Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015968
Fusion event
HBV-APTX 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
1827
Orient
+
Host Sequence
Chromosome
chr9
Cytoband
p21.1
Reference genome
Start
End
32971338/32971340 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-342-3p ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-5693 ; hsa-mir-6783-3p ; hsa-mir-4279 ; hsa-mir-1343-3p ; hsa-mir-377-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-2276-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-1281 ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-660-3p ; hsa-mir-4485-5p ; hsa-mir-1228-3p ; hsa-mir-6722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-383-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-1304-3p ; hsa-mir-1307-3p ; hsa-mir-4638-5p ; hsa-mir-6741-3p ; hsa-mir-6890-3p ; hsa-mir-891a-3p
Nearest miRNA
hsa-mir-101-2/Upstream/4082385; hsa-let-7a-1/Downstream/137352;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/15060, chr9-CpG: 38/Downstream/29878
Nearby gene
Upstream sequence
TGAGCCTGGGTGAAAAGTCCCTCTGGCTGCTGGGAGGGTCGGGGGCAGCAAGGAGCCAGTGCGGGGATGGGCTGCGGTGGACCGGGCCGGGATCGGGGCC
Downstream sequence
ggcgggcggatcacgaggtcaggagatcgagaccatcctgactaacacagtgaaaccccgtctctactaaaaatacaaaaaattagccaggcatggtggt
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.