Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016217
Fusion event
HBV-A1CF integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1750
End
1761
Orient
+
Integrated sequence
GAGATTAGGTTA
Host Sequence
Chromosome
chr10
Cytoband
q11.23
Reference genome
Start
End
52582877/50823117 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-4480 ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-3191-5p ; hsa-mir-1252-5p ; hsa-mir-4653-5p ; hsa-mir-3921 ; hsa-mir-301b-5p ; hsa-mir-301a-5p ; hsa-mir-146a-3p ; hsa-mir-5197-3p ; hsa-mir-5571-5p ; hsa-mir-4428 ; hsa-mir-6855-5p ; hsa-mir-3170 ; hsa-mir-193b-5p ; hsa-mir-3622b-5p ; hsa-mir-6778-3p ; hsa-mir-7155-5p ; hsa-mir-150-5p ; hsa-mir-186-3p ; hsa-mir-1295b-3p ; hsa-mir-3973 ; hsa-mir-1278 ; hsa-mir-8054 ; hsa-mir-548k ; hsa-mir-548av-5p ; hsa-mir-510-3p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-6749-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-6734-3p ; hsa-mir-877-3p ; hsa-mir-5193 ; hsa-mir-6832-3p ; hsa-mir-5088-3p ; hsa-mir-548e-5p ; hsa-mir-6808-3p ; hsa-mir-6844 ; hsa-mir-6820-3p ; hsa-mir-3164 ; hsa-mir-3118 ; hsa-mir-134-5p ; hsa-mir-758-3p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-4452 ; hsa-mir-183-3p ; hsa-mir-526b-5p ; hsa-mir-630 ; hsa-mir-4999-5p ; hsa-mir-4635 ; hsa-mir-4778-3p ; hsa-mir-4742-3p
Nearest miRNA
hsa-mir-1265/Upstream/1837399; hsa-mir-107/Downstream/476456;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/82725, chr10-CpG: 82/Downstream/168079
Upstream sequence
gaggatcgcttgaggtcaggagttccaaaccagcctgggcaacaaagtgagactccatctctacaaaaaatttaaaaattagctgagtgtggtggtgtgt
Downstream sequence
ATTATCTTACACTGTTGGACGATAACTTCCAGATGCATCTGGTTTTGGAAAATTTGATATTTAAAAACTTAGCCTCATAAAACAGACAAGTTAAAAAGTT
Target sequence
ataaatacacatggaataagggaatATTATCAGTTAATTCACATCCCAACTTCTGTCATTTACACCAGTTAGTGGCATTTGAGATGATAATGAATTTAGATTTTCTGAAATTCTGTTTGCAGATATCTGAA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.