Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015916
Fusion event
HBV-TFCP2 integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1826
Orient
-
Host Sequence
Chromosome
chr12
Cytoband
q13.13
Reference genome
Start
End
51565194/51171411 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-331-3p ; hsa-mir-3941 ; hsa-mir-382-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4719 ; hsa-mir-466 ; hsa-mir-4672 ; hsa-mir-4477b ; hsa-mir-651-3p ; hsa-mir-5687 ; hsa-mir-323b-3p ; hsa-mir-4773 ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-4684-3p ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-2467-3p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-1827 ; hsa-mir-4487 ; hsa-mir-558 ; hsa-mir-3160-3p ; hsa-mir-1247-3p ; hsa-mir-4257 ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-660-5p ; hsa-mir-105-5p ; hsa-mir-7853-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/937199; hsa-let-7i/Downstream/1727478;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/87642, chr12-CpG: 38/Downstream/1486
Nearest cancer related gene
TFCP2(OG, No orient, 0)
Upstream sequence
CAAATAGACATAGAAAATATTGTCACTTAGAGGAGTTTGGGGTACTAGAATGTTCTTCTCTACTGTTAAAGAAGACCACTGTGAAAAAATTTTCAAAAAA
Downstream sequence
ACTTTCCCTCATGAGCAGTTTATAAACTTTCTTTTCCAACAGCTTTTTCTTTTATTGTTCATTGGAAGTGTGCTTATGCCAGCATAATTTTGACAAGTCT
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.