Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016201
Fusion event
HBV-SPEN integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
455
End
490
Orient
-
Integrated sequence
TCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGG
Host Sequence
Chromosome
chr1
Cytoband
p36.13
Reference genome
Start
End
16241353/15914858 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-151a-5p ; hsa-mir-877-3p ; hsa-mir-23b-5p ; hsa-mir-769-5p ; hsa-mir-615-3p ; hsa-mir-193b-3p ; hsa-mir-423-3p ; hsa-mir-324-5p ; hsa-mir-331-3p ; hsa-mir-328-3p ; hsa-mir-106b-5p ; hsa-mir-320a ; hsa-mir-186-5p ; hsa-mir-125b-5p ; hsa-mir-196a-5p ; hsa-mir-92a-3p ; hsa-mir-16-5p ; hsa-mir-18a-5p ; hsa-mir-18b-5p ; hsa-mir-214-3p ; hsa-mir-3619-5p ; hsa-mir-4722-5p ; hsa-mir-4735-3p ; hsa-mir-4768-3p ; hsa-mir-6165 ; hsa-mir-761 ; hsa-mir-885-3p
Nearest miRNA
hsa-mir-12136/Upstream/3335800; hsa-mir-101-1/Downstream/944091;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/65201, chr1-CpG: 22/Downstream/19517
Upstream sequence
ttagccaggggtggtggtgcacgcctatagtcccagctactcaggaggctgaggcaggagaatcacttgaacctgggaggcggaggttgcaatgagccca
Downstream sequence
TCATTTCTGTTTGTCACTGGGGACCATGCAATATCAAAAGATAATTTAAAACATATTGCTTTAATCTGTTTTCATAGTTACTCTTATATCTAAAATTTCC
Target sequence
caaagaaaaaaaagaagaagaagaaGCCGTAACAA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.