Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016404
Fusion event
HBV-SIPA1L2 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
1105
End
1140
Orient
-
Integrated sequence
AACTTACAAGGCCTTTCTGTGTAAACAATACCTGAA
Host Sequence
Chromosome
chr1
Cytoband
q42.2
Reference genome
End
232675438/232539692 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-484 ; hsa-mir-543 ; hsa-mir-573 ; hsa-mir-3616-5p ; hsa-mir-7158-3p ; hsa-mir-98-3p ; hsa-let-7f-1-3p ; hsa-let-7b-3p ; hsa-let-7a-3p ; hsa-mir-219a-1-3p ; hsa-mir-4795-5p ; hsa-mir-1284 ; hsa-mir-4666a-3p ; hsa-mir-381-3p ; hsa-mir-300 ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-3140-3p ; hsa-mir-520f-3p ; hsa-mir-302c-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1519733; hsa-mir-1537/Downstream/1084460;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/912288, chr1-CpG: 173/Downstream/89650
Upstream sequence
gtagcatgaacctctagtcccagctactcaagaagctgaagggaagactcacttaagcccagaaggtcgccgttgcagtgagccgtgttcgcaccactgc
Downstream sequence
CAGGCCCACCCTCCAGAACCAGCTAGAGTTGGGATCCCAGCTGCACCCTGTGGCCAGCCTCTTTCTACCACGAGTCTGACGACAGCCCTCTTACTTCAGA
Target sequence
AGCTCTTCTCTCATTCTGTGCTCTCCCCATTCCCC
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.