Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015144
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-S2/S
Start
14
Orient
+
Integrated sequence
AATTCCACAACCTT| |CCACCAAACTCTGCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCC
Host Sequence
Chromosome
chr5
Cytoband
p15.33
Reference genome
Start
End
1297651/1297536 (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/234562; hsa-mir-10397/Downstream/11774;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1681, chr5-CpG: 18/Downstream/37426
Nearest cancer related gene
TERT(OG, No orient, 0)
Upstream sequence
ttacccattctaaaacagatcatctgtcactctgcagctctttacctggttttaccttttaattatcacatgtaatgaactgatctattatttatttctt
Downstream sequence
TTACAGAAAATATCAAAGGAGGGTAACTCCTGAGTAAAGGGGAAATTGAACTCCATGAACTCCTTACCAGTGGGTGTGACTTGAGCCCAGGGAAGTTTTA
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.