTACCAGTGGGTGTGACTTGAGCCC
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.