Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016372
Fusion event
HBV-SDC2 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
2031
End
2066
Orient
+
Integrated sequence
TCTCCTGAGCATTGTTCACCTCACCATACTGCACTC
Host Sequence
Chromosome
chr8
Cytoband
q22.1
Reference genome
Start
End
97591742/96579514 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-3202 ; hsa-mir-2467-3p ; hsa-mir-3616-3p ; hsa-mir-4784 ; hsa-mir-3150b-3p ; hsa-mir-3179 ; hsa-mir-6847-5p ; hsa-mir-7843-5p ; hsa-mir-6879-5p ; hsa-mir-6735-5p ; hsa-mir-4632-5p ; hsa-mir-4436b-3p ; hsa-mir-6876-5p ; hsa-mir-4476 ; hsa-mir-577 ; hsa-mir-6859-5p ; hsa-mir-3916 ; hsa-mir-3125 ; hsa-mir-7-2-3p ; hsa-mir-7-1-3p ; hsa-mir-5688 ; hsa-mir-495-3p
Nearest miRNA
hsa-mir-12123/Upstream/1506483; hsa-mir-10400/Downstream/1814131;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/84100, chr8-CpG: 67/Downstream/65432
Upstream sequence
agccatgaagcatttacttttttaagacggagtcttgctgtgtcacctaggctggagtgcagtggcataatcttggctcactgcaacctctgcctcctcg
Downstream sequence
GTGACCACTTGGAACCATGACTGTCTATAAACACAGGCTTAGAATTGATACTTTTCTCTAAGAATAGGCACAGAGAAAATAGTATATTATCTTGCAAATT
Target sequence
TAAAATATTCTGGTATTTGGAAGTTCAGTCAGGAT
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.