Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014891
Fusion event
HBV-TRIM3 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
HBVgp1 Polymerase
Start
2658
Orient
-
Integrated sequence
TACACCAAGACATTATCAAAAAATGTGAACAGTTTGTAGGCCCACTCACAGTTAATGAGAAAAGAAGATTGCAATTGATTATGCCTGCCAGGTTTTATCC| |AAAGGTTACCAAATATTTACCATTGGATAAGGGTATTAAACCTTATTATCCAGAACATCTAGTTAATCATTACTTCCAAACTAGACACTATTTACACACT
Host Sequence
Chromosome
chr11
Cytoband
p15.4
Reference genome
Start
End
6470475/6449245 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-210/Upstream/2593104; hsa-let-7a-2/Downstream/785521;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/29743, chr11-CpG: 54/Downstream/7128
Nearest cancer related gene
TRIM3(TSG, No orient, 0)
Upstream sequence
ATATAGGACAGGAAGGAGCCAGAGCTGTCGAATACCTGGGGAAGGAGTGCAGAAAGGAGGGAGAGGCAAGATCAGGCAGATGAGAGTCTGTTTTGGGGGA
Downstream sequence
ACGGGCATATGGGACACACCAGGAAACCGCCCCCTCATGTCATTCCCAGGCCTTACTCACCTGGATGCGGCTGTTGCCCCAGTCAGCCACAATGATGTTT
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.