Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004683
Fusion event
HBV-ING4 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
2566
Orient
-
Integrated sequence
ATAAGGTGGGAAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCTAACATTCATTTACAGGAGGA| |CATTATTAATAGATGTCAACAATATGTGGGCCCTCTTACAGTTAATGAAAAAAGGAGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACC
Host Sequence
Chromosome
chr12
Cytoband
p13.31
Reference genome
Start
End
6769179/6660013 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-650 ; hsa-mir-214-3p ; hsa-mir-335-5p ; hsa-mir-1296-3p ; hsa-mir-1343-5p ; hsa-mir-181d-3p ; hsa-mir-2277-3p ; hsa-mir-3065-3p ; hsa-mir-3150a-3p ; hsa-mir-3150b-3p ; hsa-mir-3154 ; hsa-mir-3175 ; hsa-mir-383-3p ; hsa-mir-4434 ; hsa-mir-4481 ; hsa-mir-4516 ; hsa-mir-4745-5p ; hsa-mir-4784 ; hsa-mir-491-5p ; hsa-mir-5187-5p ; hsa-mir-5703 ; hsa-mir-6731-5p ; hsa-mir-6744-5p ; hsa-mir-6757-5p ; hsa-mir-6763-5p ; hsa-mir-6770-5p ; hsa-mir-6825-5p ; hsa-mir-7106-5p ; hsa-mir-7515 ; hsa-mir-765 ; hsa-mir-8085 ; hsa-mir-939-5p
Nearest miRNA
hsa-mir-3649/Upstream/4999633; hsa-let-7i/Downstream/303686;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/12500, chr12-CpG: 27/Downstream/3079
Nearest cancer related gene
ING4(TSG, No orient, 0)
Upstream sequence
ggttgcagcccgggcaaaagagcaagactgtttcaaaaaacaaaaaaattaaaaaaaataaTGTGTAATTAGTTATTTGGTATCTGTCTCCCCAGGCCGA
Downstream sequence
ACAtggctatcatattctctcctgtttccatagtgtttagaattatgacttgcaaagagcaggtactcagtaaatacttgaataaatgcatgaatATTTG
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).