Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10001438
Fusion event
HBV-COL4A1 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
chr13
Cytoband
q34
Reference genome
End
110826062/110173715 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-29c-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-21-5p ; hsa-mir-124-3p ; hsa-mir-218-5p ; hsa-mir-769-3p ; hsa-mir-18a-3p ; hsa-mir-193b-3p ; hsa-mir-125a-5p ; hsa-mir-100-5p ; hsa-mir-99a-5p ; hsa-mir-92a-3p ; hsa-mir-16-5p ; hsa-mir-637 ; hsa-mir-767-5p ; hsa-mir-6808-3p ; hsa-mir-5682 ; hsa-mir-542-3p ; hsa-mir-4504 ; hsa-mir-3185 ; hsa-mir-6871-3p ; hsa-mir-4716-5p ; hsa-mir-562 ; hsa-mir-7-2-3p ; hsa-mir-7-1-3p ; hsa-mir-5688 ; hsa-mir-495-3p ; hsa-mir-758-3p ; hsa-mir-335-3p ; hsa-mir-1305 ; hsa-mir-498 ; hsa-mir-8070 ; hsa-mir-421 ; hsa-mir-505-3p ; hsa-mir-7159-5p ; hsa-mir-4693-5p ; hsa-mir-4709-5p ; hsa-mir-4272 ; hsa-mir-892a ; hsa-mir-4318 ; hsa-mir-140-3p
Nearest miRNA
hsa-mir-1267/Upstream/2642467; hsa-mir-4502/Downstream/167243;
Nearest CpG islands
Upstream sequence
CTAACAGCAGGTATTTTATGTGTCTCTGACTCACCACTGAGAGCTCAGGTTATTTCAGGGGAAGATGCCCTCAGTATTTATGGGATAATAAATACCCCTT
Downstream sequence
CCCTTCTTCCCCTCCACTCATCCCACTCTACTCCACACATCCACATCAGTGTTTAAGTAGTTGCAGGGATGTGCAGTCTAGGGGCCATTCTGTGCCCAGC
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.