Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10003308
Fusion event
HBV-RAP1A integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr1
Cytoband
p13.2
Reference genome
End
112258402/111715780 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-337-3p ; hsa-let-7e-5p ; hsa-mir-3591-5p ; hsa-mir-1273e ; hsa-mir-4473 ; hsa-mir-4671-3p ; hsa-mir-636 ; hsa-mir-135a-3p ; hsa-mir-302c-3p ; hsa-mir-512-3p ; hsa-mir-520f-3p ; hsa-mir-4470 ; hsa-mir-759 ; hsa-mir-4761-5p ; hsa-mir-5000-5p ; hsa-mir-4735-3p ; hsa-mir-18b-5p ; hsa-mir-18a-5p ; hsa-mir-551b-5p ; hsa-mir-4799-5p ; hsa-mir-8059 ; hsa-mir-4471 ; hsa-mir-6837-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-6715a-3p ; hsa-mir-5692c ; hsa-mir-5692b ; hsa-mir-6822-5p ; hsa-mir-6750-5p ; hsa-mir-1277-5p ; hsa-mir-10a-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-203a-3p ; hsa-mir-203a-5p ; hsa-mir-1268a ; hsa-mir-1268b ; hsa-mir-1272 ; hsa-mir-340-3p ; hsa-mir-4486 ; hsa-mir-4684-5p ; hsa-mir-548c-3p ; hsa-mir-585-3p ; hsa-mir-6771-3p ; hsa-mir-6827-3p
Nearest miRNA
hsa-mir-101-1/Upstream/2116813; hsa-mir-11399/Downstream/745990;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/95565, chr1-CpG: 163/Downstream/22650
Nearest cancer related gene
RAP1A(TSG, No orient, 0)
Upstream sequence
CTCCTCACTGAAATATTCTTCTTCTTTGAGGTTATAATGTACTTGGAAAAGTTAATACTTATAGAAAATAATGATCTTTATTACCAACTTTATTAAAACA
Downstream sequence
GGCTTGGAACATTTTTCTCCATAGAAGAATAGTAATAAGACATTCTACatttcctggacatggccagtttaaaatattttgccccattacccttgtagat
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.