Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017441
Fusion event
HBV-CCNA2 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1928
End
1783
Integrated sequence
GGATGTGTCTGCGGCGTTTTATCATATTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTATTGGTTCTTCTGGATTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCAACAACAACCAGTACGGGACCATGCAAA
Host Sequence
Chromosome
chr4
Cytoband
q27
Reference genome
End
122742755/121821637 (Hg38)
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-let-7b-5p ; hsa-mir-146a-5p ; hsa-mir-193b-3p ; hsa-mir-132-3p ; hsa-mir-212-3p ; hsa-mir-98-5p ; hsa-mir-197-3p ; hsa-mir-10b-3p ; hsa-mir-130b-3p ; hsa-mir-27b-3p ; hsa-mir-548aw ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-1825 ; hsa-mir-4676-5p ; hsa-mir-575 ; hsa-mir-548e-5p ; hsa-mir-148a-3p ; hsa-mir-152-3p ; hsa-mir-148b-3p ; hsa-mir-4295 ; hsa-mir-130a-3p ; hsa-mir-301b-3p ; hsa-mir-3666 ; hsa-mir-454-3p ; hsa-mir-301a-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-6835-3p ; hsa-mir-29c-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-22-3p
Nearest miRNA
hsa-mir-12113/Upstream/7164746; hsa-mir-1305/Downstream/3685622;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/19997, chr4-CpG: 71/Downstream/1765
Upstream sequence
GCTTGAAGACATTTCTGAAGTCTGCAAGCAGGACAATTCTTTCGTCGAATCTTATCAATGATGCAATCATTTCTTCCAGCACATAAATAGTTGTGTTGCC
Downstream sequence
taaataatttattttttgtagtataaattattttGAAGCAAAGAGTATCATCCATTATTCCTTTCACTTCAAAGATCACCTTGAGATTAAACATTTTCTG
Target sequence
taaataatttattttttgtagtataaattattttGAA
Reference
Bayard, Q., et al. Cyclin A2/E1 activation defines a hepatocellular carcinoma subclass with a rearrangement signature of replication stress. Nat Commun ,2018,9(1): 5235.