Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015443
Fusion event
HBV-TOM1L2 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
chr17
Cytoband
p11.2
Reference genome
Start
End
17744113/17840799 (Hg38)
Location type
Promoter
Target gene
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-130b-3p ; hsa-mir-26b-5p ; hsa-mir-19b-3p ; hsa-mir-3161 ; hsa-mir-8075 ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-7853-5p ; hsa-mir-105-5p ; hsa-mir-4728-3p ; hsa-mir-513b-3p ; hsa-mir-186-3p ; hsa-mir-5003-5p ; hsa-mir-3714 ; hsa-mir-224-5p ; hsa-mir-548an ; hsa-mir-4446-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-4313 ; hsa-mir-670-5p ; hsa-mir-3943
Nearest miRNA
hsa-mir-1253/Upstream/26868; hsa-mir-10226/Downstream/500015;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/125, chr17-CpG: 73/Downstream/131054
Nearest cancer related gene
TOM1L2(TSG, No orient, 0)
Upstream sequence
ACATTCTGGAGGGCAGGGTCGATTCTGCGGTGAGGCCAGAGCTATTTCCACCTCTCATTCAAACACACCCTACTGAGTCTTCCCAGAGAGAGGTCTGGAA
Downstream sequence
TATCCTTCACTGCTGTGGGAGCCAAGCTGGGACCTGCCCAGGTTATGGCAGAGGGGCCAGGCTGTGGGAAGAGACTGCTCAGAGCCTGAGTCTCCCCTCC
Reference
Li, W., et al. HIVID: an efficient method to detect HBV integration using low coverage sequencing. Genomics,2013, 102(4): 338-344.