Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016004
Fusion event
HBV-TACC3 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
1614
Orient
+
Host Sequence
Chromosome
chr4
Cytoband
p16.3
Reference genome
Start
End
1737563/1735836 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-744-5p ; hsa-mir-769-3p ; hsa-mir-18a-3p ; hsa-mir-324-3p ; hsa-mir-324-5p ; hsa-mir-149-5p ; hsa-mir-24-3p ; hsa-mir-152-3p ; hsa-mir-425-5p ; hsa-mir-6885-5p ; hsa-mir-328-5p ; hsa-mir-4697-5p ; hsa-mir-4488 ; hsa-mir-1237-5p ; hsa-mir-6816-5p ; hsa-mir-3196 ; hsa-mir-3180-3p ; hsa-mir-6787-5p ; hsa-mir-3180 ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-4749-5p ; hsa-mir-4706 ; hsa-mir-6798-5p
Nearest miRNA
hsa-mir-571/Upstream/1385584; hsa-mir-12113/Downstream/250548;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/417, chr4-CpG: 44/Downstream/27446
Upstream sequence
actcgggaagctgaggcaggagaatagcttgaaccaggcattcagaggtttcagtgagccgagattatgccaccgcactccagcctggctgcagagtgag
Downstream sequence
ATGTGCGCCGGCCCTCCCTCATGCATGAAGCCTTGAGTGTGGGAAGACTGGAGGCTGTTCCTAGGTGTGCTGTCTGCACAGAGGCTTCTAGACCGGGGGG
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.