Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015365
Fusion event
HBV-C2CD2L integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Host Sequence
Chromosome
chr11
Cytoband
q23.3
Reference genome
End
118976122/119105412 (Hg38)
Location type
Promoter
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6818-3p ; hsa-mir-3191-5p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6823-3p ; hsa-mir-2114-3p ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-6728-3p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-6748-3p ; hsa-mir-660-3p ; hsa-mir-1-5p ; hsa-mir-501-5p ; hsa-mir-508-5p ; hsa-mir-3145-5p ; hsa-mir-27a-3p ; hsa-mir-27b-3p
Nearest miRNA
hsa-mir-10392/Upstream/194625; hsa-let-7a-2/Downstream/207538;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/9658, chr11-CpG: 103/Downstream/1756
Upstream sequence
GTGATTCCACATGTTCCATTCCTTTCTGTGTGAGAGAACTTCACCAAACTGCATTCATTCCTGATTTATTTCTCCATTTTCCTCTCCCACCTCTCCCCCA
Downstream sequence
CATCTTTATTCCTTTCTTCCCTGACTGTTACAGCCCCCGTTTCCCTCAGCCCCCCAACCCTGGGAAACAGTCTCCCTTCTGCAGTTCAGCCCCCGGCTCC
Reference
Li, W., et al. HIVID: an efficient method to detect HBV integration using low coverage sequencing. Genomics,2013, 102(4): 338-344.