Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005371
Fusion event
HBV-SDC2 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1755
Orient
+
Integrated sequence
AAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTA| |GGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGT
Host Sequence
Chromosome
chr8
Cytoband
q22.1
Reference genome
Start
End
97530041/96517813 (Hg38)
Orient
-
Location type
Intron
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/1444817; hsa-mir-10400/Downstream/1875832;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/22434, chr8-CpG: 67/Downstream/127133
Upstream sequence
aaaaaaaaaaaaaGATTCCCTGTGTTTGCTAAAGATGAGGGGTTGGAGTTTTATTGTTGTCGTtgttgatttttttttgtttttgccttatcaggtcctc
Downstream sequence
cacacatGAATCTTAAAATTGTTTTTCCTGTGGCCTTAATTTAGGTGATTAGGGAAATGGACAAGTCAATAGGTAGGAATTAAAGACGTTAACTACACCA
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).