Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000527
Fusion event
HBV-chr1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
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
q21.1
Reference genome
End
145277490/146160703 (Hg38)
Location type
Intronic
Fragile sites / regions
miRNAs that regulate target gene
hsa-mir-877-5p ; hsa-mir-452-5p ; hsa-mir-1279 ; hsa-mir-4789-3p ; hsa-mir-8485 ; hsa-mir-3941 ; hsa-mir-190b ; hsa-mir-190a-5p ; hsa-mir-4793-3p ; hsa-mir-3130-3p ; hsa-mir-122-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-188-3p ; hsa-mir-4276 ; hsa-mir-532-3p ; hsa-mir-5190 ; hsa-mir-5094 ; hsa-mir-3174 ; hsa-mir-380-3p ; hsa-mir-411-3p ; hsa-mir-379-3p ; hsa-mir-4495 ; hsa-mir-6887-3p ; hsa-mir-194-5p ; hsa-mir-6826-3p ; hsa-mir-6795-3p
Nearest miRNA
hsa-mir-101-1/Upstream/310058; hsa-mir-1182/Downstream/2173776;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/108120, chr1-CpG: 98/Downstream/67386
Downstream sequence
TGCGAGAGCGCCAGCTATCCTGAGGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCG
Junction sequence
CCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGGGGCCGTTTGGGACTCTACCGTCCCCTTCTTCATGCTGGTGGCGGGGGTGCGTCGGGTCTGCGAGAGCGCCAGCTATCCTGAGGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCG
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.