Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005907
Fusion event
HBV-chr18 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
2541
Orient
-
Integrated sequence
CTCAATGTTAGTATCCCTTGGACTCATAAGGTGGGAAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTGAGTGGCAAACTCCCTCCT| |TTCCTAACATTCATTTACAGGAGGACATTATTAATAGATGTCAACAATATGTGGGCCCTCTTACAGTTAATGAAAAAAGGAGATTAAAATTAATTATGCC
Host Sequence
Chromosome
chr18
Cytoband
p11.21
Reference genome
Start
End
12701567/12701568 (Hg38)
Orient
-
Location type
PSMG2,intron CEP76,intron PSMG2,promoter
miRNAs that regulate target gene
hsa-mir-100-5p ; hsa-let-7c-5p ; hsa-mir-570-5p ; hsa-mir-595 ; hsa-mir-1225-5p ; hsa-mir-1229-5p ; hsa-mir-548ag ; hsa-mir-548ai ; hsa-mir-548ba ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-5p ; hsa-mir-2052 ; hsa-mir-503-3p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-6504-3p ; hsa-mir-497-3p ; hsa-mir-4438 ; hsa-mir-498 ; hsa-mir-4279 ; hsa-mir-1200 ; hsa-mir-6778-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-4264 ; hsa-mir-1281 ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-544b ; hsa-mir-4324 ; hsa-mir-4485-5p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-622
Nearest miRNA
hsa-mir-3976/Upstream/1046627; hsa-mir-1-2/Downstream/758379;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/42840, chr18-CpG: 110/Downstream/617
Junction sequence
C
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
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).